diff --git a/.Rbuildignore b/.Rbuildignore index 1264bff9265..f4f72a79998 100644 --- a/.Rbuildignore +++ b/.Rbuildignore @@ -63,11 +63,12 @@ ^src/*\.gcda$ ^src/*\.gcno$ ^R/release\.R$ -^BRANCHES\.md$ -^scripts$ -^\.claude$ ^man/dot-igraph.progress\.Rd$ ^man/dot-igraph.status\.Rd$ ^man/dot-extract_constructor_and_modifiers\.Rd$ ^man/dot-apply_modifiers\.Rd$ ^man/handle_vertex_type_arg\.Rd$ +^BRANCHES\.md$ +^scripts$ +^\.claude$ +^lifecycle$ diff --git a/.gitignore b/.gitignore index 0fe829881b4..28f195c81dc 100644 --- a/.gitignore +++ b/.gitignore @@ -30,3 +30,4 @@ cran /_codeql_detected_source_root /tests/testthat/_problems/ .ccache/ +lifecycle diff --git a/NAMESPACE b/NAMESPACE index 5fc033b748a..9a426a10c28 100644 --- a/NAMESPACE +++ b/NAMESPACE @@ -376,7 +376,6 @@ export(get.adjlist) export(get.all.shortest.paths) export(get.data.frame) export(get.diameter) -export(get.edge) export(get.edge.attribute) export(get.edge.ids) export(get.edgelist) @@ -610,7 +609,6 @@ export(layout.fruchterman.reingold.grid) export(layout.gem) export(layout.graphopt) export(layout.grid) -export(layout.grid.3d) export(layout.kamada.kawai) export(layout.lgl) export(layout.mds) diff --git a/NEWS.md b/NEWS.md index fdb48b31656..07f8ebd4528 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,48 +1,327 @@ -# igraph 2.3.1.9003 - -- Ci: Unify fledge.yaml across cynkratemplate and fledge (#86). - - -# igraph 2.3.1.9002 - -## Chore - -- Add ccache to `.gitignore` and `.Rbuildignore`. - -## Continuous integration - -- Create snapshot update PR against correct branch. - -- Add reference to `/apply-patch` workflow in commit message. - -- Clarify rationale for not deploying on schedule. - -- Really deploy pkgdown only on push. - -- Disable vendoring workflow to avoid noise. - -- Only run fledge on pushes to main. - -- Tweak fledge workflow and ccache action. - -- Cosmetics. - -- Bump action versions. - -- Install clang-format-21. - -- Align fledge workflow. - -- Harmonize. - -## Uncategorized - -- Merge branch 'krlmlr-main'. +# igraph 2.3.1.9001 +## Deprecated and defunct + +- `igraph.version(()` is now deprecated with a warning instead of a message. +- `permute.vertices(()` is now deprecated with a warning instead of a message. +- `automorphisms(()` is now deprecated with a warning instead of a message. +- `tkplot.setcoords(()` is now deprecated with a warning instead of a message. +- `tkplot.rotate(()` is now deprecated with a warning instead of a message. +- `tkplot.reshape(()` is now deprecated with a warning instead of a message. +- `tkplot.off(()` is now deprecated with a warning instead of a message. +- `tkplot.getcoords(()` is now deprecated with a warning instead of a message. +- `tkplot.fit.to.screen(()` is now deprecated with a warning instead of a message. +- `tkplot.close(()` is now deprecated with a warning instead of a message. +- `tkplot.center(()` is now deprecated with a warning instead of a message. +- `tkplot.canvas(()` is now deprecated with a warning instead of a message. +- `are.connected(()` is now deprecated with a warning instead of a message. +- `get.shortest.paths(()` is now deprecated with a warning instead of a message. +- `get.diameter(()` is now deprecated with a warning instead of a message. +- `unfold.tree(()` is now deprecated with a warning instead of a message. +- `topological.sort(()` is now deprecated with a warning instead of a message. +- `shortest.paths(()` is now deprecated with a warning instead of a message. +- `neighborhood.size(()` is now deprecated with a warning instead of a message. +- `is.mutual(()` is now deprecated with a warning instead of a message. +- `is.multiple(()` is now deprecated with a warning instead of a message. +- `is.matching(()` is now deprecated with a warning instead of a message. +- `is.loop(()` is now deprecated with a warning instead of a message. +- `is.connected(()` is now deprecated with a warning instead of a message. +- `induced.subgraph(()` is now deprecated with a warning instead of a message. +- `has.multiple(()` is now deprecated with a warning instead of a message. +- `graph.neighborhood(()` is now deprecated with a warning instead of a message. +- `graph.laplacian(()` is now deprecated with a warning instead of a message. +- `graph.knn(()` is now deprecated with a warning instead of a message. +- `graph.dfs(()` is now deprecated with a warning instead of a message. +- `graph.density(()` is now deprecated with a warning instead of a message. +- `graph.coreness(()` is now deprecated with a warning instead of a message. +- `graph.bfs(()` is now deprecated with a warning instead of a message. +- `farthest.nodes(()` is now deprecated with a warning instead of a message. +- `count.multiple(()` is now deprecated with a warning instead of a message. +- `clusters(()` is now deprecated with a warning instead of a message. +- `average.path.length(()` is now deprecated with a warning instead of a message. +- `bfs(()` is now defunct (errors instead of warning). +- `dfs(()` is now defunct (errors instead of warning). +- `get.stochastic(()` is now deprecated with a warning instead of a message. +- `is.simple(()` is now deprecated with a warning instead of a message. +- `igraph.shape.noplot(()` is now deprecated with a warning instead of a message. +- `igraph.shape.noclip(()` is now deprecated with a warning instead of a message. +- `vertex.shapes(()` is now deprecated with a warning instead of a message. +- `add.vertex.shape(()` is now deprecated with a warning instead of a message. +- `path.length.hist(()` is now deprecated with a warning instead of a message. +- `is.dag(()` is now deprecated with a warning instead of a message. +- `igraph.options(()` is now deprecated with a warning instead of a message. +- `getIgraphOpt(()` is now deprecated with a warning instead of a message. +- `running.mean(()` is now deprecated with a warning instead of a message. +- `igraph.sample(()` is now deprecated with a warning instead of a message. +- `convex.hull(()` is now deprecated with a warning instead of a message. +- `graph.intersection(()` is now deprecated with a warning instead of a message. +- `graph.union(()` is now deprecated with a warning instead of a message. +- `graph.difference(()` is now deprecated with a warning instead of a message. +- `graph.compose(()` is now deprecated with a warning instead of a message. +- `graph.complementer(()` is now deprecated with a warning instead of a message. +- `triad.census(()` is now deprecated with a warning instead of a message. +- `graph.motifs.no(()` is now deprecated with a warning instead of a message. +- `graph.motifs.est(()` is now deprecated with a warning instead of a message. +- `graph.motifs(()` is now deprecated with a warning instead of a message. +- `dyad.census(()` is now deprecated with a warning instead of a message. +- `minimum.spanning.tree(()` is now deprecated with a warning instead of a message. +- `graph()` is now deprecated with a warning instead of a message. +- `graph.famous()` is now deprecated with a warning instead of a message. +- `line.graph()` is now deprecated with a warning instead of a message. +- `graph.ring()` is now deprecated with a warning instead of a message. +- `graph.tree()` is now deprecated with a warning instead of a message. +- `graph.star()` is now deprecated with a warning instead of a message. +- `graph.lcf()` is now deprecated with a warning instead of a message. +- `graph.lattice()` is now deprecated with a warning instead of a message. +- `graph.lattice()` is now deprecated with a warning instead of a message. +- `graph.kautz()` is now deprecated with a warning instead of a message. +- `graph.full.citation()` is now deprecated with a warning instead of a message. +- `graph.full.bipartite()` is now deprecated with a warning instead of a message. +- `graph.full()` is now deprecated with a warning instead of a message. +- `graph.formula()` is now deprecated with a warning instead of a message. +- `graph.extended.chordal.ring()` is now deprecated with a warning instead of a message. +- `graph.empty()` is now deprecated with a warning instead of a message. +- `graph.de.bruijn()` is now deprecated with a warning instead of a message. +- `graph.bipartite()` is now deprecated with a warning instead of a message. +- `graph.atlas()` is now deprecated with a warning instead of a message. +- `graph_()` is now deprecated with a warning instead of a message. +- `make_lattice()` is now deprecated with a warning instead of a message. +- `layout.grid.3d()` has been removed. +- `piecewise.layout()` is now deprecated with a warning instead of a message. +- `layout.sugiyama()` is now deprecated with a warning instead of a message. +- `layout.star()` is now deprecated with a warning instead of a message. +- `layout.norm()` is now deprecated with a warning instead of a message. +- `layout.merge()` is now deprecated with a warning instead of a message. +- `layout.mds()` is now deprecated with a warning instead of a message. +- `layout.grid()` is now deprecated with a warning instead of a message. +- `layout.graphopt()` is now deprecated with a warning instead of a message. +- `layout.gem()` is now deprecated with a warning instead of a message. +- `layout.davidson.harel()` is now deprecated with a warning instead of a message. +- `layout.bipartite()` is now deprecated with a warning instead of a message. +- `layout.auto()` is now deprecated with a warning instead of a message. +- `layout.reingold.tilford()` is now deprecated with a warning instead of a message. +- `layout.circle()` is now deprecated with a warning instead of a message. +- `layout.sphere()` is now deprecated with a warning instead of a message. +- `layout.random()` is now deprecated with a warning instead of a message. +- `layout.fruchterman.reingold()` is now deprecated with a warning instead of a message. +- `layout.kamada.kawai()` is now deprecated with a warning instead of a message. +- `layout.lgl()` is now deprecated with a warning instead of a message. +- `layout_with_mds()` is now deprecated with a warning instead of a message. +- `layout.spring()` is now defunct (errors instead of warning). +- `layout.svd()` is now defunct (errors instead of warning). +- `layout.fruchterman.reingold.grid()` is now defunct (errors instead of warning). +- `layout.drl()` is now deprecated with a warning instead of a message. +- `nei()` has been removed. +- `innei()` has been removed. +- `outnei()` has been removed. +- `inc()` has been removed. +- `adj()` has been removed. +- `from()` has been removed. +- `to()` has been removed. +- `adj()` has been removed. +- `inc()` has been removed. +- `from()` has been removed. +- `to()` has been removed. +- `is.directed()` is now deprecated with a warning instead of a message. +- `delete.vertices()` is now deprecated with a warning instead of a message. +- `delete.edges()` is now deprecated with a warning instead of a message. +- `add.vertices()` is now deprecated with a warning instead of a message. +- `add.edges()` is now deprecated with a warning instead of a message. +- `get_edge_ids()` is now defunct (errors instead of warning). +- `get.edge.ids()` is now deprecated with a warning instead of a message. +- `get.edge.ids()` is now deprecated with a warning instead of a message. +- `graph.incidence()` is now deprecated with a warning instead of a message. +- `graph_from_incidence_matrix()` is now deprecated with a warning instead of a message. +- `graph_from_incidence_matrix()` is now deprecated with a warning instead of a message. +- `hrg.predict()` is now deprecated with a warning instead of a message. +- `hrg.fit()` is now deprecated with a warning instead of a message. +- `hrg.game()` is now deprecated with a warning instead of a message. +- `hrg.dendrogram()` is now deprecated with a warning instead of a message. +- `hrg.create()` is now deprecated with a warning instead of a message. +- `hrg.consensus()` is now deprecated with a warning instead of a message. +- `graphlets.project()` is now deprecated with a warning instead of a message. +- `graphlets.candidate.basis()` is now deprecated with a warning instead of a message. +- `watts.strogatz.game()` is now deprecated with a warning instead of a message. +- `static.power.law.game()` is now deprecated with a warning instead of a message. +- `static.fitness.game()` is now deprecated with a warning instead of a message. +- `sbm.game()` is now deprecated with a warning instead of a message. +- `preference.game()` is now deprecated with a warning instead of a message. +- `lastcit.game()` is now deprecated with a warning instead of a message. +- `k.regular.game()` is now deprecated with a warning instead of a message. +- `interconnected.islands.game()` is now deprecated with a warning instead of a message. +- `grg.game()` is now deprecated with a warning instead of a message. +- `growing.random.game()` is now deprecated with a warning instead of a message. +- `forest.fire.game()` is now deprecated with a warning instead of a message. +- `establishment.game()` is now deprecated with a warning instead of a message. +- `degree.sequence.game()` is now deprecated with a warning instead of a message. +- `connect.neighborhood()` is now deprecated with a warning instead of a message. +- `citing.cited.type.game()` is now deprecated with a warning instead of a message. +- `cited.type.game()` is now deprecated with a warning instead of a message. +- `callaway.traits.game()` is now deprecated with a warning instead of a message. +- `bipartite.random.game()` is now defunct (errors instead of warning). +- `barabasi.game()` is now deprecated with a warning instead of a message. +- `ba.game()` is now deprecated with a warning instead of a message. +- `asymmetric.preference.game()` is now deprecated with a warning instead of a message. +- `aging.barabasi.game()` is now deprecated with a warning instead of a message. +- `aging.ba.game()` is now deprecated with a warning instead of a message. +- `aging.prefatt.game()` is now deprecated with a warning instead of a message. +- `erdos.renyi.game()` is now deprecated with a warning instead of a message. +- `erdos.renyi.game()` is now deprecated with a warning instead of a message. +- `random.graph.game()` is now deprecated with a warning instead of a message. +- `random.graph.game()` is now deprecated with a warning instead of a message. +- `sample_degseq()` is now defunct (errors instead of warning). +- `sample_degseq()` is now defunct (errors instead of warning). +- `sample_degseq()` is now defunct (errors instead of warning). +- `sample_bipartite()` is now deprecated with a warning instead of a message. +- `sample_bipartite()` is now deprecated with a warning instead of a message. +- `bipartite()` is now deprecated with a warning instead of a message. +- `bipartite()` is now deprecated with a warning instead of a message. +- `write.graph()` is now deprecated with a warning instead of a message. +- `read.graph()` is now deprecated with a warning instead of a message. +- `graph.graphdb()` is now deprecated with a warning instead of a message. +- `vertex.disjoint.paths()` is now deprecated with a warning instead of a message. +- `vertex.connectivity()` is now deprecated with a warning instead of a message. +- `stMincuts()` is now deprecated with a warning instead of a message. +- `stCuts()` is now deprecated with a warning instead of a message. +- `minimum.size.separators()` is now deprecated with a warning instead of a message. +- `minimal.st.separators()` is now deprecated with a warning instead of a message. +- `is.separator()` is now deprecated with a warning instead of a message. +- `is.minimal.separator()` is now deprecated with a warning instead of a message. +- `graph.mincut()` is now deprecated with a warning instead of a message. +- `graph.maxflow()` is now deprecated with a warning instead of a message. +- `graph.adhesion()` is now deprecated with a warning instead of a message. +- `edge.disjoint.paths()` is now deprecated with a warning instead of a message. +- `edge.connectivity()` is now deprecated with a warning instead of a message. +- `dominator.tree()` is now deprecated with a warning instead of a message. +- `power.law.fit()` is now deprecated with a warning instead of a message. +- `is.graphical.degree.sequence()` is now deprecated with a warning instead of a message. +- `is.degree.sequence()` is now deprecated with a warning instead of a message. +- `is.chordal()` is now deprecated with a warning instead of a message. +- `igraph.to.graphNEL()` is now deprecated with a warning instead of a message. +- `igraph.from.graphNEL()` is now deprecated with a warning instead of a message. +- `graph.adjlist()` is now deprecated with a warning instead of a message. +- `get.incidence()` is now deprecated with a warning instead of a message. +- `get.edgelist()` is now deprecated with a warning instead of a message. +- `get.data.frame()` is now deprecated with a warning instead of a message. +- `get.adjacency()` is now deprecated with a warning instead of a message. +- `get.adjlist()` is now deprecated with a warning instead of a message. +- `get.adjedgelist()` is now deprecated with a warning instead of a message. +- `get.adjacency.dense()` is now deprecated with a warning instead of a message. +- `as_adj()` is now deprecated with a warning instead of a message. +- `as_incidence_matrix()` is now deprecated with a warning instead of a message. +- `as.directed()` is now deprecated with a warning instead of a message. +- `as.undirected()` is now deprecated with a warning instead of a message. +- `graph.edgelist()` is now deprecated with a warning instead of a message. +- `graph.data.frame()` is now deprecated with a warning instead of a message. +- `igraph.console()` is now deprecated with a warning instead of a message. +- `no.clusters()` is now deprecated with a warning instead of a message. +- `decompose.graph()` is now deprecated with a warning instead of a message. +- `cluster.distribution()` is now deprecated with a warning instead of a message. +- `biconnected.components()` is now deprecated with a warning instead of a message. +- `articulation.points()` is now deprecated with a warning instead of a message. +- `create.communities()` is now deprecated with a warning instead of a message. +- `walktrap.community()` is now deprecated with a warning instead of a message. +- `spinglass.community()` is now deprecated with a warning instead of a message. +- `showtrace()` is now deprecated with a warning instead of a message. +- `optimal.community()` is now deprecated with a warning instead of a message. +- `multilevel.community()` is now deprecated with a warning instead of a message. +- `mod.matrix()` is now deprecated with a warning instead of a message. +- `leading.eigenvector.community()` is now deprecated with a warning instead of a message. +- `label.propagation.community()` is now deprecated with a warning instead of a message. +- `is.hierarchical()` is now deprecated with a warning instead of a message. +- `infomap.community()` is now deprecated with a warning instead of a message. +- `fastgreedy.community()` is now deprecated with a warning instead of a message. +- `edge.betweenness.community()` is now deprecated with a warning instead of a message. +- `dendPlot()` is now deprecated with a warning instead of a message. +- `cutat()` is now deprecated with a warning instead of a message. +- `contract.vertices()` is now deprecated with a warning instead of a message. +- `code.length()` is now deprecated with a warning instead of a message. +- `modularity_matrix()` is now defunct (errors instead of warning). +- `cluster_leiden()` is now deprecated with a warning instead of a message. +- `cluster_leading_eigen()` is now deprecated with a warning instead of a message. +- `cluster_label_prop()` is now deprecated with a warning instead of a message. +- `exportPajek()` is now deprecated with a warning instead of a message. +- `plotHierarchy()` is now deprecated with a warning instead of a message. +- `maxcohesion()` is now deprecated with a warning instead of a message. +- `graph.cohesion()` is now deprecated with a warning instead of a message. +- `cohesive.blocks()` is now deprecated with a warning instead of a message. +- `blockGraphs()` is now deprecated with a warning instead of a message. +- `maximal.independent.vertex.sets()` is now deprecated with a warning instead of a message. +- `maximal.cliques.count()` is now deprecated with a warning instead of a message. +- `maximal.cliques()` is now deprecated with a warning instead of a message. +- `largest.independent.vertex.sets()` is now deprecated with a warning instead of a message. +- `largest.cliques()` is now deprecated with a warning instead of a message. +- `independent.vertex.sets()` is now deprecated with a warning instead of a message. +- `independence.number()` is now deprecated with a warning instead of a message. +- `clique.number()` is now deprecated with a warning instead of a message. +- `maximal_ivs()` is now deprecated with a warning instead of a message. +- `centralize.scores()` is now deprecated with a warning instead of a message. +- `centralization.evcent.tmax()` is now deprecated with a warning instead of a message. +- `centralization.evcent()` is now deprecated with a warning instead of a message. +- `centralization.degree.tmax()` is now deprecated with a warning instead of a message. +- `centralization.degree()` is now deprecated with a warning instead of a message. +- `centralization.closeness.tmax()` is now deprecated with a warning instead of a message. +- `centralization.closeness()` is now deprecated with a warning instead of a message. +- `centralization.betweenness.tmax()` is now deprecated with a warning instead of a message. +- `centralization.betweenness()` is now deprecated with a warning instead of a message. +- `centr_degree_tmax()` is now defunct (errors instead of warning). +- `centr_eigen()` is now deprecated with a warning instead of a message. +- `centr_eigen_tmax()` is now deprecated with a warning instead of a message. +- `subgraph.centrality()` is now deprecated with a warning instead of a message. +- `page.rank()` is now deprecated with a warning instead of a message. +- `hub.score()` is now defunct (errors instead of warning). +- `authority.score()` is now defunct (errors instead of warning). +- `graph.strength()` is now deprecated with a warning instead of a message. +- `graph.eigen()` is now deprecated with a warning instead of a message. +- `graph.diversity()` is now deprecated with a warning instead of a message. +- `evcent()` is now deprecated with a warning instead of a message. +- `edge.betweenness()` is now deprecated with a warning instead of a message. +- `bonpow()` is now deprecated with a warning instead of a message. +- `alpha.centrality()` is now deprecated with a warning instead of a message. +- `estimate_betweenness()` is now deprecated with a warning instead of a message. +- `estimate_edge_betweenness()` is now deprecated with a warning instead of a message. +- `estimate_closeness()` is now deprecated with a warning instead of a message. +- `arpack()` is now deprecated with a warning instead of a message. +- `spectrum()` is now deprecated with a warning instead of a message. +- `eigen_centrality()` is now deprecated with a warning instead of a message. +- `eigen_centrality()` is now deprecated with a warning instead of a message. +- `eigen_centrality()` is now defunct (errors instead of warning). +- `authority_score()` is now deprecated with a warning instead of a message. +- `arpack_defaults()` is now deprecated with a warning instead of a message. +- `hub_score()` is now deprecated with a warning instead of a message. +- `arpack_defaults()` is now deprecated with a warning instead of a message. +- `bipartite.projection.size()` is now deprecated with a warning instead of a message. +- `bipartite.projection()` is now deprecated with a warning instead of a message. +- `bipartite.mapping()` is now deprecated with a warning instead of a message. +- `get.edge()` has been removed. +- `is.igraph()` is now deprecated with a warning instead of a message. +- `set.vertex.attribute()` is now deprecated with a warning instead of a message. +- `set.graph.attribute()` is now deprecated with a warning instead of a message. +- `set.edge.attribute()` is now deprecated with a warning instead of a message. +- `remove.vertex.attribute()` is now deprecated with a warning instead of a message. +- `remove.graph.attribute()` is now deprecated with a warning instead of a message. +- `remove.edge.attribute()` is now deprecated with a warning instead of a message. +- `list.vertex.attributes()` is now deprecated with a warning instead of a message. +- `list.graph.attributes()` is now deprecated with a warning instead of a message. +- `list.edge.attributes()` is now deprecated with a warning instead of a message. +- `is.weighted()` is now deprecated with a warning instead of a message. +- `is.named()` is now deprecated with a warning instead of a message. +- `is.bipartite()` is now deprecated with a warning instead of a message. +- `get.vertex.attribute()` is now deprecated with a warning instead of a message. +- `get.graph.attribute()` is now deprecated with a warning instead of a message. +- `get.edge.attribute()` is now deprecated with a warning instead of a message. +- `assortativity.nominal()` is now deprecated with a warning instead of a message. +- `assortativity.degree()` is now deprecated with a warning instead of a message. +- `assortativity()` is now deprecated with a warning instead of a message. +- `assortativity()` is now deprecated with a warning instead of a message. +- `assortativity()` is now deprecated with a warning instead of a message. +- `ape::as.phylo()` is now deprecated with a warning instead of a message. +- `graph.adjacency()` is now deprecated with a warning instead of a message. +- `graph_from_adjacency_matrix()` is now deprecated with a warning instead of a message. +- `graph_from_adjacency_matrix()` is now deprecated with a warning instead of a message. -# igraph 2.3.1.9001 ## Chore diff --git a/R/adjacency.R b/R/adjacency.R index 65b4eb21411..f1424f964e4 100644 --- a/R/adjacency.R +++ b/R/adjacency.R @@ -17,7 +17,7 @@ graph.adjacency <- function( add.rownames = NA ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "graph.adjacency()", "graph_from_adjacency_matrix()" @@ -293,7 +293,7 @@ graph_from_adjacency_matrix <- function( ensure_no_na(adjmatrix, "adjacency matrix", mode) if (!is.matrix(adjmatrix) && !inherits(adjmatrix, "Matrix")) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "graph_from_adjacency_matrix(adjmatrix = 'must be a matrix')" ) @@ -302,7 +302,7 @@ graph_from_adjacency_matrix <- function( if (mode == "undirected") { if (!is_symmetric(adjmatrix)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "graph_from_adjacency_matrix(adjmatrix = 'must be symmetric with mode = \"undirected\"')", details = 'Use mode = "max" to achieve the original behavior.' diff --git a/R/as_phylo.R b/R/as_phylo.R index c33615d8db4..03e8b21e0a4 100644 --- a/R/as_phylo.R +++ b/R/as_phylo.R @@ -10,7 +10,7 @@ #' @inheritParams ape::as.phylo #' @keywords internal as_phylo <- function(x, ...) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.5.0", "ape::as.phylo()" ) diff --git a/R/assortativity.R b/R/assortativity.R index 5a1b7d2055a..074fa421b35 100644 --- a/R/assortativity.R +++ b/R/assortativity.R @@ -15,7 +15,7 @@ assortativity.nominal <- function( normalized = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "assortativity.nominal()", "assortativity_nominal()" @@ -40,7 +40,7 @@ assortativity.nominal <- function( #' @export assortativity.degree <- function(graph, directed = TRUE) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "assortativity.degree()", "assortativity_degree()" @@ -171,7 +171,7 @@ assortativity <- function( types2 = NULL ) { if (...length() > 0) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "assortativity(... =)", details = "Arguments `values` and `values.in` must be named." @@ -193,7 +193,7 @@ assortativity <- function( } if (missing(values)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "assortativity(types1 =)", "assortativity(values =)" @@ -202,7 +202,7 @@ assortativity <- function( } if (!is.null(types2)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "assortativity(types2 =)", "assortativity(values.in =)" diff --git a/R/attributes.R b/R/attributes.R index 87af8d6b304..1a34d29fc8e 100644 --- a/R/attributes.R +++ b/R/attributes.R @@ -10,7 +10,7 @@ #' @export set.vertex.attribute <- function(graph, name, index = V(graph), value) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "set.vertex.attribute()", "set_vertex_attr()" @@ -30,7 +30,7 @@ set.vertex.attribute <- function(graph, name, index = V(graph), value) { #' @export set.graph.attribute <- function(graph, name, value) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "set.graph.attribute()", "set_graph_attr()" @@ -50,7 +50,7 @@ set.graph.attribute <- function(graph, name, value) { #' @export set.edge.attribute <- function(graph, name, index = E(graph), value) { # nocov start - lifecycle::deprecate_soft("2.0.0", "set.edge.attribute()", "set_edge_attr()") + lifecycle::deprecate_warn("2.0.0", "set.edge.attribute()", "set_edge_attr()") set_edge_attr(graph = graph, name = name, index = index, value = value) } # nocov end @@ -66,7 +66,7 @@ set.edge.attribute <- function(graph, name, index = E(graph), value) { #' @export remove.vertex.attribute <- function(graph, name) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "remove.vertex.attribute()", "delete_vertex_attr()" @@ -86,7 +86,7 @@ remove.vertex.attribute <- function(graph, name) { #' @export remove.graph.attribute <- function(graph, name) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "remove.graph.attribute()", "delete_graph_attr()" @@ -106,7 +106,7 @@ remove.graph.attribute <- function(graph, name) { #' @export remove.edge.attribute <- function(graph, name) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "remove.edge.attribute()", "delete_edge_attr()" @@ -126,7 +126,7 @@ remove.edge.attribute <- function(graph, name) { #' @export list.vertex.attributes <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "list.vertex.attributes()", "vertex_attr_names()" @@ -146,7 +146,7 @@ list.vertex.attributes <- function(graph) { #' @export list.graph.attributes <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "list.graph.attributes()", "graph_attr_names()" @@ -166,7 +166,7 @@ list.graph.attributes <- function(graph) { #' @export list.edge.attributes <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "list.edge.attributes()", "edge_attr_names()" @@ -186,7 +186,7 @@ list.edge.attributes <- function(graph) { #' @export is.weighted <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.weighted()", "is_weighted()") + lifecycle::deprecate_warn("2.0.0", "is.weighted()", "is_weighted()") is_weighted(graph = graph) } # nocov end @@ -202,7 +202,7 @@ is.weighted <- function(graph) { #' @export is.named <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.named()", "is_named()") + lifecycle::deprecate_warn("2.0.0", "is.named()", "is_named()") is_named(graph = graph) } # nocov end @@ -218,7 +218,7 @@ is.named <- function(graph) { #' @export is.bipartite <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.bipartite()", "is_bipartite()") + lifecycle::deprecate_warn("2.0.0", "is.bipartite()", "is_bipartite()") is_bipartite(graph = graph) } # nocov end @@ -234,7 +234,7 @@ is.bipartite <- function(graph) { #' @export get.vertex.attribute <- function(graph, name, index = V(graph)) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.vertex.attribute()", "vertex_attr()") + lifecycle::deprecate_warn("2.0.0", "get.vertex.attribute()", "vertex_attr()") vertex_attr(graph = graph, name = name, index = index) } # nocov end @@ -250,7 +250,7 @@ get.vertex.attribute <- function(graph, name, index = V(graph)) { #' @export get.graph.attribute <- function(graph, name) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.graph.attribute()", "graph_attr()") + lifecycle::deprecate_warn("2.0.0", "get.graph.attribute()", "graph_attr()") graph_attr(graph = graph, name = name) } # nocov end @@ -266,7 +266,7 @@ get.graph.attribute <- function(graph, name) { #' @export get.edge.attribute <- function(graph, name, index = E(graph)) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.edge.attribute()", "edge_attr()") + lifecycle::deprecate_warn("2.0.0", "get.edge.attribute()", "edge_attr()") edge_attr(graph = graph, name = name, index = index) } # nocov end # IGraph R package diff --git a/R/basic.R b/R/basic.R index 47b00f7e071..4769854df36 100644 --- a/R/basic.R +++ b/R/basic.R @@ -10,7 +10,7 @@ #' @export is.igraph <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.igraph()", "is_igraph()") + lifecycle::deprecate_warn("2.0.0", "is.igraph()", "is_igraph()") is_igraph(graph = graph) } # nocov end # IGraph R package @@ -56,19 +56,6 @@ is_igraph <- function(graph) { TRUE } -#' Incident vertices of some graph edges -#' @description -#' `r lifecycle::badge("deprecated")` -#' -#' Use [ends()]. -#' @inheritParams ends -#' @export -#' @keywords internal -get.edge <- function(graph, id) { - lifecycle::deprecate_stop("2.1.0", "get.edge()", "ends()") -} - - #' Head of the edge(s) in a graph #' #' For undirected graphs, head and tail is not defined. In this case diff --git a/R/bipartite.R b/R/bipartite.R index 5e640313588..24f2d63ebda 100644 --- a/R/bipartite.R +++ b/R/bipartite.R @@ -10,7 +10,7 @@ #' @export bipartite.projection.size <- function(graph, types = NULL) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "bipartite.projection.size()", "bipartite_projection_size()" @@ -37,7 +37,7 @@ bipartite.projection <- function( remove.type = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "bipartite.projection()", "bipartite_projection()" @@ -64,7 +64,7 @@ bipartite.projection <- function( #' @export bipartite.mapping <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "bipartite.mapping()", "bipartite_mapping()" diff --git a/R/centrality.R b/R/centrality.R index f239487876f..0cec52a6a44 100644 --- a/R/centrality.R +++ b/R/centrality.R @@ -10,7 +10,7 @@ #' @export subgraph.centrality <- function(graph, diag = FALSE) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "subgraph.centrality()", "subgraph_centrality()" @@ -39,7 +39,7 @@ page.rank <- function( options = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "page.rank()", "page_rank()") + lifecycle::deprecate_warn("2.0.0", "page.rank()", "page_rank()") page_rank( graph = graph, algo = algo, @@ -69,7 +69,7 @@ hub.score <- function( options = arpack_defaults() ) { # nocov start - lifecycle::deprecate_warn("2.0.0", "hub.score()", "hits_scores()") + lifecycle::deprecate_stop("2.0.0", "hub.score()", "hits_scores()") hub_score(graph = graph, scale = scale, weights = weights, options = options) } # nocov end @@ -90,7 +90,7 @@ authority.score <- function( options = arpack_defaults() ) { # nocov start - lifecycle::deprecate_warn("2.0.0", "authority.score()", "hits_scores()") + lifecycle::deprecate_stop("2.0.0", "authority.score()", "hits_scores()") authority_score( graph = graph, scale = scale, @@ -117,7 +117,7 @@ graph.strength <- function( weights = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.strength()", "strength()") + lifecycle::deprecate_warn("2.0.0", "graph.strength()", "strength()") strength( graph = graph, vids = vids, @@ -151,7 +151,7 @@ graph.eigen <- function( options = arpack_defaults() ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.eigen()", "spectrum()") + lifecycle::deprecate_warn("2.0.0", "graph.eigen()", "spectrum()") spectrum( graph = graph, algorithm = algorithm, @@ -172,7 +172,7 @@ graph.eigen <- function( #' @export graph.diversity <- function(graph, weights = NULL, vids = V(graph)) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.diversity()", "diversity()") + lifecycle::deprecate_warn("2.0.0", "graph.diversity()", "diversity()") diversity(graph = graph, weights = weights, vids = vids) } # nocov end @@ -194,7 +194,7 @@ evcent <- function( options = arpack_defaults() ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "evcent()", "eigen_centrality()") + lifecycle::deprecate_warn("2.0.0", "evcent()", "eigen_centrality()") eigen_centrality( graph = graph, directed = directed, @@ -222,7 +222,7 @@ edge.betweenness <- function( cutoff = -1 ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "edge.betweenness()", "edge_betweenness()") + lifecycle::deprecate_warn("2.0.0", "edge.betweenness()", "edge_betweenness()") edge_betweenness( graph = graph, e = e, @@ -252,7 +252,7 @@ bonpow <- function( sparse = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "bonpow()", "power_centrality()") + lifecycle::deprecate_warn("2.0.0", "bonpow()", "power_centrality()") power_centrality( graph = graph, nodes = nodes, @@ -285,7 +285,7 @@ alpha.centrality <- function( sparse = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "alpha.centrality()", "alpha_centrality()") + lifecycle::deprecate_warn("2.0.0", "alpha.centrality()", "alpha_centrality()") alpha_centrality( graph = graph, nodes = nodes, @@ -336,7 +336,7 @@ estimate_betweenness <- function( cutoff, weights = NULL ) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "estimate_betweenness()", "betweenness()", @@ -498,7 +498,7 @@ estimate_edge_betweenness <- function( cutoff, weights = NULL ) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "estimate_edge_betweenness()", "edge_betweenness()", @@ -611,7 +611,7 @@ estimate_closeness <- function( weights = NULL, normalized = FALSE ) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "estimate_closeness()", "closeness()", @@ -961,7 +961,7 @@ arpack <- function( complex = !sym ) { if (is.function(options)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "arpack(options = 'must be a list')", details = c( @@ -1170,7 +1170,7 @@ spectrum <- function( options = arpack_defaults() ) { if (is.function(options)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "spectrum(options = 'must be a list')", details = c( @@ -1299,7 +1299,7 @@ eigen_centrality <- function( options = arpack_defaults() ) { if (is.function(options)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "eigen_centrality(options = 'must be a list')", details = c( @@ -1311,13 +1311,13 @@ eigen_centrality <- function( if (lifecycle::is_present(scale)) { if (isTRUE(scale)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.1", "eigen_centrality(scale)", details = "eigen_centrality() will always behave as if scale=TRUE were used." ) } else { - lifecycle::deprecate_warn( + lifecycle::deprecate_stop( "2.1.1", "eigen_centrality(scale = 'always as if TRUE')", details = "Normalization is always performed" @@ -1522,9 +1522,9 @@ authority_score <- function( weights = NULL, options = arpack_defaults() ) { - lifecycle::deprecate_soft("2.1.0", "authority_score()", "hits_scores()") + lifecycle::deprecate_warn("2.1.0", "authority_score()", "hits_scores()") if (is.function(options)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", I("arpack_defaults"), "arpack_defaults()", @@ -1567,9 +1567,9 @@ hub_score <- function( weights = NULL, options = arpack_defaults() ) { - lifecycle::deprecate_soft("2.0.3", "hub_score()", "hits_scores()") + lifecycle::deprecate_warn("2.0.3", "hub_score()", "hits_scores()") if (is.function(options)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", I("arpack_defaults"), "arpack_defaults()", diff --git a/R/centralization.R b/R/centralization.R index bd6dfb570ef..e0655d7f295 100644 --- a/R/centralization.R +++ b/R/centralization.R @@ -10,7 +10,7 @@ #' @export centralize.scores <- function(scores, theoretical.max = 0, normalized = TRUE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "centralize.scores()", "centralize()") + lifecycle::deprecate_warn("2.0.0", "centralize.scores()", "centralize()") centralize( scores = scores, theoretical.max = theoretical.max, @@ -35,7 +35,7 @@ centralization.evcent.tmax <- function( scale = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "centralization.evcent.tmax()", "centr_eigen_tmax()" @@ -66,7 +66,7 @@ centralization.evcent <- function( normalized = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "centralization.evcent()", "centr_eigen()") + lifecycle::deprecate_warn("2.0.0", "centralization.evcent()", "centr_eigen()") centr_eigen( graph = graph, directed = directed, @@ -93,7 +93,7 @@ centralization.degree.tmax <- function( loops = FALSE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "centralization.degree.tmax()", "centr_degree_tmax()" @@ -118,7 +118,7 @@ centralization.degree <- function( normalized = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "centralization.degree()", "centr_degree()" @@ -147,7 +147,7 @@ centralization.closeness.tmax <- function( mode = c("out", "in", "all", "total") ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "centralization.closeness.tmax()", "centr_clo_tmax()" @@ -171,7 +171,7 @@ centralization.closeness <- function( normalized = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "centralization.closeness()", "centr_clo()" @@ -195,7 +195,7 @@ centralization.betweenness.tmax <- function( directed = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "centralization.betweenness.tmax()", "centr_betw_tmax()" @@ -219,7 +219,7 @@ centralization.betweenness <- function( normalized = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "centralization.betweenness()", "centr_betw()" @@ -404,7 +404,7 @@ centr_degree_tmax <- function( loops ) { if (!lifecycle::is_present(loops)) { - lifecycle::deprecate_warn( + lifecycle::deprecate_stop( when = "2.0.0", what = "centr_degree_tmax(loops = 'must be explicit')", details = "The default value (currently `FALSE`) will be dropped in the next release. Add an explicit value for the `loops` argument." @@ -658,7 +658,7 @@ centr_eigen <- function( normalized = TRUE ) { if (lifecycle::is_present(scale)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.2.0", "centr_eigen(scale = )", details = "The function always behaves as if `scale = TRUE`. @@ -708,7 +708,7 @@ centr_eigen_tmax <- function( scale = deprecated() ) { if (lifecycle::is_present(scale)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.2.0", "centr_eigen_tmax(scale = )", details = "The function always behaves as if `scale = TRUE`. diff --git a/R/cliques.R b/R/cliques.R index 4bd6018334c..9d3ce765399 100644 --- a/R/cliques.R +++ b/R/cliques.R @@ -10,7 +10,7 @@ #' @export maximal.independent.vertex.sets <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "maximal.independent.vertex.sets()", "max_ivs()" @@ -35,7 +35,7 @@ maximal.cliques.count <- function( subset = NULL ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "maximal.cliques.count()", "count_max_cliques()" @@ -61,7 +61,7 @@ maximal.cliques <- function( file = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "maximal.cliques()", "max_cliques()") + lifecycle::deprecate_warn("2.0.0", "maximal.cliques()", "max_cliques()") max_cliques(graph = graph, min = min, max = max, subset = subset, file = file) } # nocov end @@ -77,7 +77,7 @@ maximal.cliques <- function( #' @export largest.independent.vertex.sets <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "largest.independent.vertex.sets()", "largest_ivs()" @@ -97,7 +97,7 @@ largest.independent.vertex.sets <- function(graph) { #' @export largest.cliques <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "largest.cliques()", "largest_cliques()") + lifecycle::deprecate_warn("2.0.0", "largest.cliques()", "largest_cliques()") largest_cliques(graph = graph) } # nocov end @@ -113,7 +113,7 @@ largest.cliques <- function(graph) { #' @export independent.vertex.sets <- function(graph, min = NULL, max = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "independent.vertex.sets()", "ivs()") + lifecycle::deprecate_warn("2.0.0", "independent.vertex.sets()", "ivs()") ivs(graph = graph, min = min, max = max) } # nocov end @@ -129,7 +129,7 @@ independent.vertex.sets <- function(graph, min = NULL, max = NULL) { #' @export independence.number <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "independence.number()", "ivs_size()") + lifecycle::deprecate_warn("2.0.0", "independence.number()", "ivs_size()") ivs_size(graph = graph) } # nocov end @@ -145,7 +145,7 @@ independence.number <- function(graph) { #' @export clique.number <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "clique.number()", "clique_num()") + lifecycle::deprecate_warn("2.0.0", "clique.number()", "clique_num()") clique_num(graph = graph) } # nocov end # IGraph R package @@ -615,7 +615,7 @@ max_ivs <- function(graph) { #' @inheritParams max_ivs #' @keywords internal maximal_ivs <- function(graph) { - lifecycle::deprecate_soft("2.1.0", "maximal_ivs()", "max_ivs()") + lifecycle::deprecate_warn("2.1.0", "maximal_ivs()", "max_ivs()") max_ivs(graph) } diff --git a/R/cohesive.blocks.R b/R/cohesive.blocks.R index 35844360284..202ed43dad8 100644 --- a/R/cohesive.blocks.R +++ b/R/cohesive.blocks.R @@ -10,7 +10,7 @@ #' @export exportPajek <- function(blocks, graph, file, project.file = TRUE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "exportPajek()", "export_pajek()") + lifecycle::deprecate_warn("2.0.0", "exportPajek()", "export_pajek()") export_pajek( blocks = blocks, graph = graph, @@ -35,7 +35,7 @@ plotHierarchy <- function( ... ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "plotHierarchy()", "plot_hierarchy()") + lifecycle::deprecate_warn("2.0.0", "plotHierarchy()", "plot_hierarchy()") plot_hierarchy(blocks = blocks, layout = layout, ...) } # nocov end @@ -51,7 +51,7 @@ plotHierarchy <- function( #' @export maxcohesion <- function(blocks) { # nocov start - lifecycle::deprecate_soft("2.0.0", "maxcohesion()", "max_cohesion()") + lifecycle::deprecate_warn("2.0.0", "maxcohesion()", "max_cohesion()") max_cohesion(blocks = blocks) } # nocov end @@ -68,7 +68,7 @@ maxcohesion <- function(blocks) { #' @export graph.cohesion <- function(x, ...) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.cohesion()", "cohesion()") + lifecycle::deprecate_warn("2.0.0", "graph.cohesion()", "cohesion()") cohesion(x = x, ...) } # nocov end @@ -84,7 +84,7 @@ graph.cohesion <- function(x, ...) { #' @export cohesive.blocks <- function(graph, labels = TRUE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "cohesive.blocks()", "cohesive_blocks()") + lifecycle::deprecate_warn("2.0.0", "cohesive.blocks()", "cohesive_blocks()") cohesive_blocks(graph = graph, labels = labels) } # nocov end @@ -100,7 +100,7 @@ cohesive.blocks <- function(graph, labels = TRUE) { #' @export blockGraphs <- function(blocks, graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "blockGraphs()", "graphs_from_cohesive_blocks()" diff --git a/R/community.R b/R/community.R index 352f534ba11..0d9b8cf3781 100644 --- a/R/community.R +++ b/R/community.R @@ -16,7 +16,7 @@ create.communities <- function( modularity = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "create.communities()", "make_clusters()") + lifecycle::deprecate_warn("2.0.0", "create.communities()", "make_clusters()") make_clusters( graph = graph, membership = membership, @@ -45,7 +45,7 @@ walktrap.community <- function( membership = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "walktrap.community()", "cluster_walktrap()" @@ -85,7 +85,7 @@ spinglass.community <- function( gamma.minus = 1.0 ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "spinglass.community()", "cluster_spinglass()" @@ -118,7 +118,7 @@ spinglass.community <- function( #' @export showtrace <- function(communities) { # nocov start - lifecycle::deprecate_soft("2.0.0", "showtrace()", "show_trace()") + lifecycle::deprecate_warn("2.0.0", "showtrace()", "show_trace()") show_trace(communities = communities) } # nocov end @@ -134,7 +134,7 @@ showtrace <- function(communities) { #' @export optimal.community <- function(graph, weights = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "optimal.community()", "cluster_optimal()") + lifecycle::deprecate_warn("2.0.0", "optimal.community()", "cluster_optimal()") cluster_optimal(graph = graph, weights = weights) } # nocov end @@ -150,7 +150,7 @@ optimal.community <- function(graph, weights = NULL) { #' @export multilevel.community <- function(graph, weights = NULL, resolution = 1) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "multilevel.community()", "cluster_louvain()" @@ -176,7 +176,7 @@ mod.matrix <- function( directed = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "mod.matrix()", "modularity_matrix()") + lifecycle::deprecate_warn("2.0.0", "mod.matrix()", "modularity_matrix()") modularity_matrix( graph = graph, membership = membership, @@ -207,7 +207,7 @@ leading.eigenvector.community <- function( env = parent.frame() ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "leading.eigenvector.community()", "cluster_leading_eigen()" @@ -243,7 +243,7 @@ label.propagation.community <- function( fixed = NULL ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "label.propagation.community()", "cluster_label_prop()" @@ -270,7 +270,7 @@ label.propagation.community <- function( #' @export is.hierarchical <- function(communities) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.hierarchical()", "is_hierarchical()") + lifecycle::deprecate_warn("2.0.0", "is.hierarchical()", "is_hierarchical()") is_hierarchical(communities = communities) } # nocov end @@ -292,7 +292,7 @@ infomap.community <- function( modularity = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "infomap.community()", "cluster_infomap()") + lifecycle::deprecate_warn("2.0.0", "infomap.community()", "cluster_infomap()") cluster_infomap( graph = graph, e.weights = e.weights, @@ -320,7 +320,7 @@ fastgreedy.community <- function( weights = NULL ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "fastgreedy.community()", "cluster_fast_greedy()" @@ -355,7 +355,7 @@ edge.betweenness.community <- function( membership = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "edge.betweenness.community()", "cluster_edge_betweenness()" @@ -384,7 +384,7 @@ edge.betweenness.community <- function( #' @export dendPlot <- function(x, mode = igraph_opt("dend.plot.type"), ...) { # nocov start - lifecycle::deprecate_soft("2.0.0", "dendPlot()", "plot_dendrogram()") + lifecycle::deprecate_warn("2.0.0", "dendPlot()", "plot_dendrogram()") plot_dendrogram(x = x, mode = mode, ...) } # nocov end @@ -400,7 +400,7 @@ dendPlot <- function(x, mode = igraph_opt("dend.plot.type"), ...) { #' @export cutat <- function(communities, no, steps) { # nocov start - lifecycle::deprecate_soft("2.0.0", "cutat()", "cut_at()") + lifecycle::deprecate_warn("2.0.0", "cutat()", "cut_at()") cut_at(communities = communities, no = no, steps = steps) } # nocov end @@ -420,7 +420,7 @@ contract.vertices <- function( vertex.attr.comb = igraph_opt("vertex.attr.comb") ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "contract.vertices()", "contract()") + lifecycle::deprecate_warn("2.0.0", "contract.vertices()", "contract()") contract( graph = graph, mapping = mapping, @@ -440,7 +440,7 @@ contract.vertices <- function( #' @export code.length <- function(communities) { # nocov start - lifecycle::deprecate_soft("2.0.0", "code.length()", "code_len()") + lifecycle::deprecate_warn("2.0.0", "code.length()", "code_len()") code_len(communities = communities) } # nocov end # IGraph R package @@ -951,7 +951,7 @@ modularity_matrix <- function( ensure_igraph(graph) if (!missing(membership)) { - lifecycle::deprecate_warn( + lifecycle::deprecate_stop( "2.1.0", "modularity_matrix(membership = 'is no longer used')" ) @@ -1636,7 +1636,7 @@ cluster_leiden <- function( check_dots_empty() if (lifecycle::is_present(resolution_parameter)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "cluster_leiden(resolution_parameter)", "cluster_leiden(resolution)" @@ -2229,7 +2229,7 @@ cluster_leading_eigen <- function( env = parent.frame() ) { if (is.function(options)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "cluster_leading_eigen(options = 'must be a list')", details = c( @@ -2358,7 +2358,7 @@ cluster_label_prop <- function( fixed = NULL ) { if (...length() > 0) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "cluster_label_prop(... = )", details = "Arguments `initial` and `fixed` must be named." diff --git a/R/components.R b/R/components.R index fab025773b2..1c0ab7b0a12 100644 --- a/R/components.R +++ b/R/components.R @@ -10,7 +10,7 @@ #' @export no.clusters <- function(graph, mode = c("weak", "strong")) { # nocov start - lifecycle::deprecate_soft("2.0.0", "no.clusters()", "count_components()") + lifecycle::deprecate_warn("2.0.0", "no.clusters()", "count_components()") count_components(graph = graph, mode = mode) } # nocov end @@ -31,7 +31,7 @@ decompose.graph <- function( min.vertices = 0 ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "decompose.graph()", "decompose()") + lifecycle::deprecate_warn("2.0.0", "decompose.graph()", "decompose()") decompose( graph = graph, mode = mode, @@ -57,7 +57,7 @@ cluster.distribution <- function( ... ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "cluster.distribution()", "component_distribution()" @@ -82,7 +82,7 @@ cluster.distribution <- function( #' @export biconnected.components <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "biconnected.components()", "biconnected_components()" @@ -102,7 +102,7 @@ biconnected.components <- function(graph) { #' @export articulation.points <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "articulation.points()", "articulation_points()" diff --git a/R/console.R b/R/console.R index 71defc045a7..ff898e1bfe0 100644 --- a/R/console.R +++ b/R/console.R @@ -11,7 +11,7 @@ #' @export igraph.console <- function() { # nocov start - lifecycle::deprecate_soft("2.0.0", "igraph.console()", "console()") + lifecycle::deprecate_warn("2.0.0", "igraph.console()", "console()") console() } # nocov end diff --git a/R/conversion.R b/R/conversion.R index 230cd369bd1..0634fb46949 100644 --- a/R/conversion.R +++ b/R/conversion.R @@ -10,7 +10,7 @@ #' @export igraph.to.graphNEL <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "igraph.to.graphNEL()", "as_graphnel()") + lifecycle::deprecate_warn("2.0.0", "igraph.to.graphNEL()", "as_graphnel()") as_graphnel(graph = graph) } # nocov end @@ -31,7 +31,7 @@ igraph.from.graphNEL <- function( unlist.attrs = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "igraph.from.graphNEL()", "graph_from_graphnel()" @@ -60,7 +60,7 @@ graph.adjlist <- function( duplicate = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.adjlist()", "graph_from_adj_list()") + lifecycle::deprecate_warn("2.0.0", "graph.adjlist()", "graph_from_adj_list()") graph_from_adj_list(adjlist = adjlist, mode = mode, duplicate = duplicate) } # nocov end @@ -82,7 +82,7 @@ get.incidence <- function( sparse = FALSE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "get.incidence()", "as_biadjacency_matrix()" @@ -108,7 +108,7 @@ get.incidence <- function( #' @export get.edgelist <- function(graph, names = TRUE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.edgelist()", "as_edgelist()") + lifecycle::deprecate_warn("2.0.0", "get.edgelist()", "as_edgelist()") as_edgelist(graph = graph, names = names) } # nocov end @@ -124,7 +124,7 @@ get.edgelist <- function(graph, names = TRUE) { #' @export get.data.frame <- function(x, what = c("edges", "vertices", "both")) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.data.frame()", "as_data_frame()") + lifecycle::deprecate_warn("2.0.0", "get.data.frame()", "as_data_frame()") as_data_frame(x = x, what = what) } # nocov end @@ -147,7 +147,7 @@ get.adjacency <- function( sparse = igraph_opt("sparsematrices") ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.adjacency()", "as_adjacency_matrix()") + lifecycle::deprecate_warn("2.0.0", "get.adjacency()", "as_adjacency_matrix()") as_adjacency_matrix( graph = graph, type = type, @@ -175,7 +175,7 @@ get.adjlist <- function( multiple = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.adjlist()", "as_adj_list()") + lifecycle::deprecate_warn("2.0.0", "get.adjlist()", "as_adj_list()") as_adj_list(graph = graph, mode = mode, loops = loops, multiple = multiple) } # nocov end @@ -195,7 +195,7 @@ get.adjedgelist <- function( loops = c("twice", "once", "ignore") ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.adjedgelist()", "as_adj_edge_list()") + lifecycle::deprecate_warn("2.0.0", "get.adjedgelist()", "as_adj_edge_list()") as_adj_edge_list(graph = graph, mode = mode, loops = loops) } # nocov end # IGraph R package @@ -232,7 +232,7 @@ get.adjacency.dense <- function( if (is.logical(loops)) { loops <- ifelse(loops, "once", "ignore") - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "get.adjacency.dense(loops = 'must be a character')", details = sprintf( @@ -412,7 +412,7 @@ as_adj <- function( names = TRUE, sparse = igraph_opt("sparsematrices") ) { - lifecycle::deprecate_soft("2.1.0", "as_adj()", "as_adjacency_matrix()") + lifecycle::deprecate_warn("2.1.0", "as_adj()", "as_adjacency_matrix()") as_adjacency_matrix( graph = graph, @@ -1129,7 +1129,7 @@ as_biadjacency_matrix <- function( #' @export as_incidence_matrix <- function(...) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "as_incidence_matrix()", "as_biadjacency_matrix()" @@ -1367,7 +1367,7 @@ as.directed <- function( graph, mode = c("mutual", "arbitrary", "random", "acyclic") ) { - lifecycle::deprecate_soft("2.1.0", "as.directed()", "as_directed()") + lifecycle::deprecate_warn("2.1.0", "as.directed()", "as_directed()") as_directed(graph, mode = mode) } @@ -1386,7 +1386,7 @@ as.undirected <- function( mode = c("collapse", "each", "mutual"), edge.attr.comb = igraph_opt("edge.attr.comb") ) { - lifecycle::deprecate_soft("2.1.0", "as.undirected()", "as_undirected()") + lifecycle::deprecate_warn("2.1.0", "as.undirected()", "as_undirected()") as_undirected(graph = graph, mode = mode, edge.attr.comb = edge.attr.comb) } @@ -1402,7 +1402,7 @@ as.undirected <- function( #' @export graph.edgelist <- function(el, directed = TRUE) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "graph.edgelist()", "graph_from_edgelist()" @@ -1422,7 +1422,7 @@ graph.edgelist <- function(el, directed = TRUE) { #' @export graph.data.frame <- function(d, directed = TRUE, vertices = NULL) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "graph.data.frame()", "graph_from_data_frame()" diff --git a/R/decomposition.R b/R/decomposition.R index 8c8e92b570c..47df101955e 100644 --- a/R/decomposition.R +++ b/R/decomposition.R @@ -16,7 +16,7 @@ is.chordal <- function( newgraph = FALSE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.chordal()", "is_chordal()") + lifecycle::deprecate_warn("2.0.0", "is.chordal()", "is_chordal()") is_chordal( graph = graph, alpha = alpha, diff --git a/R/degseq.R b/R/degseq.R index 76a4401822d..918239d17dd 100644 --- a/R/degseq.R +++ b/R/degseq.R @@ -14,7 +14,7 @@ is.graphical.degree.sequence <- function( allowed.edge.types = c("simple", "loops", "multi", "all") ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "is.graphical.degree.sequence()", "is_graphical()" @@ -38,7 +38,7 @@ is.graphical.degree.sequence <- function( #' @export is.degree.sequence <- function(out.deg, in.deg = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.degree.sequence()", "is_degseq()") + lifecycle::deprecate_warn("2.0.0", "is.degree.sequence()", "is_degseq()") is_degseq(out.deg = out.deg, in.deg = in.deg) } # nocov end diff --git a/R/fit.R b/R/fit.R index e0849b32a4c..4993d32bc4e 100644 --- a/R/fit.R +++ b/R/fit.R @@ -17,7 +17,7 @@ power.law.fit <- function( ... ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "power.law.fit()", "fit_power_law()") + lifecycle::deprecate_warn("2.0.0", "power.law.fit()", "fit_power_law()") fit_power_law( x = x, xmin = xmin, diff --git a/R/flow.R b/R/flow.R index 0609fce12c3..43c3f0bf35c 100644 --- a/R/flow.R +++ b/R/flow.R @@ -10,7 +10,7 @@ #' @export vertex.disjoint.paths <- function(graph, source = NULL, target = NULL) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "vertex.disjoint.paths()", "vertex_disjoint_paths()" @@ -35,7 +35,7 @@ vertex.connectivity <- function( checks = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "vertex.connectivity()", "vertex_connectivity()" @@ -60,7 +60,7 @@ vertex.connectivity <- function( #' @export stMincuts <- function(graph, source, target, capacity = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "stMincuts()", "st_min_cuts()") + lifecycle::deprecate_warn("2.0.0", "stMincuts()", "st_min_cuts()") st_min_cuts( graph = graph, source = source, @@ -81,7 +81,7 @@ stMincuts <- function(graph, source, target, capacity = NULL) { #' @export stCuts <- function(graph, source, target) { # nocov start - lifecycle::deprecate_soft("2.0.0", "stCuts()", "st_cuts()") + lifecycle::deprecate_warn("2.0.0", "stCuts()", "st_cuts()") st_cuts(graph = graph, source = source, target = target) } # nocov end @@ -97,7 +97,7 @@ stCuts <- function(graph, source, target) { #' @export minimum.size.separators <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "minimum.size.separators()", "min_separators()" @@ -117,7 +117,7 @@ minimum.size.separators <- function(graph) { #' @export minimal.st.separators <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "minimal.st.separators()", "min_st_separators()" @@ -137,7 +137,7 @@ minimal.st.separators <- function(graph) { #' @export is.separator <- function(graph, candidate) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.separator()", "is_separator()") + lifecycle::deprecate_warn("2.0.0", "is.separator()", "is_separator()") is_separator(graph = graph, candidate = candidate) } # nocov end @@ -153,7 +153,7 @@ is.separator <- function(graph, candidate) { #' @export is.minimal.separator <- function(graph, candidate) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "is.minimal.separator()", "is_min_separator()" @@ -179,7 +179,7 @@ graph.mincut <- function( value.only = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.mincut()", "min_cut()") + lifecycle::deprecate_warn("2.0.0", "graph.mincut()", "min_cut()") min_cut( graph = graph, source = source, @@ -201,7 +201,7 @@ graph.mincut <- function( #' @export graph.maxflow <- function(graph, source, target, capacity = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.maxflow()", "max_flow()") + lifecycle::deprecate_warn("2.0.0", "graph.maxflow()", "max_flow()") max_flow(graph = graph, source = source, target = target, capacity = capacity) } # nocov end @@ -217,7 +217,7 @@ graph.maxflow <- function(graph, source, target, capacity = NULL) { #' @export graph.adhesion <- function(graph, checks = TRUE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.adhesion()", "adhesion()") + lifecycle::deprecate_warn("2.0.0", "graph.adhesion()", "adhesion()") adhesion(graph = graph, checks = checks) } # nocov end @@ -238,7 +238,7 @@ edge.disjoint.paths <- function( checks = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "edge.disjoint.paths()", "edge_connectivity()" @@ -268,7 +268,7 @@ edge.connectivity <- function( checks = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "edge.connectivity()", "edge_connectivity()" @@ -293,7 +293,7 @@ edge.connectivity <- function( #' @export dominator.tree <- function(graph, root, mode = c("out", "in", "all", "total")) { # nocov start - lifecycle::deprecate_soft("2.0.0", "dominator.tree()", "dominator_tree()") + lifecycle::deprecate_warn("2.0.0", "dominator.tree()", "dominator_tree()") dominator_tree(graph = graph, root = root, mode = mode) } # nocov end # IGraph R package diff --git a/R/foreign.R b/R/foreign.R index ebf9280b01d..b493c1fdb83 100644 --- a/R/foreign.R +++ b/R/foreign.R @@ -25,7 +25,7 @@ write.graph <- function( ... ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "write.graph()", "write_graph()") + lifecycle::deprecate_warn("2.0.0", "write.graph()", "write_graph()") write_graph(graph = graph, file = file, format = format, ...) } # nocov end @@ -55,7 +55,7 @@ read.graph <- function( ... ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "read.graph()", "read_graph()") + lifecycle::deprecate_warn("2.0.0", "read.graph()", "read_graph()") read_graph(file = file, format = format, ...) } # nocov end @@ -81,7 +81,7 @@ graph.graphdb <- function( directed = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.graphdb()", "graph_from_graphdb()") + lifecycle::deprecate_warn("2.0.0", "graph.graphdb()", "graph_from_graphdb()") graph_from_graphdb( url = url, prefix = prefix, diff --git a/R/games.R b/R/games.R index f37cb832403..17d42f7fd94 100644 --- a/R/games.R +++ b/R/games.R @@ -17,7 +17,7 @@ watts.strogatz.game <- function( multiple = FALSE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "watts.strogatz.game()", "sample_smallworld()" @@ -52,7 +52,7 @@ static.power.law.game <- function( finite.size.correction = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "static.power.law.game()", "sample_fitness_pl()" @@ -86,7 +86,7 @@ static.fitness.game <- function( multiple = FALSE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "static.fitness.game()", "sample_fitness()" @@ -118,7 +118,7 @@ sbm.game <- function( loops = FALSE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "sbm.game()", "sample_sbm()") + lifecycle::deprecate_warn("2.0.0", "sbm.game()", "sample_sbm()") sample_sbm( n = n, pref.matrix = pref.matrix, @@ -148,7 +148,7 @@ preference.game <- function( loops = FALSE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "preference.game()", "sample_pref()") + lifecycle::deprecate_warn("2.0.0", "preference.game()", "sample_pref()") sample_pref( nodes = nodes, types = types, @@ -178,7 +178,7 @@ lastcit.game <- function( directed = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "lastcit.game()", "sample_last_cit()") + lifecycle::deprecate_warn("2.0.0", "lastcit.game()", "sample_last_cit()") sample_last_cit( n = n, edges = edges, @@ -200,7 +200,7 @@ lastcit.game <- function( #' @export k.regular.game <- function(no.of.nodes, k, directed = FALSE, multiple = FALSE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "k.regular.game()", "sample_k_regular()") + lifecycle::deprecate_warn("2.0.0", "k.regular.game()", "sample_k_regular()") sample_k_regular( no.of.nodes = no.of.nodes, k = k, @@ -226,7 +226,7 @@ interconnected.islands.game <- function( n.inter ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "interconnected.islands.game()", "sample_islands()" @@ -251,7 +251,7 @@ interconnected.islands.game <- function( #' @export grg.game <- function(nodes, radius, torus = FALSE, coords = FALSE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "grg.game()", "sample_grg()") + lifecycle::deprecate_warn("2.0.0", "grg.game()", "sample_grg()") sample_grg(nodes = nodes, radius = radius, torus = torus, coords = coords) } # nocov end @@ -267,7 +267,7 @@ grg.game <- function(nodes, radius, torus = FALSE, coords = FALSE) { #' @export growing.random.game <- function(n, m = 1, directed = TRUE, citation = FALSE) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "growing.random.game()", "sample_growing()" @@ -293,7 +293,7 @@ forest.fire.game <- function( directed = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "forest.fire.game()", "sample_forestfire()" @@ -326,7 +326,7 @@ establishment.game <- function( directed = FALSE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "establishment.game()", "sample_traits()") + lifecycle::deprecate_warn("2.0.0", "establishment.game()", "sample_traits()") sample_traits( nodes = nodes, types = types, @@ -353,7 +353,7 @@ degree.sequence.game <- function( method = c("simple", "vl", "simple.no.multiple", "simple.no.multiple.uniform") ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "degree.sequence.game()", "sample_degseq()" @@ -377,7 +377,7 @@ connect.neighborhood <- function( mode = c("all", "out", "in", "total") ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "connect.neighborhood()", "connect()") + lifecycle::deprecate_warn("2.0.0", "connect.neighborhood()", "connect()") connect(graph = graph, order = order, mode = mode) } # nocov end @@ -400,7 +400,7 @@ citing.cited.type.game <- function( attr = TRUE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "citing.cited.type.game()", "sample_cit_cit_types()" @@ -434,7 +434,7 @@ cited.type.game <- function( attr = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "cited.type.game()", "sample_cit_types()") + lifecycle::deprecate_warn("2.0.0", "cited.type.game()", "sample_cit_types()") sample_cit_types( n = n, edges = edges, @@ -464,7 +464,7 @@ callaway.traits.game <- function( directed = FALSE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "callaway.traits.game()", "sample_traits_callaway()" @@ -499,7 +499,7 @@ bipartite.random.game <- function( mode = c("out", "in", "all") ) { # nocov start - lifecycle::deprecate_warn( + lifecycle::deprecate_stop( "2.0.0", "bipartite.random.game()", details = "Use sample_bipartite_gnp() or sample_bipartite_gnm()" @@ -538,7 +538,7 @@ barabasi.game <- function( start.graph = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "barabasi.game()", "sample_pa()") + lifecycle::deprecate_warn("2.0.0", "barabasi.game()", "sample_pa()") sample_pa( n = n, power = power, @@ -576,7 +576,7 @@ ba.game <- function( start.graph = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "ba.game()", "sample_pa()") + lifecycle::deprecate_warn("2.0.0", "ba.game()", "sample_pa()") sample_pa( n = n, power = power, @@ -609,7 +609,7 @@ asymmetric.preference.game <- function( loops = FALSE ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "asymmetric.preference.game()", "sample_asym_pref()" @@ -650,7 +650,7 @@ aging.barabasi.game <- function( time.window = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "aging.barabasi.game()", "sample_pa_age()") + lifecycle::deprecate_warn("2.0.0", "aging.barabasi.game()", "sample_pa_age()") sample_pa_age( n = n, pa.exp = pa.exp, @@ -696,7 +696,7 @@ aging.ba.game <- function( time.window = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "aging.ba.game()", "sample_pa_age()") + lifecycle::deprecate_warn("2.0.0", "aging.ba.game()", "sample_pa_age()") sample_pa_age( n = n, pa.exp = pa.exp, @@ -742,7 +742,7 @@ aging.prefatt.game <- function( time.window = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "aging.prefatt.game()", "sample_pa_age()") + lifecycle::deprecate_warn("2.0.0", "aging.prefatt.game()", "sample_pa_age()") sample_pa_age( n = n, pa.exp = pa.exp, @@ -1158,10 +1158,10 @@ erdos.renyi.game <- function( type <- igraph_match_arg(type) if (type == "gnp") { - lifecycle::deprecate_soft("0.8.0", "erdos.renyi.game()", "sample_gnp()") + lifecycle::deprecate_warn("0.8.0", "erdos.renyi.game()", "sample_gnp()") sample_gnp(n = n, p = p.or.m, directed = directed, loops = loops) } else if (type == "gnm") { - lifecycle::deprecate_soft("0.8.0", "erdos.renyi.game()", "sample_gnm()") + lifecycle::deprecate_warn("0.8.0", "erdos.renyi.game()", "sample_gnm()") sample_gnm(n = n, m = p.or.m, directed = directed, loops = loops) } } @@ -1178,10 +1178,10 @@ random.graph.game <- function( type <- igraph_match_arg(type) if (type == "gnp") { - lifecycle::deprecate_soft("0.8.0", "random.graph.game()", "sample_gnp()") + lifecycle::deprecate_warn("0.8.0", "random.graph.game()", "sample_gnp()") sample_gnp(n = n, p = p.or.m, directed = directed, loops = loops) } else if (type == "gnm") { - lifecycle::deprecate_soft("0.8.0", "random.graph.game()", "sample_gnm()") + lifecycle::deprecate_warn("0.8.0", "random.graph.game()", "sample_gnm()") sample_gnm(n = n, m = p.or.m, directed = directed, loops = loops) } } @@ -1388,7 +1388,7 @@ sample_degseq <- function( ) if (method == "simple") { - lifecycle::deprecate_warn( + lifecycle::deprecate_stop( "2.1.0", "sample_degseq(method = 'must be configuration instead of simple')" ) @@ -1396,7 +1396,7 @@ sample_degseq <- function( } if (method == "simple.no.multiple") { - lifecycle::deprecate_warn( + lifecycle::deprecate_stop( "2.1.0", "sample_degseq(method = 'must be fast.heur.simple instead of simple.no.multiple')" ) @@ -1404,7 +1404,7 @@ sample_degseq <- function( } if (method == "simple.no.multiple.uniform") { - lifecycle::deprecate_warn( + lifecycle::deprecate_stop( "2.1.0", "sample_degseq(method = 'must be configuration.simple instead of simple.no.multiple.uniform')" ) @@ -2474,14 +2474,14 @@ sample_bipartite <- function( mode <- igraph_match_arg(mode) if (type == "gnp") { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.2.0", "sample_bipartite()", "sample_bipartite_gnp()" ) sample_bipartite_gnp(n1, n2, p, directed = directed, mode = mode) } else if (type == "gnm") { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.2.0", "sample_bipartite()", "sample_bipartite_gnm()" @@ -2497,14 +2497,14 @@ sample_bipartite <- function( #' @export bipartite <- function(..., type = NULL) { if (is.null(type) || type == "gnp") { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.3", "bipartite()", "bipartite_gnp()" ) bipartite_gnp(...) } else if (type == "gnm") { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.3", "bipartite()", "bipartite_gnm()" diff --git a/R/glet.R b/R/glet.R index 252b227cfe8..8122a59f55f 100644 --- a/R/glet.R +++ b/R/glet.R @@ -16,7 +16,7 @@ graphlets.project <- function( Mu = rep(1, length(cliques)) ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graphlets.project()", "graphlet_proj()") + lifecycle::deprecate_warn("2.0.0", "graphlets.project()", "graphlet_proj()") graphlet_proj( graph = graph, weights = weights, @@ -38,7 +38,7 @@ graphlets.project <- function( #' @export graphlets.candidate.basis <- function(graph, weights = NULL) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "graphlets.candidate.basis()", "graphlet_basis()" diff --git a/R/hrg.R b/R/hrg.R index b8eb3c4a860..83f65d16c7d 100644 --- a/R/hrg.R +++ b/R/hrg.R @@ -16,7 +16,7 @@ hrg.predict <- function( num.bins = 25 ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "hrg.predict()", "predict_edges()") + lifecycle::deprecate_warn("2.0.0", "hrg.predict()", "predict_edges()") predict_edges( graph = graph, hrg = hrg, @@ -38,7 +38,7 @@ hrg.predict <- function( #' @export hrg.fit <- function(graph, hrg = NULL, start = FALSE, steps = 0) { # nocov start - lifecycle::deprecate_soft("2.0.0", "hrg.fit()", "fit_hrg()") + lifecycle::deprecate_warn("2.0.0", "hrg.fit()", "fit_hrg()") fit_hrg(graph = graph, hrg = hrg, start = start, steps = steps) } # nocov end @@ -54,7 +54,7 @@ hrg.fit <- function(graph, hrg = NULL, start = FALSE, steps = 0) { #' @export hrg.game <- function(hrg) { # nocov start - lifecycle::deprecate_soft("2.0.0", "hrg.game()", "sample_hrg()") + lifecycle::deprecate_warn("2.0.0", "hrg.game()", "sample_hrg()") sample_hrg(hrg = hrg) } # nocov end @@ -70,7 +70,7 @@ hrg.game <- function(hrg) { #' @export hrg.dendrogram <- function(hrg) { # nocov start - lifecycle::deprecate_soft("2.0.0", "hrg.dendrogram()", "hrg_tree()") + lifecycle::deprecate_warn("2.0.0", "hrg.dendrogram()", "hrg_tree()") hrg_tree(hrg = hrg) } # nocov end @@ -86,7 +86,7 @@ hrg.dendrogram <- function(hrg) { #' @export hrg.create <- function(graph, prob) { # nocov start - lifecycle::deprecate_soft("2.0.0", "hrg.create()", "hrg()") + lifecycle::deprecate_warn("2.0.0", "hrg.create()", "hrg()") hrg(graph = graph, prob = prob) } # nocov end @@ -107,7 +107,7 @@ hrg.consensus <- function( num.samples = 10000 ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "hrg.consensus()", "consensus_tree()") + lifecycle::deprecate_warn("2.0.0", "hrg.consensus()", "consensus_tree()") consensus_tree( graph = graph, hrg = hrg, diff --git a/R/incidence.R b/R/incidence.R index 3937ad025af..886aa1a9f8c 100644 --- a/R/incidence.R +++ b/R/incidence.R @@ -17,7 +17,7 @@ graph.incidence <- function( add.names = NULL ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "graph.incidence()", "graph_from_biadjacency_matrix()" @@ -271,7 +271,7 @@ graph_from_biadjacency_matrix <- function( #' @export from_incidence_matrix <- function(...) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "graph_from_incidence_matrix()", "graph_from_biadjacency_matrix()" @@ -294,7 +294,7 @@ from_incidence_matrix <- function(...) { #' @export graph_from_incidence_matrix <- function(...) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "graph_from_incidence_matrix()", "graph_from_biadjacency_matrix()" diff --git a/R/interface.R b/R/interface.R index 7533cfb8285..9cd977cb47c 100644 --- a/R/interface.R +++ b/R/interface.R @@ -10,7 +10,7 @@ #' @export is.directed <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.directed()", "is_directed()") + lifecycle::deprecate_warn("2.0.0", "is.directed()", "is_directed()") is_directed(graph = graph) } # nocov end @@ -26,7 +26,7 @@ is.directed <- function(graph) { #' @export delete.vertices <- function(graph, v) { # nocov start - lifecycle::deprecate_soft("2.0.0", "delete.vertices()", "delete_vertices()") + lifecycle::deprecate_warn("2.0.0", "delete.vertices()", "delete_vertices()") delete_vertices(graph = graph, v = v) } # nocov end @@ -42,7 +42,7 @@ delete.vertices <- function(graph, v) { #' @export delete.edges <- function(graph, edges) { # nocov start - lifecycle::deprecate_soft("2.0.0", "delete.edges()", "delete_edges()") + lifecycle::deprecate_warn("2.0.0", "delete.edges()", "delete_edges()") delete_edges(graph = graph, edges = edges) } # nocov end @@ -58,7 +58,7 @@ delete.edges <- function(graph, edges) { #' @export add.vertices <- function(graph, nv, ..., attr = list()) { # nocov start - lifecycle::deprecate_soft("2.0.0", "add.vertices()", "add_vertices()") + lifecycle::deprecate_warn("2.0.0", "add.vertices()", "add_vertices()") add_vertices(graph = graph, nv = nv, attr = attr, ...) } # nocov end @@ -74,7 +74,7 @@ add.vertices <- function(graph, nv, ..., attr = list()) { #' @export add.edges <- function(graph, edges, ..., attr = list()) { # nocov start - lifecycle::deprecate_soft("2.0.0", "add.edges()", "add_edges()") + lifecycle::deprecate_warn("2.0.0", "add.edges()", "add_edges()") add_edges(graph = graph, edges = edges, attr = attr, ...) } # nocov end # IGraph R package @@ -474,7 +474,7 @@ el_to_vec <- function(x, call = rlang::caller_env()) { "get_edge_ids(vp = 'is not allowed to be a 2 times 2 matrix')" ) } else if (nrow == 2) { - lifecycle::deprecate_warn( + lifecycle::deprecate_stop( "2.1.5", "get_edge_ids(vp = 'supplied as a matrix should be a n times 2 matrix, not 2 times n')", details = "either transpose the matrix with t() or convert it to a data.frame with two columns." @@ -584,9 +584,9 @@ get.edge.ids <- function( lifecycle::deprecate_stop("2.0.0", "get.edge.ids(multi = )") } - lifecycle::deprecate_soft("2.0.0", "get.edge.ids(multi = )") + lifecycle::deprecate_warn("2.0.0", "get.edge.ids(multi = )") } - lifecycle::deprecate_soft("2.1.0", "get.edge.ids()", "get_edge_ids()") + lifecycle::deprecate_warn("2.1.0", "get.edge.ids()", "get_edge_ids()") get_edge_ids(graph = graph, vp = vp, directed = directed, error = error) } diff --git a/R/layout.R b/R/layout.R index 1f14bbe0fb6..cd1166e1b5b 100644 --- a/R/layout.R +++ b/R/layout.R @@ -10,7 +10,7 @@ #' @export piecewise.layout <- function(graph, layout = layout_with_kk, ...) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "piecewise.layout()", "layout_components()" @@ -38,7 +38,7 @@ layout.sugiyama <- function( attributes = c("default", "all", "none") ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "layout.sugiyama()", "layout_with_sugiyama()" @@ -66,7 +66,7 @@ layout.sugiyama <- function( #' @export layout.star <- function(graph, center = V(graph)[1], order = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "layout.star()", "layout_as_star()") + lifecycle::deprecate_warn("2.0.0", "layout.star()", "layout_as_star()") layout_as_star(graph = graph, center = center, order = order) } # nocov end @@ -90,7 +90,7 @@ layout.norm <- function( zmax = 1 ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "layout.norm()", "norm_coords()") + lifecycle::deprecate_warn("2.0.0", "layout.norm()", "norm_coords()") norm_coords( layout = layout, xmin = xmin, @@ -114,7 +114,7 @@ layout.norm <- function( #' @export layout.merge <- function(graphs, layouts, method = "dla") { # nocov start - lifecycle::deprecate_soft("2.0.0", "layout.merge()", "merge_coords()") + lifecycle::deprecate_warn("2.0.0", "layout.merge()", "merge_coords()") merge_coords(graphs = graphs, layouts = layouts, method = method) } # nocov end @@ -135,7 +135,7 @@ layout.mds <- function( options = arpack_defaults() ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "layout.mds()", "layout_with_mds()") + lifecycle::deprecate_warn("2.0.0", "layout.mds()", "layout_with_mds()") layout_with_mds(graph = graph, dist = dist, dim = dim, options = options) } # nocov end @@ -151,7 +151,7 @@ layout.mds <- function( #' @export layout.grid <- function(graph, width = 0, height = 0, dim = 2) { # nocov start - lifecycle::deprecate_soft("2.0.0", "layout.grid()", "layout_on_grid()") + lifecycle::deprecate_warn("2.0.0", "layout.grid()", "layout_on_grid()") layout_on_grid(graph = graph, width = width, height = height, dim = dim) } # nocov end @@ -176,7 +176,7 @@ layout.graphopt <- function( max.sa.movement = 5 ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "layout.graphopt()", "layout_with_graphopt()" @@ -212,7 +212,7 @@ layout.gem <- function( temp.init = sqrt(max(vcount(graph), 1)) ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "layout.gem()", "layout_with_gem()") + lifecycle::deprecate_warn("2.0.0", "layout.gem()", "layout_with_gem()") layout_with_gem( graph = graph, coords = coords, @@ -246,7 +246,7 @@ layout.davidson.harel <- function( weight.node.edge.dist = 0.2 * (1 - edge_density(graph)) ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "layout.davidson.harel()", "layout_with_dh()" @@ -283,7 +283,7 @@ layout.bipartite <- function( maxiter = 100 ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "layout.bipartite()", "layout_as_bipartite()" @@ -309,7 +309,7 @@ layout.bipartite <- function( #' @export layout.auto <- function(graph, dim = 2, ...) { # nocov start - lifecycle::deprecate_soft("2.0.0", "layout.auto()", "layout_nicely()") + lifecycle::deprecate_warn("2.0.0", "layout.auto()", "layout_nicely()") layout_nicely(graph = graph, dim = dim, ...) } # nocov end @@ -890,7 +890,7 @@ as_tree <- function(...) layout_spec(layout_as_tree, ...) #' @keywords internal #' @export layout.reingold.tilford <- function(..., params = list()) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "layout.reingold.tilford()", "layout_as_tree()" @@ -955,7 +955,7 @@ in_circle <- function(...) layout_spec(layout_in_circle, ...) #' @keywords internal #' @export layout.circle <- function(..., params = list()) { - lifecycle::deprecate_soft("2.1.0", "layout.circle()", "layout_in_circle()") + lifecycle::deprecate_warn("2.1.0", "layout.circle()", "layout_in_circle()") do_call(layout_in_circle, .args = c(list(...), params)) } @@ -1144,21 +1144,6 @@ layout_on_grid <- function(graph, width = 0, height = 0, dim = 2) { #' @param ... Passed to `layout_on_grid()`. #' @export on_grid <- function(...) layout_spec(layout_on_grid, ...) - - -#' Simple grid layout -#' @description -#' `r lifecycle::badge("deprecated")` -#' -#' Use [layout_on_grid()]. -#' @inheritParams layout_on_grid -#' @export -#' @export -#' @keywords internal -layout.grid.3d <- function(graph, width = 0, height = 0) { - lifecycle::deprecate_stop("2.1.0", "layout.grid.3d()", "layout_on_grid()") -} - ## ---------------------------------------------------------------- #' Graph layout with vertices on the surface of a sphere @@ -1203,7 +1188,7 @@ on_sphere <- function(...) layout_spec(layout_on_sphere, ...) #' @keywords internal #' @export layout.sphere <- function(..., params = list()) { - lifecycle::deprecate_soft("2.1.0", "layout.sphere()", "layout_on_sphere()") + lifecycle::deprecate_warn("2.1.0", "layout.sphere()", "layout_on_sphere()") do_call(layout_on_sphere, .args = c(list(...), params)) } @@ -1258,7 +1243,7 @@ randomly <- function(...) layout_spec(layout_randomly, ...) #' @keywords internal #' @export layout.random <- function(..., params = list()) { - lifecycle::deprecate_soft("2.1.0", "layout.random()", "layout_randomly()") + lifecycle::deprecate_warn("2.1.0", "layout.random()", "layout_randomly()") do_call(layout_randomly, .args = c(list(...), params)) } @@ -1624,7 +1609,7 @@ with_fr <- function(...) layout_spec(layout_with_fr, ...) #' @keywords internal #' @export layout.fruchterman.reingold <- function(..., params = list()) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "layout.fruchterman.reingold()", "layout_with_fr()" @@ -1982,7 +1967,7 @@ with_kk <- function(...) layout_spec(layout_with_kk, ...) #' @keywords internal #' @export layout.kamada.kawai <- function(..., params = list()) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "layout.kamada.kawai()", "layout_with_kk()" @@ -2068,7 +2053,7 @@ with_lgl <- function(...) layout_spec(layout_with_lgl, ...) #' @keywords internal #' @export layout.lgl <- function(..., params = list()) { - lifecycle::deprecate_soft("2.1.0", "layout.lgl()", "layout_with_lgl()") + lifecycle::deprecate_warn("2.1.0", "layout.lgl()", "layout_with_lgl()") do_call(layout_with_lgl, .args = c(list(...), params)) } @@ -2124,7 +2109,7 @@ layout_with_mds <- function( options = arpack_defaults() ) { if (is.function(options)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "1.6.0", "layout_with_mds(options = 'must be a list')", details = c( @@ -2659,7 +2644,7 @@ layout_components <- function(graph, layout = layout_with_kk, ...) { #' @export #' @keywords internal layout.spring <- function(graph, ...) { - lifecycle::deprecate_warn("2.1.0", "layout.spring()", "layout_with_fr()") + lifecycle::deprecate_stop("2.1.0", "layout.spring()", "layout_with_fr()") layout_with_fr(graph) } @@ -2677,7 +2662,7 @@ layout.spring <- function(graph, ...) { #' @keywords internal #' @export layout.svd <- function(graph, ...) { - lifecycle::deprecate_warn("2.1.0", "layout.svd()", "layout_with_fr()") + lifecycle::deprecate_stop("2.1.0", "layout.svd()", "layout_with_fr()") layout_with_fr(graph) } @@ -2696,7 +2681,7 @@ layout.svd <- function(graph, ...) { #' @keywords internal #' @export layout.fruchterman.reingold.grid <- function(graph, ...) { - lifecycle::deprecate_warn( + lifecycle::deprecate_stop( "2.1.0", "layout.fruchterman.reingold.grid()", "layout_with_fr()" @@ -2723,7 +2708,7 @@ layout.drl <- function( dim = 2 ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "layout.drl()", "layout_with_drl()") + lifecycle::deprecate_warn("2.0.0", "layout.drl()", "layout_with_drl()") layout_with_drl( graph = graph, use.seed = use.seed, diff --git a/R/make.R b/R/make.R index ebb264bed6f..9301e1552f1 100644 --- a/R/make.R +++ b/R/make.R @@ -18,7 +18,7 @@ graph <- function( simplify = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph()", "make_graph()") + lifecycle::deprecate_warn("2.1.0", "graph()", "make_graph()") if (inherits(edges, "formula")) { if (!missing(n)) { cli::cli_abort("{.arg n} should not be given for graph literals") @@ -143,7 +143,7 @@ graph.famous <- function( simplify = TRUE ) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.famous()", "make_graph()") + lifecycle::deprecate_warn("2.1.0", "graph.famous()", "make_graph()") if (inherits(edges, "formula")) { if (!missing(n)) { cli::cli_abort("{.arg n} should not be given for graph literals") @@ -260,7 +260,7 @@ graph.famous <- function( #' @export line.graph <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.1.0", "line.graph()", "make_line_graph()") + lifecycle::deprecate_warn("2.1.0", "line.graph()", "make_line_graph()") ensure_igraph(graph) res <- linegraph_impl( @@ -284,7 +284,7 @@ line.graph <- function(graph) { #' @export graph.ring <- function(n, directed = FALSE, mutual = FALSE, circular = TRUE) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.ring()", "make_ring()") + lifecycle::deprecate_warn("2.1.0", "graph.ring()", "make_ring()") res <- ring_impl( n, directed, @@ -311,7 +311,7 @@ graph.ring <- function(n, directed = FALSE, mutual = FALSE, circular = TRUE) { #' @export graph.tree <- function(n, children = 2, mode = c("out", "in", "undirected")) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.tree()", "make_tree()") + lifecycle::deprecate_warn("2.1.0", "graph.tree()", "make_tree()") mode <- igraph_match_arg(mode) res <- kary_tree_impl( @@ -343,7 +343,7 @@ graph.star <- function( center = 1 ) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.star()", "make_star()") + lifecycle::deprecate_warn("2.1.0", "graph.star()", "make_star()") mode <- igraph_match_arg(mode) res <- star_impl( @@ -371,7 +371,7 @@ graph.star <- function( #' @export graph.lcf <- function(n, shifts, repeats = 1) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.lcf()", "graph_from_lcf()") + lifecycle::deprecate_warn("2.1.0", "graph.lcf()", "graph_from_lcf()") # Use the _impl function lcf_vector_impl( n = n, @@ -401,14 +401,14 @@ graph.lattice <- function( circular = deprecated() ) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.lattice()", "make_lattice()") + lifecycle::deprecate_warn("2.1.0", "graph.lattice()", "make_lattice()") if (is.numeric(length) && length != floor(length)) { cli::cli_warn("{.arg length} was rounded to the nearest integer.") length <- round(length) } if (lifecycle::is_present(circular)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.3", "graph.lattice(circular = 'use periodic argument instead')", details = c("`circular` is now deprecated, use `periodic` instead.") @@ -459,7 +459,7 @@ graph.lattice <- function( #' @export graph.kautz <- function(m, n) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.kautz()", "make_kautz_graph()") + lifecycle::deprecate_warn("2.1.0", "graph.kautz()", "make_kautz_graph()") res <- kautz_impl( m = m, n = n @@ -484,7 +484,7 @@ graph.kautz <- function(m, n) { #' @export graph.full.citation <- function(n, directed = TRUE) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "graph.full.citation()", "make_full_citation_graph()" @@ -516,7 +516,7 @@ graph.full.bipartite <- function( mode = c("all", "out", "in") ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "graph.full.bipartite()", "make_full_bipartite_graph()" @@ -559,7 +559,7 @@ graph.full.bipartite <- function( #' @export graph.full <- function(n, directed = FALSE, loops = FALSE) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.full()", "make_full_graph()") + lifecycle::deprecate_warn("2.1.0", "graph.full()", "make_full_graph()") res <- full_impl( n, directed, @@ -584,7 +584,7 @@ graph.full <- function(n, directed = FALSE, loops = FALSE) { #' @export graph.formula <- function(..., simplify = TRUE) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.formula()", "graph_from_literal()") + lifecycle::deprecate_warn("2.1.0", "graph.formula()", "graph_from_literal()") mf <- as.list(match.call())[-1] graph_from_literal_i(mf) } # nocov end @@ -601,7 +601,7 @@ graph.formula <- function(..., simplify = TRUE) { #' @export graph.extended.chordal.ring <- function(n, w, directed = FALSE) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "graph.extended.chordal.ring()", "make_chordal_ring()" @@ -630,7 +630,7 @@ graph.extended.chordal.ring <- function(n, w, directed = FALSE) { #' @export graph.empty <- function(n = 0, directed = TRUE) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.empty()", "make_empty_graph()") + lifecycle::deprecate_warn("2.1.0", "graph.empty()", "make_empty_graph()") # Function call res <- empty_impl( n = n, @@ -652,7 +652,7 @@ graph.empty <- function(n = 0, directed = TRUE) { #' @export graph.de.bruijn <- function(m, n) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "graph.de.bruijn()", "make_de_bruijn_graph()" @@ -681,7 +681,7 @@ graph.de.bruijn <- function(m, n) { #' @export graph.bipartite <- function(types, edges, directed = FALSE) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "graph.bipartite()", "make_bipartite_graph()" @@ -732,7 +732,7 @@ graph.bipartite <- function(types, edges, directed = FALSE) { #' @export graph.atlas <- function(n) { # nocov start - lifecycle::deprecate_soft("2.1.0", "graph.atlas()", "graph_from_atlas()") + lifecycle::deprecate_warn("2.1.0", "graph.atlas()", "graph_from_atlas()") res <- atlas_impl( number = n ) @@ -1023,7 +1023,7 @@ sample_ <- function(...) { #' graph_(cbind(1:5, 2:6), from_edgelist(directed = FALSE)) #' graph_(cbind(1:5, 2:6), from_edgelist(), directed = FALSE) graph_ <- function(...) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "graph_()", details = c( @@ -1957,7 +1957,7 @@ make_lattice <- function( circular = deprecated() ) { if (lifecycle::is_present(circular)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.3", "make_lattice(circular = 'use periodic argument instead')", details = c("`circular` is now deprecated, use `periodic` instead.") diff --git a/R/minimum.spanning.tree.R b/R/minimum.spanning.tree.R index 2f48bb7d6b5..887f0beb62f 100644 --- a/R/minimum.spanning.tree.R +++ b/R/minimum.spanning.tree.R @@ -15,7 +15,7 @@ minimum.spanning.tree <- function( ... ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "minimum.spanning.tree()", "mst()") + lifecycle::deprecate_warn("2.0.0", "minimum.spanning.tree()", "mst()") mst(graph = graph, weights = weights, algorithm = algorithm, ...) } # nocov end # IGraph R package diff --git a/R/motifs.R b/R/motifs.R index 4c97987133b..694e6f728d1 100644 --- a/R/motifs.R +++ b/R/motifs.R @@ -10,7 +10,7 @@ #' @export triad.census <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "triad.census()", "triad_census()") + lifecycle::deprecate_warn("2.0.0", "triad.census()", "triad_census()") triad_census(graph = graph) } # nocov end @@ -26,7 +26,7 @@ triad.census <- function(graph) { #' @export graph.motifs.no <- function(graph, size = 3, cut.prob = rep(0, size)) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.motifs.no()", "count_motifs()") + lifecycle::deprecate_warn("2.0.0", "graph.motifs.no()", "count_motifs()") count_motifs(graph = graph, size = size, cut.prob = cut.prob) } # nocov end @@ -52,7 +52,7 @@ graph.motifs.est <- function( sample = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.motifs.est()", "sample_motifs()") + lifecycle::deprecate_warn("2.0.0", "graph.motifs.est()", "sample_motifs()") sample_motifs( graph = graph, size = size, @@ -78,7 +78,7 @@ graph.motifs.est <- function( #' @export graph.motifs <- function(graph, size = 3, cut.prob = rep(0, size)) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.motifs()", "motifs()") + lifecycle::deprecate_warn("2.0.0", "graph.motifs()", "motifs()") motifs(graph = graph, size = size, cut.prob = cut.prob) } # nocov end @@ -94,7 +94,7 @@ graph.motifs <- function(graph, size = 3, cut.prob = rep(0, size)) { #' @export dyad.census <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "dyad.census()", "dyad_census()") + lifecycle::deprecate_warn("2.0.0", "dyad.census()", "dyad_census()") dyad_census(graph = graph) } # nocov end diff --git a/R/operators.R b/R/operators.R index 4c3161dc775..27cf7d455ae 100644 --- a/R/operators.R +++ b/R/operators.R @@ -10,7 +10,7 @@ #' @export graph.intersection <- function(...) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.intersection()", "intersection()") + lifecycle::deprecate_warn("2.0.0", "graph.intersection()", "intersection()") intersection(...) } # nocov end @@ -26,7 +26,7 @@ graph.intersection <- function(...) { #' @export graph.union <- function(..., byname = "auto") { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.union()", "union.igraph()") + lifecycle::deprecate_warn("2.0.0", "graph.union()", "union.igraph()") union.igraph(byname = byname, ...) } # nocov end @@ -42,7 +42,7 @@ graph.union <- function(..., byname = "auto") { #' @export graph.difference <- function(...) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.difference()", "difference()") + lifecycle::deprecate_warn("2.0.0", "graph.difference()", "difference()") difference(...) } # nocov end @@ -58,7 +58,7 @@ graph.difference <- function(...) { #' @export graph.disjoint.union <- function(...) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "graph.disjoint.union()", "disjoint_union()" @@ -78,7 +78,7 @@ graph.disjoint.union <- function(...) { #' @export graph.compose <- function(g1, g2, byname = "auto") { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.compose()", "compose()") + lifecycle::deprecate_warn("2.0.0", "graph.compose()", "compose()") compose(g1 = g1, g2 = g2, byname = byname) } # nocov end @@ -94,7 +94,7 @@ graph.compose <- function(g1, g2, byname = "auto") { #' @export graph.complementer <- function(graph, loops = FALSE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.complementer()", "complementer()") + lifecycle::deprecate_warn("2.0.0", "graph.complementer()", "complementer()") complementer(graph = graph, loops = loops) } # nocov end # IGraph R package diff --git a/R/other.R b/R/other.R index fac2f133240..1936d98d7ac 100644 --- a/R/other.R +++ b/R/other.R @@ -10,7 +10,7 @@ #' @export running.mean <- function(v, binwidth) { # nocov start - lifecycle::deprecate_soft("2.0.0", "running.mean()", "running_mean()") + lifecycle::deprecate_warn("2.0.0", "running.mean()", "running_mean()") running_mean(v = v, binwidth = binwidth) } # nocov end @@ -26,7 +26,7 @@ running.mean <- function(v, binwidth) { #' @export igraph.sample <- function(low, high, length) { # nocov start - lifecycle::deprecate_soft("2.0.0", "igraph.sample()", "sample_seq()") + lifecycle::deprecate_warn("2.0.0", "igraph.sample()", "sample_seq()") sample_seq(low = low, high = high, length = length) } # nocov end @@ -42,7 +42,7 @@ igraph.sample <- function(low, high, length) { #' @export convex.hull <- function(data) { # nocov start - lifecycle::deprecate_soft("2.0.0", "convex.hull()", "convex_hull()") + lifecycle::deprecate_warn("2.0.0", "convex.hull()", "convex_hull()") convex_hull(data = data) } # nocov end # IGraph R package diff --git a/R/par.R b/R/par.R index ac5d3d1c3f8..8b32920a48e 100644 --- a/R/par.R +++ b/R/par.R @@ -10,7 +10,7 @@ #' @export igraph.options <- function(...) { # nocov start - lifecycle::deprecate_soft("2.0.0", "igraph.options()", "igraph_options()") + lifecycle::deprecate_warn("2.0.0", "igraph.options()", "igraph_options()") igraph_i_options(...) } # nocov end @@ -26,7 +26,7 @@ igraph.options <- function(...) { #' @export getIgraphOpt <- function(x, default = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "getIgraphOpt()", "igraph_opt()") + lifecycle::deprecate_warn("2.0.0", "getIgraphOpt()", "igraph_opt()") if (missing(default)) { get_config(paste0("igraph::", x), .igraph.pars[[x]]) diff --git a/R/paths.R b/R/paths.R index 093efd56d38..1ff158c6a46 100644 --- a/R/paths.R +++ b/R/paths.R @@ -10,7 +10,7 @@ #' @export path.length.hist <- function(graph, directed = TRUE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "path.length.hist()", "distance_table()") + lifecycle::deprecate_warn("2.0.0", "path.length.hist()", "distance_table()") distance_table(graph = graph, directed = directed) } # nocov end @@ -26,7 +26,7 @@ path.length.hist <- function(graph, directed = TRUE) { #' @export maximum.cardinality.search <- function(graph) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "maximum.cardinality.search()", "max_cardinality()" @@ -46,7 +46,7 @@ maximum.cardinality.search <- function(graph) { #' @export is.dag <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.dag()", "is_dag()") + lifecycle::deprecate_warn("2.0.0", "is.dag()", "is_dag()") is_dag(graph = graph) } # nocov end ## ----------------------------------------------------------------------- @@ -287,7 +287,7 @@ eccentricity <- function( mode = c("all", "out", "in", "total") ) { if (...length() > 0) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "eccentricity(... =)", details = "The argument `mode` must be named." @@ -345,7 +345,7 @@ radius <- function( mode = c("all", "out", "in", "total") ) { if (...length() > 0) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "radius(... =)", details = "The argument `mode` must be named." diff --git a/R/plot.shapes.R b/R/plot.shapes.R index b8380cb10fe..3b2bfffcb2a 100644 --- a/R/plot.shapes.R +++ b/R/plot.shapes.R @@ -10,7 +10,7 @@ #' @export igraph.shape.noplot <- function(coords, v = NULL, params) { # nocov start - lifecycle::deprecate_soft("2.0.0", "igraph.shape.noplot()", "shape_noplot()") + lifecycle::deprecate_warn("2.0.0", "igraph.shape.noplot()", "shape_noplot()") shape_noplot(coords = coords, v = v, params = params) } # nocov end @@ -31,7 +31,7 @@ igraph.shape.noclip <- function( end = c("both", "from", "to") ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "igraph.shape.noclip()", "shape_noclip()") + lifecycle::deprecate_warn("2.0.0", "igraph.shape.noclip()", "shape_noclip()") shape_noclip(coords = coords, el = el, params = params, end = end) } # nocov end @@ -47,7 +47,7 @@ igraph.shape.noclip <- function( #' @export vertex.shapes <- function(shape = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "vertex.shapes()", "shapes()") + lifecycle::deprecate_warn("2.0.0", "vertex.shapes()", "shapes()") shapes(shape = shape) } # nocov end @@ -68,7 +68,7 @@ add.vertex.shape <- function( parameters = list() ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "add.vertex.shape()", "add_shape()") + lifecycle::deprecate_warn("2.0.0", "add.vertex.shape()", "add_shape()") add_shape(shape = shape, clip = clip, plot = plot, parameters = parameters) } # nocov end diff --git a/R/similarity.R b/R/similarity.R index 4fcb4eb9445..aa8c7c5280c 100644 --- a/R/similarity.R +++ b/R/similarity.R @@ -104,7 +104,7 @@ similarity.jaccard <- function( mode = c("all", "out", "in", "total"), loops = FALSE ) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "similarity.jaccard()", "similarity(method)", @@ -135,7 +135,7 @@ similarity.dice <- function( mode = c("all", "out", "in", "total"), loops = FALSE ) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "similarity.dice()", "similarity(method)", @@ -165,7 +165,7 @@ similarity.invlogweighted <- function( vids = V(graph), mode = c("all", "out", "in", "total") ) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "similarity.invlogweighted()", "similarity(method)", diff --git a/R/simple.R b/R/simple.R index 48126722a49..c2de4f1fdbb 100644 --- a/R/simple.R +++ b/R/simple.R @@ -10,7 +10,7 @@ #' @export is.simple <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.simple()", "is_simple()") + lifecycle::deprecate_warn("2.0.0", "is.simple()", "is_simple()") is_simple(graph = graph) } # nocov end diff --git a/R/stochastic_matrix.R b/R/stochastic_matrix.R index b829072fb1a..01ece7ee3ca 100644 --- a/R/stochastic_matrix.R +++ b/R/stochastic_matrix.R @@ -14,7 +14,7 @@ get.stochastic <- function( sparse = igraph_opt("sparsematrices") ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.stochastic()", "stochastic_matrix()") + lifecycle::deprecate_warn("2.0.0", "get.stochastic()", "stochastic_matrix()") stochastic_matrix(graph = graph, column.wise = column.wise, sparse = sparse) } # nocov end # IGraph R package diff --git a/R/structural-properties.R b/R/structural-properties.R index c6c99025cf1..17f85cfbad5 100644 --- a/R/structural-properties.R +++ b/R/structural-properties.R @@ -20,7 +20,7 @@ get.shortest.paths <- function( algorithm = c("automatic", "unweighted", "dijkstra", "bellman-ford") ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.shortest.paths()", "shortest_paths()") + lifecycle::deprecate_warn("2.0.0", "get.shortest.paths()", "shortest_paths()") shortest_paths( graph = graph, from = from, @@ -52,7 +52,7 @@ get.all.shortest.paths <- function( weights = NULL ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "get.all.shortest.paths()", "all_shortest_paths()" @@ -83,7 +83,7 @@ get.diameter <- function( weights = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "get.diameter()", "get_diameter()") + lifecycle::deprecate_warn("2.0.0", "get.diameter()", "get_diameter()") get_diameter( graph = graph, directed = directed, @@ -104,7 +104,7 @@ get.diameter <- function( #' @export unfold.tree <- function(graph, mode = c("all", "out", "in", "total"), roots) { # nocov start - lifecycle::deprecate_soft("2.0.0", "unfold.tree()", "unfold_tree()") + lifecycle::deprecate_warn("2.0.0", "unfold.tree()", "unfold_tree()") unfold_tree(graph = graph, mode = mode, roots = roots) } # nocov end @@ -120,7 +120,7 @@ unfold.tree <- function(graph, mode = c("all", "out", "in", "total"), roots) { #' @export topological.sort <- function(graph, mode = c("out", "all", "in")) { # nocov start - lifecycle::deprecate_soft("2.0.0", "topological.sort()", "topo_sort()") + lifecycle::deprecate_warn("2.0.0", "topological.sort()", "topo_sort()") topo_sort(graph = graph, mode = mode) } # nocov end @@ -149,7 +149,7 @@ shortest.paths <- function( ) ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "shortest.paths()", "distances()") + lifecycle::deprecate_warn("2.0.0", "shortest.paths()", "distances()") algorithm <- igraph_match_arg(algorithm) mode <- igraph_match_arg(mode) distances( @@ -180,7 +180,7 @@ neighborhood.size <- function( mindist = 0 ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "neighborhood.size()", "ego_size()") + lifecycle::deprecate_warn("2.0.0", "neighborhood.size()", "ego_size()") ego_size( graph = graph, order = order, @@ -207,7 +207,7 @@ maximum.bipartite.matching <- function( eps = .Machine$double.eps ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "maximum.bipartite.matching()", "max_bipartite_match()" @@ -232,7 +232,7 @@ maximum.bipartite.matching <- function( #' @export is.mutual <- function(graph, eids = E(graph), loops = TRUE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.mutual()", "which_mutual()") + lifecycle::deprecate_warn("2.0.0", "is.mutual()", "which_mutual()") which_mutual(graph = graph, eids = eids, loops = loops) } # nocov end @@ -248,7 +248,7 @@ is.mutual <- function(graph, eids = E(graph), loops = TRUE) { #' @export is.multiple <- function(graph, eids = E(graph)) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.multiple()", "which_multiple()") + lifecycle::deprecate_warn("2.0.0", "is.multiple()", "which_multiple()") which_multiple(graph = graph, eids = eids) } # nocov end @@ -264,7 +264,7 @@ is.multiple <- function(graph, eids = E(graph)) { #' @export is.maximal.matching <- function(graph, matching, types = NULL) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "is.maximal.matching()", "is_max_matching()" @@ -284,7 +284,7 @@ is.maximal.matching <- function(graph, matching, types = NULL) { #' @export is.matching <- function(graph, matching, types = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.matching()", "is_matching()") + lifecycle::deprecate_warn("2.0.0", "is.matching()", "is_matching()") is_matching(graph = graph, matching = matching, types = types) } # nocov end @@ -300,7 +300,7 @@ is.matching <- function(graph, matching, types = NULL) { #' @export is.loop <- function(graph, eids = E(graph)) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.loop()", "which_loop()") + lifecycle::deprecate_warn("2.0.0", "is.loop()", "which_loop()") which_loop(graph = graph, eids = eids) } # nocov end @@ -316,7 +316,7 @@ is.loop <- function(graph, eids = E(graph)) { #' @export is.connected <- function(graph, mode = c("weak", "strong")) { # nocov start - lifecycle::deprecate_soft("2.0.0", "is.connected()", "is_connected()") + lifecycle::deprecate_warn("2.0.0", "is.connected()", "is_connected()") is_connected(graph = graph, mode = mode) } # nocov end @@ -336,7 +336,7 @@ induced.subgraph <- function( impl = c("auto", "copy_and_delete", "create_from_scratch") ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "induced.subgraph()", "induced_subgraph()") + lifecycle::deprecate_warn("2.0.0", "induced.subgraph()", "induced_subgraph()") induced_subgraph(graph = graph, vids = vids, impl = impl) } # nocov end @@ -352,7 +352,7 @@ induced.subgraph <- function( #' @export has.multiple <- function(graph) { # nocov start - lifecycle::deprecate_soft("2.0.0", "has.multiple()", "any_multiple()") + lifecycle::deprecate_warn("2.0.0", "has.multiple()", "any_multiple()") any_multiple(graph = graph) } # nocov end @@ -374,7 +374,7 @@ graph.neighborhood <- function( mindist = 0 ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.neighborhood()", "make_ego_graph()") + lifecycle::deprecate_warn("2.0.0", "graph.neighborhood()", "make_ego_graph()") make_ego_graph( graph = graph, order = order, @@ -401,7 +401,7 @@ graph.laplacian <- function( sparse = igraph_opt("sparsematrices") ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.laplacian()", "laplacian_matrix()") + lifecycle::deprecate_warn("2.0.0", "graph.laplacian()", "laplacian_matrix()") laplacian_matrix( graph = graph, normalized = normalized, @@ -428,7 +428,7 @@ graph.knn <- function( weights = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.knn()", "knn()") + lifecycle::deprecate_warn("2.0.0", "graph.knn()", "knn()") knn( graph = graph, vids = vids, @@ -465,7 +465,7 @@ graph.dfs <- function( neimode ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.dfs()", "dfs()") + lifecycle::deprecate_warn("2.0.0", "graph.dfs()", "dfs()") dfs( graph = graph, root = root, @@ -495,7 +495,7 @@ graph.dfs <- function( #' @export graph.density <- function(graph, loops = FALSE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.density()", "edge_density()") + lifecycle::deprecate_warn("2.0.0", "graph.density()", "edge_density()") edge_density(graph = graph, loops = loops) } # nocov end @@ -511,7 +511,7 @@ graph.density <- function(graph, loops = FALSE) { #' @export graph.coreness <- function(graph, mode = c("all", "out", "in")) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.coreness()", "coreness()") + lifecycle::deprecate_warn("2.0.0", "graph.coreness()", "coreness()") coreness(graph = graph, mode = mode) } # nocov end @@ -544,7 +544,7 @@ graph.bfs <- function( neimode ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "graph.bfs()", "bfs()") + lifecycle::deprecate_warn("2.0.0", "graph.bfs()", "bfs()") bfs( graph = graph, root = root, @@ -581,7 +581,7 @@ farthest.nodes <- function( weights = NULL ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "farthest.nodes()", "farthest_vertices()") + lifecycle::deprecate_warn("2.0.0", "farthest.nodes()", "farthest_vertices()") farthest_vertices( graph = graph, directed = directed, @@ -602,7 +602,7 @@ farthest.nodes <- function( #' @export degree.distribution <- function(graph, cumulative = FALSE, ...) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "degree.distribution()", "degree_distribution()" @@ -622,7 +622,7 @@ degree.distribution <- function(graph, cumulative = FALSE, ...) { #' @export count.multiple <- function(graph, eids = E(graph)) { # nocov start - lifecycle::deprecate_soft("2.0.0", "count.multiple()", "count_multiple()") + lifecycle::deprecate_warn("2.0.0", "count.multiple()", "count_multiple()") count_multiple(graph = graph, eids = eids) } # nocov end @@ -638,7 +638,7 @@ count.multiple <- function(graph, eids = E(graph)) { #' @export clusters <- function(graph, mode = c("weak", "strong")) { # nocov start - lifecycle::deprecate_soft("2.0.0", "clusters()", "components()") + lifecycle::deprecate_warn("2.0.0", "clusters()", "components()") components(graph = graph, mode = mode) } # nocov end @@ -660,7 +660,7 @@ average.path.length <- function( details = FALSE ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "average.path.length()", "mean_distance()") + lifecycle::deprecate_warn("2.0.0", "average.path.length()", "mean_distance()") mean_distance( graph = graph, weights = weights, @@ -1639,7 +1639,7 @@ subgraph_from_edges <- function(graph, eids, delete.vertices = TRUE) { #' @export subgraph.edges <- function(graph, eids, delete.vertices = TRUE) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.1.0", "subgraph.edges()", "subgraph_from_edges()" @@ -2725,7 +2725,7 @@ bfs <- function( } if (lifecycle::is_present(father)) { - lifecycle::deprecate_warn("2.2.0", "bfs(father = )", "bfs(parent = )") + lifecycle::deprecate_stop("2.2.0", "bfs(father = )", "bfs(parent = )") if (missing(parent)) { parent <- father } @@ -2987,7 +2987,7 @@ dfs <- function( } if (lifecycle::is_present(father)) { - lifecycle::deprecate_warn("2.2.0", "dfs(father = )", "dfs(parent = )") + lifecycle::deprecate_stop("2.2.0", "dfs(father = )", "dfs(parent = )") if (missing(parent)) { parent <- father } @@ -3336,7 +3336,7 @@ laplacian_matrix <- function( ) { # Argument checks if (lifecycle::is_present(normalized)) { - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.3", "make_lattice(normalized = 'provide normalization instead')", details = c( diff --git a/R/structure.info.R b/R/structure.info.R index 813a2a9f93a..3f24c0f6b5b 100644 --- a/R/structure.info.R +++ b/R/structure.info.R @@ -10,7 +10,7 @@ #' @export are.connected <- function(graph, v1, v2) { # nocov start - lifecycle::deprecate_soft("2.0.0", "are.connected()", "are_adjacent()") + lifecycle::deprecate_warn("2.0.0", "are.connected()", "are_adjacent()") are_adjacent(graph = graph, v1 = v1, v2 = v2) } # nocov end diff --git a/R/tkplot.R b/R/tkplot.R index 0e39ec364a8..1092800a955 100644 --- a/R/tkplot.R +++ b/R/tkplot.R @@ -10,7 +10,7 @@ #' @export tkplot.setcoords <- function(tkp.id, coords) { # nocov start - lifecycle::deprecate_soft("2.0.0", "tkplot.setcoords()", "tk_set_coords()") + lifecycle::deprecate_warn("2.0.0", "tkplot.setcoords()", "tk_set_coords()") tk_set_coords(tkp.id = tkp.id, coords = coords) } # nocov end @@ -26,7 +26,7 @@ tkplot.setcoords <- function(tkp.id, coords) { #' @export tkplot.rotate <- function(tkp.id, degree = NULL, rad = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "tkplot.rotate()", "tk_rotate()") + lifecycle::deprecate_warn("2.0.0", "tkplot.rotate()", "tk_rotate()") tk_rotate(tkp.id = tkp.id, degree = degree, rad = rad) } # nocov end @@ -42,7 +42,7 @@ tkplot.rotate <- function(tkp.id, degree = NULL, rad = NULL) { #' @export tkplot.reshape <- function(tkp.id, newlayout, ..., params) { # nocov start - lifecycle::deprecate_soft("2.0.0", "tkplot.reshape()", "tk_reshape()") + lifecycle::deprecate_warn("2.0.0", "tkplot.reshape()", "tk_reshape()") tk_reshape(tkp.id = tkp.id, newlayout = newlayout, params = params, ...) } # nocov end @@ -58,7 +58,7 @@ tkplot.reshape <- function(tkp.id, newlayout, ..., params) { #' @export tkplot.off <- function() { # nocov start - lifecycle::deprecate_soft("2.0.0", "tkplot.off()", "tk_off()") + lifecycle::deprecate_warn("2.0.0", "tkplot.off()", "tk_off()") tk_off() } # nocov end @@ -74,7 +74,7 @@ tkplot.off <- function() { #' @export tkplot.getcoords <- function(tkp.id, norm = FALSE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "tkplot.getcoords()", "tk_coords()") + lifecycle::deprecate_warn("2.0.0", "tkplot.getcoords()", "tk_coords()") tk_coords(tkp.id = tkp.id, norm = norm) } # nocov end @@ -90,7 +90,7 @@ tkplot.getcoords <- function(tkp.id, norm = FALSE) { #' @export tkplot.fit.to.screen <- function(tkp.id, width = NULL, height = NULL) { # nocov start - lifecycle::deprecate_soft("2.0.0", "tkplot.fit.to.screen()", "tk_fit()") + lifecycle::deprecate_warn("2.0.0", "tkplot.fit.to.screen()", "tk_fit()") tk_fit(tkp.id = tkp.id, width = width, height = height) } # nocov end @@ -106,7 +106,7 @@ tkplot.fit.to.screen <- function(tkp.id, width = NULL, height = NULL) { #' @export tkplot.export.postscript <- function(tkp.id) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "tkplot.export.postscript()", "tk_postscript()" @@ -126,7 +126,7 @@ tkplot.export.postscript <- function(tkp.id) { #' @export tkplot.close <- function(tkp.id, window.close = TRUE) { # nocov start - lifecycle::deprecate_soft("2.0.0", "tkplot.close()", "tk_close()") + lifecycle::deprecate_warn("2.0.0", "tkplot.close()", "tk_close()") tk_close(tkp.id = tkp.id, window.close = window.close) } # nocov end @@ -142,7 +142,7 @@ tkplot.close <- function(tkp.id, window.close = TRUE) { #' @export tkplot.center <- function(tkp.id) { # nocov start - lifecycle::deprecate_soft("2.0.0", "tkplot.center()", "tk_center()") + lifecycle::deprecate_warn("2.0.0", "tkplot.center()", "tk_center()") tk_center(tkp.id = tkp.id) } # nocov end @@ -158,7 +158,7 @@ tkplot.center <- function(tkp.id) { #' @export tkplot.canvas <- function(tkp.id) { # nocov start - lifecycle::deprecate_soft("2.0.0", "tkplot.canvas()", "tk_canvas()") + lifecycle::deprecate_warn("2.0.0", "tkplot.canvas()", "tk_canvas()") tk_canvas(tkp.id = tkp.id) } # nocov end # IGraph R package diff --git a/R/topology.R b/R/topology.R index 8386e479087..2d951b778c8 100644 --- a/R/topology.R +++ b/R/topology.R @@ -10,7 +10,7 @@ #' @export permute.vertices <- function(graph, permutation) { # nocov start - lifecycle::deprecate_soft("2.0.0", "permute.vertices()", "permute()") + lifecycle::deprecate_warn("2.0.0", "permute.vertices()", "permute()") permute(graph = graph, permutation = permutation) } # nocov end @@ -26,7 +26,7 @@ permute.vertices <- function(graph, permutation) { #' @export graph.isocreate <- function(size, number, directed = TRUE) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "graph.isocreate()", "graph_from_isomorphism_class()" @@ -54,7 +54,7 @@ graph.automorphisms <- function( sh = c("fm", "f", "fs", "fl", "flm", "fsm") ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "graph.automorphisms()", "count_automorphisms()" @@ -78,7 +78,7 @@ canonical.permutation <- function( sh = c("fm", "f", "fs", "fl", "flm", "fsm") ) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "canonical.permutation()", "canonical_permutation()" @@ -102,7 +102,7 @@ automorphisms <- function( sh = c("fm", "f", "fs", "fl", "flm", "fsm") ) { # nocov start - lifecycle::deprecate_soft("2.0.0", "automorphisms()", "count_automorphisms()") + lifecycle::deprecate_warn("2.0.0", "automorphisms()", "count_automorphisms()") count_automorphisms(graph = graph, colors = colors, sh = sh) } # nocov end diff --git a/R/triangles.R b/R/triangles.R index a318bc66c6e..723d1fc08bb 100644 --- a/R/triangles.R +++ b/R/triangles.R @@ -10,7 +10,7 @@ #' @export adjacent.triangles <- function(graph, vids = V(graph)) { # nocov start - lifecycle::deprecate_soft( + lifecycle::deprecate_warn( "2.0.0", "adjacent.triangles()", "count_triangles()" diff --git a/R/versions.R b/R/versions.R index 4855aa30ffe..5effcc955f6 100644 --- a/R/versions.R +++ b/R/versions.R @@ -202,7 +202,7 @@ clear_native_ptr <- function(g) { #' @export igraph.version <- function() { # nocov start - lifecycle::deprecate_soft("2.0.0", "igraph.version()", "igraph_version()") + lifecycle::deprecate_warn("2.0.0", "igraph.version()", "igraph_version()") igraph_version() } # nocov end diff --git a/man/get.edge.Rd b/man/get.edge.Rd deleted file mode 100644 index d416b1ff1d7..00000000000 --- a/man/get.edge.Rd +++ /dev/null @@ -1,17 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/basic.R -\name{get.edge} -\alias{get.edge} -\title{Incident vertices of some graph edges} -\usage{ -get.edge(graph, id) -} -\arguments{ -\item{graph}{The input graph} -} -\description{ -\ifelse{html}{\href{https://lifecycle.r-lib.org/articles/stages.html#deprecated}{\figure{lifecycle-deprecated.svg}{options: alt='[Deprecated]'}}}{\strong{[Deprecated]}} - -Use \code{\link[=ends]{ends()}}. -} -\keyword{internal} diff --git a/man/layout.grid.3d.Rd b/man/layout.grid.3d.Rd deleted file mode 100644 index e61f36a8654..00000000000 --- a/man/layout.grid.3d.Rd +++ /dev/null @@ -1,26 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/layout.R -\name{layout.grid.3d} -\alias{layout.grid.3d} -\title{Simple grid layout} -\usage{ -layout.grid.3d(graph, width = 0, height = 0) -} -\arguments{ -\item{graph}{The input graph.} - -\item{width}{The number of vertices in a single row of the grid. If this is -zero or negative, then for 2d layouts the width of the grid will be the -square root of the number of vertices in the graph, rounded up to the next -integer. Similarly, it will be the cube root for 3d layouts.} - -\item{height}{The number of vertices in a single column of the grid, for -three dimensional layouts. If this is zero or negative, then it is -determinted automatically.} -} -\description{ -\ifelse{html}{\href{https://lifecycle.r-lib.org/articles/stages.html#deprecated}{\figure{lifecycle-deprecated.svg}{options: alt='[Deprecated]'}}}{\strong{[Deprecated]}} - -Use \code{\link[=layout_on_grid]{layout_on_grid()}}. -} -\keyword{internal} diff --git a/revdep/README.md b/revdep/README.md index 2cbd0be4e0a..56bff1024a6 100644 --- a/revdep/README.md +++ b/revdep/README.md @@ -1,21 +1,37 @@ # Revdeps -## Failed to check (3) +## Failed to check (10) |package |version |error |warning |note | |:-----------|:-------|:-----|:-------|:----| -|caugi |1.0.0 |1 | | | -|ClustAssess |? | | | | +|blavaan |0.5-10 |1 | | | +|caugi |1.2.0 |1 | | | +|deepSTRAPP |? | | | | +|ggpicrust2 |? | | | | +|MiscMetabar |? | | | | +|richCluster |? | | | | +|rsat |0.1.21 |1 | | | +|scAnnotate |0.3 |1 | | | +|spopt |0.1.2 |1 | | | |streamDAG |? | | | | -## New problems (6) +## New problems (15) -|package |version |error |warning |note | -|:----------|:--------|:------|:-------|:----| -|[Cascade](problems.md#cascade)|2.3 | |__+1__ | | -|[DiagrammeR](problems.md#diagrammer)|1.0.11 |__+2__ | | | -|[jewel](problems.md#jewel)|2.0.2 |__+1__ | | | -|[manynet](problems.md#manynet)|1.7.0 |__+1__ | | | -|[rSpectral](problems.md#rspectral)|1.0.0.14 |__+1__ | | | -|[sfnetworks](problems.md#sfnetworks)|0.6.5 |__+1__ | | | +|package |version |error |warning |note | +|:----------|:-------|:------|:-------|:------| +|[comato](problems.md#comato)|1.1 |__+1__ | | | +|[cranly](problems.md#cranly)|0.6.0 |__+1__ | | | +|[dci](problems.md#dci)|1.0.3 |__+3__ | | | +|[degreenet](problems.md#degreenet)|1.3-6 |__+1__ | | | +|[ECoL](problems.md#ecol)|0.3.0 |__+2__ | | | +|[FrF2](problems.md#frf2)|2.3-4 | | |__+1__ | +|[ggraph](problems.md#ggraph)|2.2.2 |__+2__ | | | +|[GoodFitSBM](problems.md#goodfitsbm)|0.0.1 |__+1__ | | | +|[migraph](problems.md#migraph)|1.6.2 |__+1__ | | | +|[nat](problems.md#nat)|1.8.25 |__+3__ | | | +|[qgraph](problems.md#qgraph)|1.9.8 |__+1__ | | | +|[R6causal](problems.md#r6causal)|0.8.3 | |__+1__ | | +|[scistreer](problems.md#scistreer)|1.2.1 |__+1__ | |1 | +|[tidygraph](problems.md#tidygraph)|1.3.1 |__+2__ | |1 | +|[vkR](problems.md#vkr)|0.2 | |__+1__ | | diff --git a/revdep/cran.md b/revdep/cran.md index 43fa6123212..2f5dfaab7ed 100644 --- a/revdep/cran.md +++ b/revdep/cran.md @@ -1,36 +1,74 @@ ## revdepcheck results -We checked 2210 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package. +We checked 2283 reverse dependencies (2281 from CRAN + 2 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package. - * We saw 6 new problems - * We failed to check 3 packages + * We saw 15 new problems + * We failed to check 8 packages Issues with CRAN packages are summarised below. ### New problems (This reports the first line of each new failure) -* Cascade - checking whether package ‘Cascade’ can be installed ... WARNING +* comato + checking examples ... ERROR + +* cranly + checking re-building of vignette outputs ... ERROR -* DiagrammeR +* dci checking examples ... ERROR checking tests ... ERROR + checking re-building of vignette outputs ... ERROR + +* degreenet + checking examples ... ERROR + +* ECoL + checking examples ... ERROR + checking tests ... ERROR + +* FrF2 + checking tests ... NOTE + +* ggraph + checking examples ... ERROR + checking re-building of vignette outputs ... ERROR -* jewel +* GoodFitSBM checking examples ... ERROR -* manynet +* migraph checking tests ... ERROR -* rSpectral +* nat + checking examples ... ERROR checking tests ... ERROR + checking re-building of vignette outputs ... ERROR + +* qgraph + checking examples ... ERROR + +* R6causal + checking whether package ‘R6causal’ can be installed ... WARNING -* sfnetworks +* scistreer + checking examples ... ERROR + +* tidygraph + checking examples ... ERROR checking tests ... ERROR +* vkR + checking dependencies in R code ... WARNING + ### Failed to check -* caugi (NA) -* ClustAssess (NA) -* streamDAG (NA) +* blavaan (NA) +* caugi (NA) +* deepSTRAPP (NA) +* ggpicrust2 (NA) +* rsat (NA) +* scAnnotate (NA) +* spopt (NA) +* streamDAG (NA) diff --git a/revdep/failures.md b/revdep/failures.md index c71008bc42f..8322cef76f9 100644 --- a/revdep/failures.md +++ b/revdep/failures.md @@ -1,4 +1,2036 @@ -# caugi (1.0.0) +# blavaan (0.5-10) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "blavaan")` for more info + +## In both + +* checking whether package ‘blavaan’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/blavaan/new/blavaan.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘blavaan’ ... +** this is package ‘blavaan’ version ‘0.5-10’ +** package ‘blavaan’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0’ +using C++17 + + +g++ -std=gnu++17 -I"/opt/R/4.5.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/tmp/r-deps/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/tmp/r-deps/StanHeaders/include' -I'/tmp/r-deps/rstan/include' -I'/tmp/r-deps/BH/include' -I'/tmp/r-deps/Rcpp/include' -I'/tmp/r-deps/RcppEigen/include' -I'/tmp/r-deps/RcppParallel/include' -I/usr/local/include -I'/tmp/r-deps/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:205, + from /tmp/r-deps/RcppEigen/include/Eigen/Dense:1, + from /tmp/r-deps/RcppEigen/include/RcppEigenForward.h:28, + from /tmp/r-deps/RcppEigen/include/RcppEigen.h:25, + from RcppExports.cpp:4: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:46:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 46 | typedef eigen_packet_wrapper<__m128i, 0> Packet4i; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:47:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 47 | typedef eigen_packet_wrapper<__m128i, 1> Packet16b; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:49:39: warning: ignoring attributes on template argument ‘__m128’ [-Wignored-attributes] + 49 | template<> struct is_arithmetic<__m128> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:50:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 50 | template<> struct is_arithmetic<__m128i> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:51:40: warning: ignoring attributes on template argument ‘__m128d’ [-Wignored-attributes] + 51 | template<> struct is_arithmetic<__m128d> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:222:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 222 | template<> struct unpacket_traits { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:228:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 228 | template<> struct unpacket_traits { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1124:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 1124 | ptranspose(PacketBlock& kernel) { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1129:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 1129 | ptranspose(PacketBlock& kernel) { + | ^ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:174: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 16 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 29 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 16 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 29 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:165: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:24:46: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(4) float>::half’ {aka ‘__m128’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 208 | typedef typename find_best_packet_helper::type>::type type; + | ^~~~ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:271: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:27:3: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:98:47: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 208 | typedef typename find_best_packet_helper::type>::type type; + | ^~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:102:3: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/SparseCore:37, + from /tmp/r-deps/RcppEigen/include/Eigen/Sparse:26, + from /tmp/r-deps/RcppEigen/include/RcppEigenForward.h:29: +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h: In instantiation of ‘class Eigen::SparseMatrixBase >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseCompressedBase.h:36:7: required from ‘class Eigen::SparseCompressedBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:96:7: required from ‘class Eigen::SparseMatrix’ +/tmp/r-deps/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/ConstrainedConjGrad.h:61:25: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h:47:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 47 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ + + +g++ -std=gnu++17 -I"/opt/R/4.5.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/tmp/r-deps/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/tmp/r-deps/StanHeaders/include' -I'/tmp/r-deps/rstan/include' -I'/tmp/r-deps/BH/include' -I'/tmp/r-deps/Rcpp/include' -I'/tmp/r-deps/RcppEigen/include' -I'/tmp/r-deps/RcppParallel/include' -I/usr/local/include -I'/tmp/r-deps/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c stanExports_stanmarg.cc -o stanExports_stanmarg.o +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:205, + from /tmp/r-deps/RcppEigen/include/Eigen/Dense:1, + from /tmp/r-deps/StanHeaders/include/stan/math/prim/fun/Eigen.hpp:32, + from /tmp/r-deps/rstan/include/rstan/rstaninc.hpp:3, + from stanExports_stanmarg.h:23, + from stanExports_stanmarg.cc:5: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:46:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 46 | typedef eigen_packet_wrapper<__m128i, 0> Packet4i; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:47:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 47 | typedef eigen_packet_wrapper<__m128i, 1> Packet16b; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:49:39: warning: ignoring attributes on template argument ‘__m128’ [-Wignored-attributes] + 49 | template<> struct is_arithmetic<__m128> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:50:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 50 | template<> struct is_arithmetic<__m128i> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:51:40: warning: ignoring attributes on template argument ‘__m128d’ [-Wignored-attributes] + 51 | template<> struct is_arithmetic<__m128d> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:222:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 222 | template<> struct unpacket_traits { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:228:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 228 | template<> struct unpacket_traits { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1124:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 1124 | ptranspose(PacketBlock& kernel) { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1129:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 1129 | ptranspose(PacketBlock& kernel) { + | ^ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:174: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 16 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 29 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 16 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 29 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:165: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:24:46: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(4) float>::half’ {aka ‘__m128’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 208 | typedef typename find_best_packet_helper::type>::type type; + | ^~~~ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:271: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:27:3: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:98:47: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 208 | typedef typename find_best_packet_helper::type>::type type; + | ^~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:102:3: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +In file included from /tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:17, + from /tmp/r-deps/BH/include/boost/shared_ptr.hpp:17, + from /tmp/r-deps/BH/include/boost/date_time/time_clock.hpp:17, + from /tmp/r-deps/BH/include/boost/date_time/posix_time/posix_time_types.hpp:10, + from /tmp/r-deps/rstan/include/rstan/stan_fit.hpp:15, + from /tmp/r-deps/rstan/include/rstan/rstaninc.hpp:4: +/tmp/r-deps/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 294 | explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) ) + | ^~~~~~~~ +In file included from /usr/include/c++/13/memory:78, + from /tmp/r-deps/rstan/include/rstan/stan_fit.hpp:7: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 354 | explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn() + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 365 | shared_ptr( std::auto_ptr && r ): px(r.get()), pn() + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 423 | shared_ptr & operator=( std::auto_ptr & r ) + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 430 | shared_ptr & operator=( std::auto_ptr && r ) + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’: +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 432 | this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this ); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:82:22: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 208 | typedef typename find_best_packet_helper::type>::type type; + | ^~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:82:22: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase >, 2>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose >’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:82:32: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:93:22: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase >, 2>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose >’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:93:32: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:105:22: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +In file included from /tmp/r-deps/RcppEigen/include/Eigen/SparseCore:37, + from /tmp/r-deps/RcppEigen/include/Eigen/Sparse:26, + from /tmp/r-deps/StanHeaders/include/stan/math/prim/fun/Eigen.hpp:33: +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h: In instantiation of ‘class Eigen::SparseMatrixBase >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseCompressedBase.h:36:7: required from ‘class Eigen::SparseCompressedBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:96:7: required from ‘class Eigen::SparseMatrix’ +/tmp/r-deps/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/ConstrainedConjGrad.h:61:25: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h:47:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 47 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0>, 2>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Diagonal.h:63:53: required from ‘class Eigen::Diagonal, 0>’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/err/check_pos_definite.hpp:47:29: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0> >, 2>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper, 0> >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/err/check_pos_definite.hpp:47:41: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Array >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Array > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, Eigen::Array > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Array >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:38:28: required from ‘struct Eigen::internal::traits, const Eigen::ArrayWrapper, 0> >, const Eigen::CwiseNullaryOp, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::ArrayWrapper, 0> >, const Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::ArrayWrapper, 0> >, const Eigen::CwiseNullaryOp, Eigen::Array > >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/err/check_pos_definite.hpp:47:45: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/generate_laplace_options.hpp:28:47: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int>(Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int)::, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int>(Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int)::, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int>(Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int)::, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int>(Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int)::, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int>(Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int)::, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > > >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/select.hpp:146:17: required from ‘auto stan::math::select(T_bool, T_true, T_false) [with T_bool = Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >; T_true = int; T_false = int; stan::require_eigen_array_vt* = 0; stan::require_all_stan_scalar_t* = 0]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/grad_pFq.hpp:130:35: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Array.h:45:7: required from ‘class Eigen::Array’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/select.hpp:149:12: required from ‘auto stan::math::select(T_bool, T_true, T_false) [with T_bool = Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >; T_true = int; T_false = int; stan::require_eigen_array_vt* = 0; stan::require_all_stan_scalar_t* = 0]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/grad_pFq.hpp:130:35: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:513:38: required from ‘struct Eigen::internal::cast_return_type, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array >, const Eigen::CwiseUnaryOp, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/../plugins/CommonCwiseUnaryOps.h:48:179: required from ‘struct Eigen::DenseBase, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > >::CastXpr’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/../plugins/CommonCwiseUnaryOps.h:62:1: required by substitution of ‘template typename Eigen::DenseBase, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > >::CastXpr::Type Eigen::DenseBase, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > >::cast() const [with NewType = double]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/select.hpp:171:56: required from ‘auto stan::math::select(T_bool, T_true, T_false) [with T_bool = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >; T_true = int; T_false = Eigen::Array; stan::require_eigen_array_t* = 0; stan::require_any_eigen_array_t* = 0]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/grad_pFq.hpp:172:24: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/linspaced_array.hpp:37:49: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/linspaced_row_vector.hpp:32:39: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Array >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Array > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, Eigen::Array > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Array >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/lmgamma.hpp:58:72: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Array >, const Eigen::CwiseNullaryOp, Eigen::Array > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Array >, const Eigen::CwiseNullaryOp, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, const Eigen::CwiseNullaryOp, const Eigen::Array >, const Eigen::CwiseNullaryOp, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::CwiseNullaryOp, const Eigen::Array >, const Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Array >, const Eigen::CwiseNullaryOp, Eigen::Array > >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/lmgamma.hpp:58:77: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 0>, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 0>, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Diagonal.h:63:53: required from ‘class Eigen::Diagonal, 0>’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/matrix_exp_action_handler.hpp:71:17: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 0> >, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 0> >, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper, 0> >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/matrix_exp_action_handler.hpp:71:29: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, Eigen::Matrix, 0, 8>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, Eigen::Matrix, 0, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, Eigen::Matrix, 0>’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/matrix_exp_action_handler.hpp:86:43: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Matrix >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::Matrix, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::Matrix >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/matrix_exp_action_handler.hpp:106:22: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Matrix >, Eigen::internal::member_sum, 1>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Matrix >, Eigen::internal::member_sum, 1> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Matrix >, Eigen::internal::member_sum, 1> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/VectorwiseOp.h:56:7: required from ‘class Eigen::PartialReduxExpr, const Eigen::Matrix >, Eigen::internal::member_sum, 1>’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/matrix_exp_action_handler.hpp:106:38: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase >, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase >, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/ceil.hpp:63:72: required from ‘stan::math::ceil&>(Eigen::Matrix&):: [with auto:263 = Eigen::Matrix&]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/functor/apply_vector_unary.hpp:46:44: required from ‘static auto stan::math::apply_vector_unary::type>::value, void>::type>::apply(T2&&, F&&) [with F = stan::math::ceil&>(Eigen::Matrix&)::; T2 = Eigen::Matrix&; stan::require_t::type, void>::type> >* = 0; T = Eigen::Matrix&]’ +... +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 1, -1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block, 1, -1, false>; Functor = swap_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block, 1, -1, false>; Functor = Eigen::internal::swap_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block, 1, -1, false>; Func = swap_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block, 1, -1, false>; Func = swap_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:424:22: required from ‘void Eigen::DenseBase::swap(const Eigen::DenseBase&) [with OtherDerived = Eigen::Block, 1, -1, false>; Derived = Eigen::Block, 1, -1, false>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:1033:18: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Transpose >, Eigen::Transpose > > >; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/mdivide_right.hpp:42:17: required from ‘Eigen::Matrix::type, T1::RowsAtCompileTime, T2::ColsAtCompileTime> stan::math::mdivide_right(const EigMat1&, const EigMat2&) [with EigMat1 = Eigen::Matrix; EigMat2 = Eigen::CwiseBinaryOp, const Eigen::Map, 0, Eigen::Stride<0, 0> >, const Eigen::Matrix >; stan::require_all_eigen_t* = 0; stan::require_all_not_vt_fvar* = 0; typename stan::return_type::type = double]’ +stanExports_stanmarg.h:20086:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array_impl(RNG&, VecR&, VecI&, VecVar&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; VecR = std::vector; VecI = std::vector; VecVar = std::vector; stan::require_vector_like_vt* = 0; stan::require_vector_like_vt* = 0; stan::require_vector_vt* = 0; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:27769:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array(RNG&, std::vector&, std::vector&, std::vector&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; std::ostream = std::basic_ostream]’ +/tmp/r-deps/rstan/include/rstan/stan_fit.hpp:1105:0: required from ‘SEXPREC* rstan::stan_fit::constrain_pars(SEXP) [with Model = model_stanmarg_namespace::model_stanmarg; RNG_t = boost::random::mixmax_engine<17, 36, 0>; SEXP = SEXPREC*]’ +stanExports_stanmarg.cc:26:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 1071 | PacketAlignment = unpacket_traits::alignment, + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose >, 1, -1, true> >, const Eigen::Block, -1, 1, true> > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:606:75: required from ‘const Eigen::internal::product_evaluator, ProductTag, Eigen::DenseShape, Eigen::DenseShape>::CoeffReturnType Eigen::internal::product_evaluator, ProductTag, Eigen::DenseShape, Eigen::DenseShape>::coeff(Eigen::Index, Eigen::Index) const [with Lhs = Eigen::Transpose >; Rhs = Eigen::Matrix; int ProductTag = 8; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Transpose >; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; CoeffReturnType = double; Eigen::Index = long int]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:654:63: required from ‘void Eigen::internal::generic_dense_assignment_kernel::assignCoeff(Eigen::Index, Eigen::Index) [with DstEvaluatorTypeT = Eigen::internal::evaluator >; SrcEvaluatorTypeT = Eigen::internal::evaluator >, Eigen::Matrix, 1> >; Functor = Eigen::internal::sub_assign_op; int Version = 1; Eigen::Index = long int]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:668:16: [ skipping 17 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/StanHeaders/include/src/stan/model/indexing/assign.hpp:447:0: required from ‘void stan::model::assign(Mat1&&, Mat2&&, const char*, index_min_max, index_min_max) [with Mat1 = Eigen::Matrix&; Mat2 = Eigen::CwiseBinaryOp, const stan::math::Holder, Eigen::CwiseBinaryOp, const Eigen::Map, 0, Eigen::Stride<0, 0> >, const Eigen::CwiseNullaryOp, const Eigen::Array > >, Eigen::CwiseBinaryOp, const Eigen::Map, 0, Eigen::Stride<0, 0> >, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, index_multi, index_multi>, const Eigen::Product >, Eigen::Matrix, 0> >; stan::require_dense_dynamic_t* = 0]’ +stanExports_stanmarg.h:5156:0: required from ‘Eigen::Matrix::type, T4__>::type, -1, -1> model_stanmarg_namespace::sig_inv_update(const T0__&, const T1__&, const T2__&, const T3__&, const T4__&, std::ostream*) [with T0__ = Eigen::Matrix; T1__ = std::vector; T2__ = int; T3__ = int; T4__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_std_vector, std::is_integral::type>::type>, std::is_integral::type>, std::is_integral::type>, stan::math::disjunction, std::is_floating_point::type> > >* = 0; typename stan::return_type::type, T4__>::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:20667:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array_impl(RNG&, VecR&, VecI&, VecVar&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; VecR = std::vector; VecI = std::vector; VecVar = std::vector; stan::require_vector_like_vt* = 0; stan::require_vector_like_vt* = 0; stan::require_vector_vt* = 0; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:27769:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array(RNG&, std::vector&, std::vector&, std::vector&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; std::ostream = std::basic_ostream]’ +/tmp/r-deps/rstan/include/rstan/stan_fit.hpp:1105:0: required from ‘SEXPREC* rstan::stan_fit::constrain_pars(SEXP) [with Model = model_stanmarg_namespace::model_stanmarg; RNG_t = boost::random::mixmax_engine<17, 36, 0>; SEXP = SEXPREC*]’ +stanExports_stanmarg.cc:26:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 654 | return internal::first_aligned::alignment),Derived>(m); + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Block, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, const Eigen::Transpose, 0, Eigen::Stride<0, 0> >, -1, 1, false> > >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Block, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, const Eigen::Transpose, 0, Eigen::Stride<0, 0> >, -1, 1, false> > >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Block, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, const Eigen::Transpose, 0, Eigen::Stride<0, 0> >, -1, 1, false> > > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Block, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, const Eigen::Transpose, 0, Eigen::Stride<0, 0> >, -1, 1, false> > >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Block, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, const Eigen::Transpose, 0, Eigen::Stride<0, 0> >, -1, 1, false> > >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/products/TriangularMatrixVector.h:137:114: required from ‘static void Eigen::internal::triangular_matrix_vector_product::run(Index, Index, const LhsScalar*, Index, const RhsScalar*, Index, ResScalar*, Index, const ResScalar&) [with Index = long int; int Mode = 6; LhsScalar = double; bool ConjLhs = false; RhsScalar = double; bool ConjRhs = false; int Version = 0; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/products/TriangularMatrixVector.h:332:12: required from ‘static void Eigen::internal::trmv_selector::run(const Lhs&, const Rhs&, Dest&, const typename Dest::Scalar&) [with Lhs = Eigen::Transpose, -1, -1, false>, -1, -1, false> >; Rhs = Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >; Dest = Eigen::Transpose, 1, -1, true>, 1, -1, false> >; int Mode = 6; typename Dest::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/products/TriangularMatrixVector.h:194:18: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1043:41: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >, Eigen::internal::IndexBased, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: [ skipping 37 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 1071 | PacketAlignment = unpacket_traits::alignment, + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >, Eigen::internal::IndexBased, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: [ skipping 35 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: [ skipping 22 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 1, -1, true>, 1, -1, false> >, -1, 1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:780:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; Src = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Func = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; Src = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Func = sub_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Derived = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/products/TriangularMatrixVector.h:341:27: [ skipping 19 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, false>; SrcXprType = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false>; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, false>; SrcXprType = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false>; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, -1, false>; Src = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false>; Func = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, -1, false>; Src = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false>; Func = sub_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false>; Derived = Eigen::Block, -1, -1, false>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/products/TriangularMatrixMatrix.h:457:31: [ skipping 19 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false> >, -1, -1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false> >, -1, -1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false> >; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: [ skipping 22 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator >, 1, -1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block >, 1, -1, false>; Functor = assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block >, 1, -1, false>; Functor = Eigen::internal::assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block >, 1, -1, false>; Func = assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block >, 1, -1, false>; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block >, 1, -1, false>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: [ skipping 19 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Transpose >, Eigen::Transpose > > >; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/mdivide_right.hpp:42:17: required from ‘Eigen::Matrix::type, T1::RowsAtCompileTime, T2::ColsAtCompileTime> stan::math::mdivide_right(const EigMat1&, const EigMat2&) [with EigMat1 = Eigen::Matrix; EigMat2 = Eigen::CwiseBinaryOp, const Eigen::Map, 0, Eigen::Stride<0, 0> >, const Eigen::Matrix >; stan::require_all_eigen_t* = 0; stan::require_all_not_vt_fvar* = 0; typename stan::return_type::type = double]’ +stanExports_stanmarg.h:20086:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array_impl(RNG&, VecR&, VecI&, VecVar&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; VecR = std::vector; VecI = std::vector; VecVar = std::vector; stan::require_vector_like_vt* = 0; stan::require_vector_like_vt* = 0; stan::require_vector_vt* = 0; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:27769:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array(RNG&, std::vector&, std::vector&, std::vector&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; std::ostream = std::basic_ostream]’ +/tmp/r-deps/rstan/include/rstan/stan_fit.hpp:1105:0: required from ‘SEXPREC* rstan::stan_fit::constrain_pars(SEXP) [with Model = model_stanmarg_namespace::model_stanmarg; RNG_t = boost::random::mixmax_engine<17, 36, 0>; SEXP = SEXPREC*]’ +stanExports_stanmarg.cc:26:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, -1, 1, true> > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:63: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; U = Eigen::Block, -1, 1, true>, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: required from ‘typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType Eigen::MatrixBase::dot(const Eigen::MatrixBase&) const [with OtherDerived = Eigen::Block, -1, 1, true>, -1, 1, true>; Derived = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType = double; typename Eigen::internal::traits::Scalar = double; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:380:62: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/StanHeaders/include/src/stan/model/indexing/assign.hpp:65:0: required from ‘void stan::model::assign(T&&, U&&, const char*) [with T = Eigen::Matrix&; U = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Product >, Eigen::Matrix, 0> > >; stan::require_t::type&, typename std::decay<_Tp2>::type> >* = 0; stan::require_all_not_std_vector_t* = 0; stan::math::require_all_not_tuple_t* = 0]’ +stanExports_stanmarg.h:4030:0: required from ‘Eigen::Matrix::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type>::type, -1, 1> model_stanmarg_namespace::twolevel_logdens(const T0__&, const T1__&, const T2__&, const T3__&, const T4__&, const T5__&, const T6__&, const T7__&, const T8__&, const T9__&, const T10__&, const T11__&, const T12__&, const T13__&, const T14__&, const T15__&, const T16__&, const T17__&, const T18__&, const T19__&, const T20__&, const T21__&, std::ostream*) [with T0__ = std::vector >; T1__ = std::vector >; T2__ = Eigen::Matrix; T3__ = std::vector >; T4__ = std::vector; T5__ = std::vector; T6__ = std::vector; T7__ = int; T8__ = std::vector; T9__ = Eigen::Matrix; T10__ = Eigen::Matrix; T11__ = Eigen::Matrix; T12__ = Eigen::Matrix; T13__ = std::vector; T14__ = std::vector; T15__ = std::vector; T16__ = std::vector; T17__ = std::vector; T18__ = int; T19__ = int; T20__ = int; T21__ = int; stan::require_all_t, stan::is_col_vector::type>, stan::is_vt_not_complex::type>, stan::is_std_vector, stan::is_eigen_matrix_dynamic::type>, stan::is_vt_not_complex::type>, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_std_vector, stan::is_col_vector::type>, stan::is_vt_not_complex::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, std::is_integral::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_col_vector, stan::is_vt_not_complex, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, std::is_integral::type>, std::is_integral::type>, std::is_integral::type>, std::is_integral::type> >* = 0; typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:22731:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array_impl(RNG&, VecR&, VecI&, VecVar&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; VecR = std::vector; VecI = std::vector; VecVar = std::vector; stan::require_vector_like_vt* = 0; stan::require_vector_like_vt* = 0; stan::require_vector_vt* = 0; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:27769:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array(RNG&, std::vector&, std::vector&, std::vector&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; std::ostream = std::basic_ostream]’ +/tmp/r-deps/rstan/include/rstan/stan_fit.hpp:1105:0: required from ‘SEXPREC* rstan::stan_fit::constrain_pars(SEXP) [with Model = model_stanmarg_namespace::model_stanmarg; RNG_t = boost::random::mixmax_engine<17, 36, 0>; SEXP = SEXPREC*]’ +stanExports_stanmarg.cc:26:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 654 | return internal::first_aligned::alignment),Derived>(m); + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true> >, const Eigen::Block, -1, 1, true> > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:63: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true>; U = Eigen::Block, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: required from ‘typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType Eigen::MatrixBase::dot(const Eigen::MatrixBase&) const [with OtherDerived = Eigen::Block, -1, 1, true>; Derived = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true>; typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType = double; typename Eigen::internal::traits::Scalar = double; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:380:62: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/StanHeaders/include/src/stan/model/indexing/assign.hpp:65:0: required from ‘void stan::model::assign(T&&, U&&, const char*) [with T = Eigen::Matrix&; U = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Product >, Eigen::Matrix, 0> > >; stan::require_t::type&, typename std::decay<_Tp2>::type> >* = 0; stan::require_all_not_std_vector_t* = 0; stan::math::require_all_not_tuple_t* = 0]’ +stanExports_stanmarg.h:4030:0: required from ‘Eigen::Matrix::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type>::type, -1, 1> model_stanmarg_namespace::twolevel_logdens(const T0__&, const T1__&, const T2__&, const T3__&, const T4__&, const T5__&, const T6__&, const T7__&, const T8__&, const T9__&, const T10__&, const T11__&, const T12__&, const T13__&, const T14__&, const T15__&, const T16__&, const T17__&, const T18__&, const T19__&, const T20__&, const T21__&, std::ostream*) [with T0__ = std::vector >; T1__ = std::vector >; T2__ = Eigen::Matrix; T3__ = std::vector >; T4__ = std::vector; T5__ = std::vector; T6__ = std::vector; T7__ = int; T8__ = std::vector; T9__ = Eigen::Matrix; T10__ = Eigen::Matrix; T11__ = Eigen::Matrix; T12__ = Eigen::Matrix; T13__ = std::vector; T14__ = std::vector; T15__ = std::vector; T16__ = std::vector; T17__ = std::vector; T18__ = int; T19__ = int; T20__ = int; T21__ = int; stan::require_all_t, stan::is_col_vector::type>, stan::is_vt_not_complex::type>, stan::is_std_vector, stan::is_eigen_matrix_dynamic::type>, stan::is_vt_not_complex::type>, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_std_vector, stan::is_col_vector::type>, stan::is_vt_not_complex::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, std::is_integral::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_col_vector, stan::is_vt_not_complex, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, std::is_integral::type>, std::is_integral::type>, std::is_integral::type>, std::is_integral::type> >* = 0; typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:22731:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array_impl(RNG&, VecR&, VecI&, VecVar&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; VecR = std::vector; VecI = std::vector; VecVar = std::vector; stan::require_vector_like_vt* = 0; stan::require_vector_like_vt* = 0; stan::require_vector_vt* = 0; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:27769:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array(RNG&, std::vector&, std::vector&, std::vector&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; std::ostream = std::basic_ostream]’ +/tmp/r-deps/rstan/include/rstan/stan_fit.hpp:1105:0: required from ‘SEXPREC* rstan::stan_fit::constrain_pars(SEXP) [with Model = model_stanmarg_namespace::model_stanmarg; RNG_t = boost::random::mixmax_engine<17, 36, 0>; SEXP = SEXPREC*]’ +stanExports_stanmarg.cc:26:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: [ skipping 26 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 1071 | PacketAlignment = unpacket_traits::alignment, + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator >, -1, -1, true> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator >, -1, -1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block >, -1, -1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block >, -1, -1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block >, -1, -1, true> >; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block >, -1, -1, true> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: [ skipping 26 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryView.h:103:7: required from ‘class Eigen::CwiseUnaryViewImpl, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryView.h:58:7: required from ‘class Eigen::CwiseUnaryView, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/sum.hpp:33:18: required from ‘stan::math::sum > >(const std::vector, arena_allocator > >&):: mutable [with auto:654 = stan::math::internal::callback_vari > >(const std::vector, arena_allocator > >&):: >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/core/callback_vari.hpp:21:43: required from ‘void stan::math::internal::callback_vari::chain() [with T = double; F = stan::math::sum > >(const std::vector, arena_allocator > >&)::]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/core/callback_vari.hpp:21:15: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> >, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> >, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> >’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/trace.hpp:29:0: required from ‘stan::math::trace, -1, -1, 0, -1, -1> >(Eigen::Matrix, -1, -1, 0, -1, -1>&&):: mutable [with auto:863 = stan::math::internal::callback_vari, -1, -1, 0, -1, -1> >(Eigen::Matrix, -1, -1, 0, -1, -1>&&):: >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/core/callback_vari.hpp:21:43: required from ‘void stan::math::internal::callback_vari::chain() [with T = double; F = stan::math::trace, -1, -1, 0, -1, -1> >(Eigen::Matrix, -1, -1, 0, -1, -1>&&)::]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/core/callback_vari.hpp:21:15: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Transpose >, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Transpose >, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Transpose >, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, Eigen::Transpose >, 0, 8>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, Eigen::Transpose >, 0, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, Eigen::Transpose >, 0>’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:67:0: required from ‘void stan::math::internal::mdivide_left_spd_vv_vari::chain() [with int R1 = -1; int C1 = -1; int R2 = -1; int C2 = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:63:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryView.h:103:7: required from ‘class Eigen::CwiseUnaryViewImpl, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryView.h:58:7: required from ‘class Eigen::CwiseUnaryView, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:89:0: required from ‘void stan::math::internal::quad_form_vari::chain() [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> >’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:69:0: required from ‘void stan::math::internal::quad_form_vari::chainB(Eigen::Matrix, Rb, Cb>&, const Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&) [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:78:0: required from ‘void stan::math::internal::quad_form_vari::chainAB(Eigen::Matrix&, Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&) [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:91:0: required from ‘void stan::math::internal::quad_form_vari::chain() [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:37:44: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Matrix; U = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix >; bool NeedToTranspose = false; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: required from ‘typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType Eigen::MatrixBase::dot(const Eigen::MatrixBase&) const [with OtherDerived = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix >; Derived = Eigen::Matrix; typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType = double; typename Eigen::internal::traits::Scalar = double; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/diag_e_metric.hpp:21:0: required from ‘double stan::mcmc::diag_e_metric::T(stan::mcmc::diag_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/diag_e_metric.hpp:20:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:39: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:54: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:37:51: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Matrix; U = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix >; bool NeedToTranspose = false; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: required from ‘typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType Eigen::MatrixBase::dot(const Eigen::MatrixBase&) const [with OtherDerived = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix >; Derived = Eigen::Matrix; typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType = double; typename Eigen::internal::traits::Scalar = double; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/diag_e_metric.hpp:21:0: required from ‘double stan::mcmc::diag_e_metric::T(stan::mcmc::diag_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/diag_e_metric.hpp:20:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 654 | return internal::first_aligned::alignment),Derived>(m); + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Block >, -1, 1, false>, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Block >, -1, 1, false>, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Block >, -1, 1, false>, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, const Eigen::Block >, -1, 1, false>, 0, 7>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, const Eigen::Block >, -1, 1, false>, 0, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, const Eigen::Block >, -1, 1, false>, 0>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:345:45: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Transpose >, 0>; OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = sub_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:67:0: required from ‘void stan::math::internal::mdivide_left_spd_vv_vari::chain() [with int R1 = -1; int C1 = -1; int R2 = -1; int C2 = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:63:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false>, Eigen::Transpose >, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false>, Eigen::Transpose >, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false>, Eigen::Transpose >, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, 1, -1, false>, Eigen::Transpose >, 0, 7>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, 1, -1, false>, Eigen::Transpose >, 0, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, 1, -1, false>, Eigen::Transpose >, 0>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:345:45: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Transpose >, 0>; OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = sub_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:67:0: required from ‘void stan::math::internal::mdivide_left_spd_vv_vari::chain() [with int R1 = -1; int C1 = -1; int R2 = -1; int C2 = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:63:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, 1, -1, false>; U = Eigen::Block >, -1, 1, false>, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Transpose >, 0>; OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = sub_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:67:0: required from ‘void stan::math::internal::mdivide_left_spd_vv_vari::chain() [with int R1 = -1; int C1 = -1; int R2 = -1; int C2 = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:63:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, 1, -1, false>, 1, -1, true>; U = Eigen::Block >, -1, 1, false>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Transpose >, 0>; OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = sub_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:67:0: required from ‘void stan::math::internal::mdivide_left_spd_vv_vari::chain() [with int R1 = -1; int C1 = -1; int R2 = -1; int C2 = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:63:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, true> >, -1, 1, true>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, true> >, -1, 1, true>, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, true> >, -1, 1, true>, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, true> >, -1, 1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, true> >, -1, 1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 1, -1, true> >, -1, 1, true>, 0>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 16 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::CwiseUnaryView, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >; Src = Eigen::CwiseBinaryOp, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> >; Func = add_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:177:18: required from ‘Derived& Eigen::MatrixBase::operator+=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::CwiseBinaryOp, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> >; Derived = Eigen::CwiseUnaryView, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:69:0: required from ‘void stan::math::internal::quad_form_vari::chainB(Eigen::Matrix, Rb, Cb>&, const Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&) [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:78:0: required from ‘void stan::math::internal::quad_form_vari::chainAB(Eigen::Matrix&, Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&) [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:91:0: required from ‘void stan::math::internal::quad_form_vari::chain() [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Block.h:172:103: required from ‘class Eigen::internal::BlockImpl_dense, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true, false>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Block.h:154:7: required from ‘class Eigen::BlockImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Block.h:103:81: required from ‘class Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:380:43: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:207:43: required from ‘static void Eigen::internal::gemv_dense_selector<1, StorageOrder, BlasCompatible>::run(const Lhs&, const Rhs&, Dest&, const typename Dest::Scalar&) [with Lhs = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >; Rhs = Eigen::Matrix; Dest = Eigen::Matrix; int StorageOrder = 0; bool BlasCompatible = true; typename Dest::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:388:34: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:23: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; U = Eigen::Block, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 16 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; U = Eigen::Block, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 16 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase > >, 2>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/BlasUtil.h:506:13: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, Eigen::internal::IndexBased, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:41: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: [ skipping 21 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 1071 | PacketAlignment = unpacket_traits::alignment, + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:63: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; U = Eigen::Block, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: required from ‘typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType Eigen::MatrixBase::dot(const Eigen::MatrixBase&) const [with OtherDerived = Eigen::Block, -1, 1, true>; Derived = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType = double; typename Eigen::internal::traits::Scalar = double; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:380:62: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 654 | return internal::first_aligned::alignment),Derived>(m); + | ^~~~~~~~~ +stanExports_stanmarg.h: In constructor ‘model_stanmarg_namespace::model_stanmarg::model_stanmarg(stan::io::var_context&, unsigned int, std::ostream*)’: +stanExports_stanmarg.h:6707: note: variable tracking size limit exceeded with ‘-fvar-tracking-assignments’, retrying without + 6707 | model_stanmarg(stan::io::var_context& context__, unsigned int + | +g++: fatal error: Killed signal terminated program cc1plus +compilation terminated. +make: *** [/opt/R/4.5.1/lib/R/etc/Makeconf:209: stanExports_stanmarg.o] Error 1 +ERROR: compilation failed for package ‘blavaan’ +* removing ‘/tmp/workdir/blavaan/new/blavaan.Rcheck/blavaan’ + + +``` +### CRAN + +``` +* installing *source* package ‘blavaan’ ... +** this is package ‘blavaan’ version ‘0.5-10’ +** package ‘blavaan’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0’ +using C++17 + + +g++ -std=gnu++17 -I"/opt/R/4.5.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/tmp/r-deps/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/tmp/r-deps/StanHeaders/include' -I'/tmp/r-deps/rstan/include' -I'/tmp/r-deps/BH/include' -I'/tmp/r-deps/Rcpp/include' -I'/tmp/r-deps/RcppEigen/include' -I'/tmp/r-deps/RcppParallel/include' -I/usr/local/include -I'/tmp/r-deps/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:205, + from /tmp/r-deps/RcppEigen/include/Eigen/Dense:1, + from /tmp/r-deps/RcppEigen/include/RcppEigenForward.h:28, + from /tmp/r-deps/RcppEigen/include/RcppEigen.h:25, + from RcppExports.cpp:4: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:46:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 46 | typedef eigen_packet_wrapper<__m128i, 0> Packet4i; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:47:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 47 | typedef eigen_packet_wrapper<__m128i, 1> Packet16b; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:49:39: warning: ignoring attributes on template argument ‘__m128’ [-Wignored-attributes] + 49 | template<> struct is_arithmetic<__m128> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:50:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 50 | template<> struct is_arithmetic<__m128i> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:51:40: warning: ignoring attributes on template argument ‘__m128d’ [-Wignored-attributes] + 51 | template<> struct is_arithmetic<__m128d> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:222:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 222 | template<> struct unpacket_traits { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:228:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 228 | template<> struct unpacket_traits { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1124:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 1124 | ptranspose(PacketBlock& kernel) { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1129:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 1129 | ptranspose(PacketBlock& kernel) { + | ^ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:174: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 16 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 29 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 16 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 29 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:165: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:24:46: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(4) float>::half’ {aka ‘__m128’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 208 | typedef typename find_best_packet_helper::type>::type type; + | ^~~~ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:271: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:27:3: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:98:47: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 208 | typedef typename find_best_packet_helper::type>::type type; + | ^~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:102:3: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/SparseCore:37, + from /tmp/r-deps/RcppEigen/include/Eigen/Sparse:26, + from /tmp/r-deps/RcppEigen/include/RcppEigenForward.h:29: +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h: In instantiation of ‘class Eigen::SparseMatrixBase >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseCompressedBase.h:36:7: required from ‘class Eigen::SparseCompressedBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:96:7: required from ‘class Eigen::SparseMatrix’ +/tmp/r-deps/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/ConstrainedConjGrad.h:61:25: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h:47:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 47 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ + + +g++ -std=gnu++17 -I"/opt/R/4.5.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/tmp/r-deps/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/tmp/r-deps/StanHeaders/include' -I'/tmp/r-deps/rstan/include' -I'/tmp/r-deps/BH/include' -I'/tmp/r-deps/Rcpp/include' -I'/tmp/r-deps/RcppEigen/include' -I'/tmp/r-deps/RcppParallel/include' -I/usr/local/include -I'/tmp/r-deps/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c stanExports_stanmarg.cc -o stanExports_stanmarg.o +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:205, + from /tmp/r-deps/RcppEigen/include/Eigen/Dense:1, + from /tmp/r-deps/StanHeaders/include/stan/math/prim/fun/Eigen.hpp:32, + from /tmp/r-deps/rstan/include/rstan/rstaninc.hpp:3, + from stanExports_stanmarg.h:23, + from stanExports_stanmarg.cc:5: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:46:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 46 | typedef eigen_packet_wrapper<__m128i, 0> Packet4i; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:47:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 47 | typedef eigen_packet_wrapper<__m128i, 1> Packet16b; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:49:39: warning: ignoring attributes on template argument ‘__m128’ [-Wignored-attributes] + 49 | template<> struct is_arithmetic<__m128> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:50:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] + 50 | template<> struct is_arithmetic<__m128i> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:51:40: warning: ignoring attributes on template argument ‘__m128d’ [-Wignored-attributes] + 51 | template<> struct is_arithmetic<__m128d> { enum { value = true }; }; + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:222:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 222 | template<> struct unpacket_traits { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:228:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 228 | template<> struct unpacket_traits { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1124:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 1124 | ptranspose(PacketBlock& kernel) { + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1129:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 1129 | ptranspose(PacketBlock& kernel) { + | ^ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:174: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 16 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] + 29 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 16 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] + 29 | struct conj_helper { \ + | ^ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ + 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:165: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:24:46: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(4) float>::half’ {aka ‘__m128’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 208 | typedef typename find_best_packet_helper::type>::type type; + | ^~~~ +In file included from /tmp/r-deps/RcppEigen/include/Eigen/Core:271: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:27:3: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:98:47: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 208 | typedef typename find_best_packet_helper::type>::type type; + | ^~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:102:3: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +In file included from /tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:17, + from /tmp/r-deps/BH/include/boost/shared_ptr.hpp:17, + from /tmp/r-deps/BH/include/boost/date_time/time_clock.hpp:17, + from /tmp/r-deps/BH/include/boost/date_time/posix_time/posix_time_types.hpp:10, + from /tmp/r-deps/rstan/include/rstan/stan_fit.hpp:15, + from /tmp/r-deps/rstan/include/rstan/rstaninc.hpp:4: +/tmp/r-deps/BH/include/boost/smart_ptr/detail/shared_count.hpp:294:33: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 294 | explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) ) + | ^~~~~~~~ +In file included from /usr/include/c++/13/memory:78, + from /tmp/r-deps/rstan/include/rstan/stan_fit.hpp:7: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 354 | explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn() + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 365 | shared_ptr( std::auto_ptr && r ): px(r.get()), pn() + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 423 | shared_ptr & operator=( std::auto_ptr & r ) + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 430 | shared_ptr & operator=( std::auto_ptr && r ) + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’: +/tmp/r-deps/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 432 | this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this ); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:82:22: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 208 | typedef typename find_best_packet_helper::type>::type type; + | ^~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:82:22: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase >, 2>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose >’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:82:32: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:93:22: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase >, 2>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose >’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:93:32: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ +/tmp/r-deps/StanHeaders/include/src/stan/callbacks/stream_writer.hpp:105:22: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +In file included from /tmp/r-deps/RcppEigen/include/Eigen/SparseCore:37, + from /tmp/r-deps/RcppEigen/include/Eigen/Sparse:26, + from /tmp/r-deps/StanHeaders/include/stan/math/prim/fun/Eigen.hpp:33: +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h: In instantiation of ‘class Eigen::SparseMatrixBase >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseCompressedBase.h:36:7: required from ‘class Eigen::SparseCompressedBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:96:7: required from ‘class Eigen::SparseMatrix’ +/tmp/r-deps/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/ConstrainedConjGrad.h:61:25: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h:47:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 47 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0>, 2>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Diagonal.h:63:53: required from ‘class Eigen::Diagonal, 0>’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/err/check_pos_definite.hpp:47:29: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0> >, 2>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper, 0> >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/err/check_pos_definite.hpp:47:41: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Array >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Array > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, Eigen::Array > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Array >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:38:28: required from ‘struct Eigen::internal::traits, const Eigen::ArrayWrapper, 0> >, const Eigen::CwiseNullaryOp, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::ArrayWrapper, 0> >, const Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::ArrayWrapper, 0> >, const Eigen::CwiseNullaryOp, Eigen::Array > >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/err/check_pos_definite.hpp:47:45: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/generate_laplace_options.hpp:28:47: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int>(Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int)::, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int>(Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int)::, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int>(Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int)::, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int>(Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int)::, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int>(Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >, int, int)::, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > > >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/select.hpp:146:17: required from ‘auto stan::math::select(T_bool, T_true, T_false) [with T_bool = Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >; T_true = int; T_false = int; stan::require_eigen_array_vt* = 0; stan::require_all_stan_scalar_t* = 0]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/grad_pFq.hpp:130:35: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Array.h:45:7: required from ‘class Eigen::Array’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/select.hpp:149:12: required from ‘auto stan::math::select(T_bool, T_true, T_false) [with T_bool = Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, Eigen::Array > >; T_true = int; T_false = int; stan::require_eigen_array_vt* = 0; stan::require_all_stan_scalar_t* = 0]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/grad_pFq.hpp:130:35: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:513:38: required from ‘struct Eigen::internal::cast_return_type, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array >, const Eigen::CwiseUnaryOp, const Eigen::Select, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/../plugins/CommonCwiseUnaryOps.h:48:179: required from ‘struct Eigen::DenseBase, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > >::CastXpr’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/../plugins/CommonCwiseUnaryOps.h:62:1: required by substitution of ‘template typename Eigen::DenseBase, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > >::CastXpr::Type Eigen::DenseBase, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Array > >::cast() const [with NewType = double]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/select.hpp:171:56: required from ‘auto stan::math::select(T_bool, T_true, T_false) [with T_bool = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, Eigen::Array >, const Eigen::CwiseBinaryOp, const Eigen::Array, const Eigen::CwiseNullaryOp, const Eigen::Array > > >; T_true = int; T_false = Eigen::Array; stan::require_eigen_array_t* = 0; stan::require_any_eigen_array_t* = 0]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/grad_pFq.hpp:172:24: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/linspaced_array.hpp:37:49: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/linspaced_row_vector.hpp:32:39: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Array >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Array > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, Eigen::Array > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Array >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/lmgamma.hpp:58:72: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Array >, const Eigen::CwiseNullaryOp, Eigen::Array > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Array >, const Eigen::CwiseNullaryOp, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, const Eigen::CwiseNullaryOp, const Eigen::Array >, const Eigen::CwiseNullaryOp, Eigen::Array > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::CwiseNullaryOp, const Eigen::Array >, const Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Array >, const Eigen::CwiseNullaryOp, Eigen::Array > >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/lmgamma.hpp:58:77: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 0>, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 0>, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Diagonal.h:63:53: required from ‘class Eigen::Diagonal, 0>’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/matrix_exp_action_handler.hpp:71:17: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 0> >, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 0> >, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper, 0> >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/matrix_exp_action_handler.hpp:71:29: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, Eigen::Matrix, 0, 8>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, Eigen::Matrix, 0, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, Eigen::Matrix, 0>’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/matrix_exp_action_handler.hpp:86:43: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Matrix >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::Matrix, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::Matrix >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/matrix_exp_action_handler.hpp:106:22: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Matrix >, Eigen::internal::member_sum, 1>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Matrix >, Eigen::internal::member_sum, 1> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Matrix >, Eigen::internal::member_sum, 1> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/VectorwiseOp.h:56:7: required from ‘class Eigen::PartialReduxExpr, const Eigen::Matrix >, Eigen::internal::member_sum, 1>’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/matrix_exp_action_handler.hpp:106:38: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase >, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase >, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper >’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/ceil.hpp:63:72: required from ‘stan::math::ceil&>(Eigen::Matrix&):: [with auto:263 = Eigen::Matrix&]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/functor/apply_vector_unary.hpp:46:44: required from ‘static auto stan::math::apply_vector_unary::type>::value, void>::type>::apply(T2&&, F&&) [with F = stan::math::ceil&>(Eigen::Matrix&)::; T2 = Eigen::Matrix&; stan::require_t::type, void>::type> >* = 0; T = Eigen::Matrix&]’ +... +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 1, -1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block, 1, -1, false>; Functor = swap_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block, 1, -1, false>; Functor = Eigen::internal::swap_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block, 1, -1, false>; Func = swap_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block, 1, -1, false>; Func = swap_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:424:22: required from ‘void Eigen::DenseBase::swap(const Eigen::DenseBase&) [with OtherDerived = Eigen::Block, 1, -1, false>; Derived = Eigen::Block, 1, -1, false>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:1033:18: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Transpose >, Eigen::Transpose > > >; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/mdivide_right.hpp:42:17: required from ‘Eigen::Matrix::type, T1::RowsAtCompileTime, T2::ColsAtCompileTime> stan::math::mdivide_right(const EigMat1&, const EigMat2&) [with EigMat1 = Eigen::Matrix; EigMat2 = Eigen::CwiseBinaryOp, const Eigen::Map, 0, Eigen::Stride<0, 0> >, const Eigen::Matrix >; stan::require_all_eigen_t* = 0; stan::require_all_not_vt_fvar* = 0; typename stan::return_type::type = double]’ +stanExports_stanmarg.h:20086:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array_impl(RNG&, VecR&, VecI&, VecVar&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; VecR = std::vector; VecI = std::vector; VecVar = std::vector; stan::require_vector_like_vt* = 0; stan::require_vector_like_vt* = 0; stan::require_vector_vt* = 0; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:27769:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array(RNG&, std::vector&, std::vector&, std::vector&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; std::ostream = std::basic_ostream]’ +/tmp/r-deps/rstan/include/rstan/stan_fit.hpp:1105:0: required from ‘SEXPREC* rstan::stan_fit::constrain_pars(SEXP) [with Model = model_stanmarg_namespace::model_stanmarg; RNG_t = boost::random::mixmax_engine<17, 36, 0>; SEXP = SEXPREC*]’ +stanExports_stanmarg.cc:26:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 1071 | PacketAlignment = unpacket_traits::alignment, + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose >, 1, -1, true> >, const Eigen::Block, -1, 1, true> > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:606:75: required from ‘const Eigen::internal::product_evaluator, ProductTag, Eigen::DenseShape, Eigen::DenseShape>::CoeffReturnType Eigen::internal::product_evaluator, ProductTag, Eigen::DenseShape, Eigen::DenseShape>::coeff(Eigen::Index, Eigen::Index) const [with Lhs = Eigen::Transpose >; Rhs = Eigen::Matrix; int ProductTag = 8; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Transpose >; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; CoeffReturnType = double; Eigen::Index = long int]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:654:63: required from ‘void Eigen::internal::generic_dense_assignment_kernel::assignCoeff(Eigen::Index, Eigen::Index) [with DstEvaluatorTypeT = Eigen::internal::evaluator >; SrcEvaluatorTypeT = Eigen::internal::evaluator >, Eigen::Matrix, 1> >; Functor = Eigen::internal::sub_assign_op; int Version = 1; Eigen::Index = long int]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:668:16: [ skipping 17 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/StanHeaders/include/src/stan/model/indexing/assign.hpp:447:0: required from ‘void stan::model::assign(Mat1&&, Mat2&&, const char*, index_min_max, index_min_max) [with Mat1 = Eigen::Matrix&; Mat2 = Eigen::CwiseBinaryOp, const stan::math::Holder, Eigen::CwiseBinaryOp, const Eigen::Map, 0, Eigen::Stride<0, 0> >, const Eigen::CwiseNullaryOp, const Eigen::Array > >, Eigen::CwiseBinaryOp, const Eigen::Map, 0, Eigen::Stride<0, 0> >, const Eigen::CwiseNullaryOp, const Eigen::Array > > >, index_multi, index_multi>, const Eigen::Product >, Eigen::Matrix, 0> >; stan::require_dense_dynamic_t* = 0]’ +stanExports_stanmarg.h:5156:0: required from ‘Eigen::Matrix::type, T4__>::type, -1, -1> model_stanmarg_namespace::sig_inv_update(const T0__&, const T1__&, const T2__&, const T3__&, const T4__&, std::ostream*) [with T0__ = Eigen::Matrix; T1__ = std::vector; T2__ = int; T3__ = int; T4__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_std_vector, std::is_integral::type>::type>, std::is_integral::type>, std::is_integral::type>, stan::math::disjunction, std::is_floating_point::type> > >* = 0; typename stan::return_type::type, T4__>::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:20667:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array_impl(RNG&, VecR&, VecI&, VecVar&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; VecR = std::vector; VecI = std::vector; VecVar = std::vector; stan::require_vector_like_vt* = 0; stan::require_vector_like_vt* = 0; stan::require_vector_vt* = 0; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:27769:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array(RNG&, std::vector&, std::vector&, std::vector&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; std::ostream = std::basic_ostream]’ +/tmp/r-deps/rstan/include/rstan/stan_fit.hpp:1105:0: required from ‘SEXPREC* rstan::stan_fit::constrain_pars(SEXP) [with Model = model_stanmarg_namespace::model_stanmarg; RNG_t = boost::random::mixmax_engine<17, 36, 0>; SEXP = SEXPREC*]’ +stanExports_stanmarg.cc:26:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 654 | return internal::first_aligned::alignment),Derived>(m); + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Block, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, const Eigen::Transpose, 0, Eigen::Stride<0, 0> >, -1, 1, false> > >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Block, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, const Eigen::Transpose, 0, Eigen::Stride<0, 0> >, -1, 1, false> > >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Block, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, const Eigen::Transpose, 0, Eigen::Stride<0, 0> >, -1, 1, false> > > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Block, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, const Eigen::Transpose, 0, Eigen::Stride<0, 0> >, -1, 1, false> > >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Block, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, const Eigen::Transpose, 0, Eigen::Stride<0, 0> >, -1, 1, false> > >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/products/TriangularMatrixVector.h:137:114: required from ‘static void Eigen::internal::triangular_matrix_vector_product::run(Index, Index, const LhsScalar*, Index, const RhsScalar*, Index, ResScalar*, Index, const ResScalar&) [with Index = long int; int Mode = 6; LhsScalar = double; bool ConjLhs = false; RhsScalar = double; bool ConjRhs = false; int Version = 0; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/products/TriangularMatrixVector.h:332:12: required from ‘static void Eigen::internal::trmv_selector::run(const Lhs&, const Rhs&, Dest&, const typename Dest::Scalar&) [with Lhs = Eigen::Transpose, -1, -1, false>, -1, -1, false> >; Rhs = Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >; Dest = Eigen::Transpose, 1, -1, true>, 1, -1, false> >; int Mode = 6; typename Dest::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/products/TriangularMatrixVector.h:194:18: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1043:41: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >, Eigen::internal::IndexBased, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: [ skipping 37 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 1071 | PacketAlignment = unpacket_traits::alignment, + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> >, Eigen::internal::IndexBased, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, true>, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: [ skipping 35 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: [ skipping 22 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 1, -1, true>, 1, -1, false> >, -1, 1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:780:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; Src = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Func = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>; Src = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Func = sub_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose, -1, -1, false>, -1, 1, true>, -1, 1, false> > > >, -1, 1, false> >; Derived = Eigen::Block, 1, -1, true>, 1, -1, false> >, -1, 1, false>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/products/TriangularMatrixVector.h:341:27: [ skipping 19 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, false>; SrcXprType = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false>; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, false>; SrcXprType = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false>; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, -1, false>; Src = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false>; Func = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, -1, false>; Src = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false>; Func = sub_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false>; Derived = Eigen::Block, -1, -1, false>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/products/TriangularMatrixMatrix.h:457:31: [ skipping 19 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false> >, -1, -1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false> >, -1, -1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false> >; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, -1, -1, false> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: [ skipping 22 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator >, 1, -1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block >, 1, -1, false>; Functor = assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block >, 1, -1, false>; Functor = Eigen::internal::assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block >, 1, -1, false>; Func = assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block >, 1, -1, false>; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block >, 1, -1, false>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: [ skipping 19 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Transpose >, Eigen::Transpose > > >; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/prim/fun/mdivide_right.hpp:42:17: required from ‘Eigen::Matrix::type, T1::RowsAtCompileTime, T2::ColsAtCompileTime> stan::math::mdivide_right(const EigMat1&, const EigMat2&) [with EigMat1 = Eigen::Matrix; EigMat2 = Eigen::CwiseBinaryOp, const Eigen::Map, 0, Eigen::Stride<0, 0> >, const Eigen::Matrix >; stan::require_all_eigen_t* = 0; stan::require_all_not_vt_fvar* = 0; typename stan::return_type::type = double]’ +stanExports_stanmarg.h:20086:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array_impl(RNG&, VecR&, VecI&, VecVar&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; VecR = std::vector; VecI = std::vector; VecVar = std::vector; stan::require_vector_like_vt* = 0; stan::require_vector_like_vt* = 0; stan::require_vector_vt* = 0; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:27769:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array(RNG&, std::vector&, std::vector&, std::vector&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; std::ostream = std::basic_ostream]’ +/tmp/r-deps/rstan/include/rstan/stan_fit.hpp:1105:0: required from ‘SEXPREC* rstan::stan_fit::constrain_pars(SEXP) [with Model = model_stanmarg_namespace::model_stanmarg; RNG_t = boost::random::mixmax_engine<17, 36, 0>; SEXP = SEXPREC*]’ +stanExports_stanmarg.cc:26:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, -1, 1, true> > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:63: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; U = Eigen::Block, -1, 1, true>, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: required from ‘typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType Eigen::MatrixBase::dot(const Eigen::MatrixBase&) const [with OtherDerived = Eigen::Block, -1, 1, true>, -1, 1, true>; Derived = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType = double; typename Eigen::internal::traits::Scalar = double; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:380:62: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/StanHeaders/include/src/stan/model/indexing/assign.hpp:65:0: required from ‘void stan::model::assign(T&&, U&&, const char*) [with T = Eigen::Matrix&; U = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Product >, Eigen::Matrix, 0> > >; stan::require_t::type&, typename std::decay<_Tp2>::type> >* = 0; stan::require_all_not_std_vector_t* = 0; stan::math::require_all_not_tuple_t* = 0]’ +stanExports_stanmarg.h:4030:0: required from ‘Eigen::Matrix::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type>::type, -1, 1> model_stanmarg_namespace::twolevel_logdens(const T0__&, const T1__&, const T2__&, const T3__&, const T4__&, const T5__&, const T6__&, const T7__&, const T8__&, const T9__&, const T10__&, const T11__&, const T12__&, const T13__&, const T14__&, const T15__&, const T16__&, const T17__&, const T18__&, const T19__&, const T20__&, const T21__&, std::ostream*) [with T0__ = std::vector >; T1__ = std::vector >; T2__ = Eigen::Matrix; T3__ = std::vector >; T4__ = std::vector; T5__ = std::vector; T6__ = std::vector; T7__ = int; T8__ = std::vector; T9__ = Eigen::Matrix; T10__ = Eigen::Matrix; T11__ = Eigen::Matrix; T12__ = Eigen::Matrix; T13__ = std::vector; T14__ = std::vector; T15__ = std::vector; T16__ = std::vector; T17__ = std::vector; T18__ = int; T19__ = int; T20__ = int; T21__ = int; stan::require_all_t, stan::is_col_vector::type>, stan::is_vt_not_complex::type>, stan::is_std_vector, stan::is_eigen_matrix_dynamic::type>, stan::is_vt_not_complex::type>, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_std_vector, stan::is_col_vector::type>, stan::is_vt_not_complex::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, std::is_integral::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_col_vector, stan::is_vt_not_complex, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, std::is_integral::type>, std::is_integral::type>, std::is_integral::type>, std::is_integral::type> >* = 0; typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:22731:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array_impl(RNG&, VecR&, VecI&, VecVar&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; VecR = std::vector; VecI = std::vector; VecVar = std::vector; stan::require_vector_like_vt* = 0; stan::require_vector_like_vt* = 0; stan::require_vector_vt* = 0; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:27769:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array(RNG&, std::vector&, std::vector&, std::vector&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; std::ostream = std::basic_ostream]’ +/tmp/r-deps/rstan/include/rstan/stan_fit.hpp:1105:0: required from ‘SEXPREC* rstan::stan_fit::constrain_pars(SEXP) [with Model = model_stanmarg_namespace::model_stanmarg; RNG_t = boost::random::mixmax_engine<17, 36, 0>; SEXP = SEXPREC*]’ +stanExports_stanmarg.cc:26:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 654 | return internal::first_aligned::alignment),Derived>(m); + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true> >, const Eigen::Block, -1, 1, true> > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:63: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true>; U = Eigen::Block, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: required from ‘typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType Eigen::MatrixBase::dot(const Eigen::MatrixBase&) const [with OtherDerived = Eigen::Block, -1, 1, true>; Derived = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 1, -1, true>; typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType = double; typename Eigen::internal::traits::Scalar = double; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:380:62: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/StanHeaders/include/src/stan/model/indexing/assign.hpp:65:0: required from ‘void stan::model::assign(T&&, U&&, const char*) [with T = Eigen::Matrix&; U = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Product >, Eigen::Matrix, 0> > >; stan::require_t::type&, typename std::decay<_Tp2>::type> >* = 0; stan::require_all_not_std_vector_t* = 0; stan::math::require_all_not_tuple_t* = 0]’ +stanExports_stanmarg.h:4030:0: required from ‘Eigen::Matrix::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type>::type, -1, 1> model_stanmarg_namespace::twolevel_logdens(const T0__&, const T1__&, const T2__&, const T3__&, const T4__&, const T5__&, const T6__&, const T7__&, const T8__&, const T9__&, const T10__&, const T11__&, const T12__&, const T13__&, const T14__&, const T15__&, const T16__&, const T17__&, const T18__&, const T19__&, const T20__&, const T21__&, std::ostream*) [with T0__ = std::vector >; T1__ = std::vector >; T2__ = Eigen::Matrix; T3__ = std::vector >; T4__ = std::vector; T5__ = std::vector; T6__ = std::vector; T7__ = int; T8__ = std::vector; T9__ = Eigen::Matrix; T10__ = Eigen::Matrix; T11__ = Eigen::Matrix; T12__ = Eigen::Matrix; T13__ = std::vector; T14__ = std::vector; T15__ = std::vector; T16__ = std::vector; T17__ = std::vector; T18__ = int; T19__ = int; T20__ = int; T21__ = int; stan::require_all_t, stan::is_col_vector::type>, stan::is_vt_not_complex::type>, stan::is_std_vector, stan::is_eigen_matrix_dynamic::type>, stan::is_vt_not_complex::type>, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_std_vector, stan::is_col_vector::type>, stan::is_vt_not_complex::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, std::is_integral::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_col_vector, stan::is_vt_not_complex, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_eigen_matrix_dynamic, stan::is_vt_not_complex, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, stan::is_std_vector, std::is_integral::type>::type>, std::is_integral::type>, std::is_integral::type>, std::is_integral::type>, std::is_integral::type> >* = 0; typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::base_type::type, typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::return_type::type, typename stan::base_type::type, typename stan::base_type::type>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:22731:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array_impl(RNG&, VecR&, VecI&, VecVar&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; VecR = std::vector; VecI = std::vector; VecVar = std::vector; stan::require_vector_like_vt* = 0; stan::require_vector_like_vt* = 0; stan::require_vector_vt* = 0; std::ostream = std::basic_ostream]’ +stanExports_stanmarg.h:27769:0: required from ‘void model_stanmarg_namespace::model_stanmarg::write_array(RNG&, std::vector&, std::vector&, std::vector&, bool, bool, std::ostream*) const [with RNG = boost::random::mixmax_engine<17, 36, 0>; std::ostream = std::basic_ostream]’ +/tmp/r-deps/rstan/include/rstan/stan_fit.hpp:1105:0: required from ‘SEXPREC* rstan::stan_fit::constrain_pars(SEXP) [with Model = model_stanmarg_namespace::model_stanmarg; RNG_t = boost::random::mixmax_engine<17, 36, 0>; SEXP = SEXPREC*]’ +stanExports_stanmarg.cc:26:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, -1, false> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: [ skipping 26 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 1071 | PacketAlignment = unpacket_traits::alignment, + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator >, -1, -1, true> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator >, -1, -1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block >, -1, -1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block >, -1, -1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block >, -1, -1, true> >; Functor = sub_assign_op]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block >, -1, -1, true> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: [ skipping 26 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:238:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::EigenBase&) [with OtherDerived = Eigen::HouseholderSequence, Eigen::Matrix, 1>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:453:11: required from ‘static void Eigen::internal::tridiagonalization_inplace_selector::run(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; MatrixType = Eigen::Matrix; int Size = -1; bool IsComplex = false; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/Tridiagonalization.h:434:55: required from ‘void Eigen::internal::tridiagonalization_inplace(MatrixType&, DiagonalType&, SubDiagonalType&, CoeffVectorType&, bool) [with MatrixType = Eigen::Matrix; DiagonalType = Eigen::Matrix; SubDiagonalType = Eigen::Matrix; CoeffVectorType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:458:39: required from ‘Eigen::SelfAdjointEigenSolver& Eigen::SelfAdjointEigenSolver<_MatrixType>::compute(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:181:14: required from ‘Eigen::SelfAdjointEigenSolver<_MatrixType>::SelfAdjointEigenSolver(const Eigen::EigenBase&, int) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix]’ +/tmp/r-deps/StanHeaders/include/src/stan/optimization/newton.hpp:19:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryView.h:103:7: required from ‘class Eigen::CwiseUnaryViewImpl, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryView.h:58:7: required from ‘class Eigen::CwiseUnaryView, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0> > >’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/sum.hpp:33:18: required from ‘stan::math::sum > >(const std::vector, arena_allocator > >&):: mutable [with auto:654 = stan::math::internal::callback_vari > >(const std::vector, arena_allocator > >&):: >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/core/callback_vari.hpp:21:43: required from ‘void stan::math::internal::callback_vari::chain() [with T = double; F = stan::math::sum > >(const std::vector, arena_allocator > >&)::]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/core/callback_vari.hpp:21:15: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> >, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> >, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >::adj_Op, Eigen::Map, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0> > >, 0> >’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/trace.hpp:29:0: required from ‘stan::math::trace, -1, -1, 0, -1, -1> >(Eigen::Matrix, -1, -1, 0, -1, -1>&&):: mutable [with auto:863 = stan::math::internal::callback_vari, -1, -1, 0, -1, -1> >(Eigen::Matrix, -1, -1, 0, -1, -1>&&):: >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/core/callback_vari.hpp:21:43: required from ‘void stan::math::internal::callback_vari::chain() [with T = double; F = stan::math::trace, -1, -1, 0, -1, -1> >(Eigen::Matrix, -1, -1, 0, -1, -1>&&)::]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/core/callback_vari.hpp:21:15: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Transpose >, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Transpose >, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Transpose >, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, Eigen::Transpose >, 0, 8>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, Eigen::Transpose >, 0, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, Eigen::Transpose >, 0>’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:67:0: required from ‘void stan::math::internal::mdivide_left_spd_vv_vari::chain() [with int R1 = -1; int C1 = -1; int R2 = -1; int C2 = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:63:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryView.h:103:7: required from ‘class Eigen::CwiseUnaryViewImpl, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseUnaryView.h:58:7: required from ‘class Eigen::CwiseUnaryView, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:89:0: required from ‘void stan::math::internal::quad_form_vari::chain() [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> >’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:69:0: required from ‘void stan::math::internal::quad_form_vari::chainB(Eigen::Matrix, Rb, Cb>&, const Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&) [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:78:0: required from ‘void stan::math::internal::quad_form_vari::chainAB(Eigen::Matrix&, Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&) [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:91:0: required from ‘void stan::math::internal::quad_form_vari::chain() [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:37:44: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Matrix; U = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix >; bool NeedToTranspose = false; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: required from ‘typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType Eigen::MatrixBase::dot(const Eigen::MatrixBase&) const [with OtherDerived = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix >; Derived = Eigen::Matrix; typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType = double; typename Eigen::internal::traits::Scalar = double; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/diag_e_metric.hpp:21:0: required from ‘double stan::mcmc::diag_e_metric::T(stan::mcmc::diag_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/diag_e_metric.hpp:20:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:39: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:54: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix > >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:37:51: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Matrix; U = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix >; bool NeedToTranspose = false; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: required from ‘typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType Eigen::MatrixBase::dot(const Eigen::MatrixBase&) const [with OtherDerived = Eigen::CwiseBinaryOp, const Eigen::Matrix, const Eigen::Matrix >; Derived = Eigen::Matrix; typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType = double; typename Eigen::internal::traits::Scalar = double; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/diag_e_metric.hpp:21:0: required from ‘double stan::mcmc::diag_e_metric::T(stan::mcmc::diag_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/diag_e_metric.hpp:20:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 654 | return internal::first_aligned::alignment),Derived>(m); + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0> >, const Eigen::Matrix >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Block >, -1, 1, false>, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Block >, -1, 1, false>, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Block >, -1, 1, false>, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, const Eigen::Block >, -1, 1, false>, 0, 7>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, const Eigen::Block >, -1, 1, false>, 0, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, const Eigen::Block >, -1, 1, false>, 0>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:345:45: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Transpose >, 0>; OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = sub_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:67:0: required from ‘void stan::math::internal::mdivide_left_spd_vv_vari::chain() [with int R1 = -1; int C1 = -1; int R2 = -1; int C2 = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:63:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 56 | >::type PacketReturnType; + | ^~~~~~~~~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false>, Eigen::Transpose >, 0>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false>, Eigen::Transpose >, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false>, Eigen::Transpose >, 0> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, 1, -1, false>, Eigen::Transpose >, 0, 7>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, 1, -1, false>, Eigen::Transpose >, 0, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, 1, -1, false>, Eigen::Transpose >, 0>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:345:45: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Transpose >, 0>; OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = sub_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:67:0: required from ‘void stan::math::internal::mdivide_left_spd_vv_vari::chain() [with int R1 = -1; int C1 = -1; int R2 = -1; int C2 = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:63:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, 1, -1, false>; U = Eigen::Block >, -1, 1, false>, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Transpose >, 0>; OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = sub_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:67:0: required from ‘void stan::math::internal::mdivide_left_spd_vv_vari::chain() [with int R1 = -1; int C1 = -1; int R2 = -1; int C2 = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:63:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, 1, -1, false>, 1, -1, true>; U = Eigen::Block >, -1, 1, false>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Transpose >, 0>; OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = sub_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:164:18: required from ‘Derived& Eigen::MatrixBase::operator-=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::CwiseUnaryView*, -1, -1> > >::adj_Op, Eigen::Map*, -1, -1> > >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:67:0: required from ‘void stan::math::internal::mdivide_left_spd_vv_vari::chain() [with int R1 = -1; int C1 = -1; int R2 = -1; int C2 = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/mdivide_left_spd.hpp:63:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, true> >, -1, 1, true>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, true> >, -1, 1, true>, 1>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, true> >, -1, 1, true>, 3>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, true> >, -1, 1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, true> >, -1, 1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 1, -1, true> >, -1, 1, true>, 0>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 16 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::CwiseUnaryView, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >; Src = Eigen::CwiseBinaryOp, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> >; Func = add_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:177:18: required from ‘Derived& Eigen::MatrixBase::operator+=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::CwiseBinaryOp, const Eigen::Product, Eigen::Matrix, 0>, Eigen::Transpose >, 0>, const Eigen::Product >, Eigen::Matrix, 0>, Eigen::Matrix, 0> >; Derived = Eigen::CwiseUnaryView, -1, -1, 0, -1, -1> >::adj_Op, Eigen::Matrix, -1, -1, 0, -1, -1> >]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:69:0: required from ‘void stan::math::internal::quad_form_vari::chainB(Eigen::Matrix, Rb, Cb>&, const Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&) [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:78:0: required from ‘void stan::math::internal::quad_form_vari::chainAB(Eigen::Matrix&, Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&, const Eigen::Matrix&) [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:91:0: required from ‘void stan::math::internal::quad_form_vari::chain() [with Ta = stan::math::var_value; int Ra = -1; int Ca = -1; Tb = stan::math::var_value; int Rb = -1; int Cb = -1]’ +/tmp/r-deps/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Block.h:172:103: required from ‘class Eigen::internal::BlockImpl_dense, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true, false>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Block.h:154:7: required from ‘class Eigen::BlockImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Block.h:103:81: required from ‘class Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:380:43: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:207:43: required from ‘static void Eigen::internal::gemv_dense_selector<1, StorageOrder, BlasCompatible>::run(const Lhs&, const Rhs&, Dest&, const typename Dest::Scalar&) [with Lhs = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >; Rhs = Eigen::Matrix; Dest = Eigen::Matrix; int StorageOrder = 0; bool BlasCompatible = true; typename Dest::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:388:34: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:23: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; U = Eigen::Block, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 16 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true>, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; U = Eigen::Block, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 16 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase > >, 0>’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase > >, 2>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase > > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl >, Eigen::Dense>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/util/BlasUtil.h:506:13: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, Eigen::internal::IndexBased, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> > >’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:41: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: [ skipping 21 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 1071 | PacketAlignment = unpacket_traits::alignment, + | ^~~~~~~~~ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Eigen::Index = long int]’: +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> > >; Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true> >, const Eigen::Block, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:50:63: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; U = Eigen::Block, -1, 1, true>; ResScalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: required from ‘typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType Eigen::MatrixBase::dot(const Eigen::MatrixBase&) const [with OtherDerived = Eigen::Block, -1, 1, true>; Derived = Eigen::Block, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, 1, -1, true>; typename Eigen::ScalarBinaryOpTraits::Scalar, typename Eigen::internal::traits::Scalar>::ReturnType = double; typename Eigen::internal::traits::Scalar = double; typename Eigen::internal::traits::Scalar = double]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:380:62: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:251:64: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:124:75: required from ‘Eigen::internal::product_evaluator, ProductTag, LhsShape, RhsShape>::product_evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; int ProductTag = 6; LhsShape = Eigen::DenseShape; RhsShape = Eigen::DenseShape; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Matrix; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:35:90: required from ‘Eigen::internal::evaluator >::evaluator(const XprType&) [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Options = 0; XprType = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>, Eigen::Matrix, 0>]’ +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/Product.h:137:22: required from ‘Eigen::internal::dense_product_base::operator const Scalar() const [with Lhs = Eigen::Product, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Transpose > >, Eigen::Matrix, 0>; Rhs = Eigen::Matrix; int Option = 0; Scalar = double]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_stanmarg_namespace::model_stanmarg; BaseRNG = boost::random::mixmax_engine<17, 36, 0>]’ +/tmp/r-deps/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/tmp/r-deps/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 654 | return internal::first_aligned::alignment),Derived>(m); + | ^~~~~~~~~ +stanExports_stanmarg.h: In constructor ‘model_stanmarg_namespace::model_stanmarg::model_stanmarg(stan::io::var_context&, unsigned int, std::ostream*)’: +stanExports_stanmarg.h:6707: note: variable tracking size limit exceeded with ‘-fvar-tracking-assignments’, retrying without + 6707 | model_stanmarg(stan::io::var_context& context__, unsigned int + | +g++: fatal error: Killed signal terminated program cc1plus +compilation terminated. +make: *** [/opt/R/4.5.1/lib/R/etc/Makeconf:209: stanExports_stanmarg.o] Error 1 +ERROR: compilation failed for package ‘blavaan’ +* removing ‘/tmp/workdir/blavaan/old/blavaan.Rcheck/blavaan’ + + +``` +# caugi (1.2.0) * GitHub: * Email: @@ -20,7 +2052,7 @@ Run `revdepcheck::cloud_details(, "caugi")` for more info ``` * installing *source* package ‘caugi’ ... -** this is package ‘caugi’ version ‘1.0.0’ +** this is package ‘caugi’ version ‘1.2.0’ ** package ‘caugi’ successfully unpacked and MD5 sums checked ** using staged installation Error in eval(ei, envir) : @@ -39,7 +2071,7 @@ ERROR: configuration failed for package ‘caugi’ ``` * installing *source* package ‘caugi’ ... -** this is package ‘caugi’ version ‘1.0.0’ +** this is package ‘caugi’ version ‘1.2.0’ ** package ‘caugi’ successfully unpacked and MD5 sums checked ** using staged installation Error in eval(ei, envir) : @@ -54,49 +2086,49 @@ ERROR: configuration failed for package ‘caugi’ ``` -# ClustAssess (1.1.0) +# deepSTRAPP (1.0.0) -* GitHub: -* Email: -* GitHub mirror: +* GitHub: +* Email: +* GitHub mirror: -Run `revdepcheck::cloud_details(, "ClustAssess")` for more info +Run `revdepcheck::cloud_details(, "deepSTRAPP")` for more info ## Error before installation ### Devel ``` -* using log directory ‘/tmp/workdir/ClustAssess/new/ClustAssess.Rcheck’ +* using log directory ‘/tmp/workdir/deepSTRAPP/new/deepSTRAPP.Rcheck’ * using R version 4.5.1 (2025-06-13) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 -* running under: Ubuntu 24.04.3 LTS +* running under: Ubuntu 24.04.4 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘ClustAssess/DESCRIPTION’ ... OK -* checking extension type ... Package -* this is package ‘ClustAssess’ version ‘1.1.0’ +* checking for file ‘deepSTRAPP/DESCRIPTION’ ... OK +* this is package ‘deepSTRAPP’ version ‘1.0.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... INFO -Package suggested but not available for checking: ‘monocle3’ +Package suggested but not available for checking: ‘BioGeoBEARS’ * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK -* checking whether package ‘ClustAssess’ can be installed ... OK -* used C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’ +* checking whether package ‘deepSTRAPP’ can be installed ... OK +* used C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0’ * checking installed package size ... INFO - installed size is 5.4Mb + installed size is 7.5Mb sub-directories of 1Mb or more: - R 1.5Mb - libs 3.7Mb + data 1.5Mb + doc 4.4Mb * checking package directory ... OK +* checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK @@ -117,18 +2149,197 @@ Package suggested but not available for checking: ‘monocle3’ * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK -* checking Rd cross-references ... OK +* checking Rd cross-references ... INFO +Package unavailable to check Rd xrefs: ‘OUwie’ +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking LazyData ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking compiled code ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes ... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: OK + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/deepSTRAPP/old/deepSTRAPP.Rcheck’ +* using R version 4.5.1 (2025-06-13) +* using platform: x86_64-pc-linux-gnu +* R was compiled by + gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 + GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 +* running under: Ubuntu 24.04.4 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘deepSTRAPP/DESCRIPTION’ ... OK +* this is package ‘deepSTRAPP’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... INFO +Package suggested but not available for checking: ‘BioGeoBEARS’ +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘deepSTRAPP’ can be installed ... OK +* used C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0’ +* checking installed package size ... INFO + installed size is 7.5Mb + sub-directories of 1Mb or more: + data 1.5Mb + doc 4.4Mb +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking code files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... INFO +Package unavailable to check Rd xrefs: ‘OUwie’ * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking LazyData ... OK +* checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes ... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: OK + + + + + +``` +# ggpicrust2 (2.5.14) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "ggpicrust2")` for more info + +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/ggpicrust2/new/ggpicrust2.Rcheck’ +* using R version 4.5.1 (2025-06-13) +* using platform: x86_64-pc-linux-gnu +* R was compiled by + gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 + GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 +* running under: Ubuntu 24.04.4 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘ggpicrust2/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘ggpicrust2’ version ‘2.5.14’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... INFO +Package suggested but not available for checking: ‘lefser’ +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘ggpicrust2’ can be installed ... OK +* checking installed package size ... INFO + installed size is 9.5Mb + sub-directories of 1Mb or more: + data 6.5Mb + extdata 1.0Mb + help 1.4Mb +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking code files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking whether startup messages can be suppressed ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking LazyData ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... OK Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes ... OK +* checking re-building of vignette outputs ... OK * DONE Status: OK @@ -140,36 +2351,37 @@ Status: OK ### CRAN ``` -* using log directory ‘/tmp/workdir/ClustAssess/old/ClustAssess.Rcheck’ +* using log directory ‘/tmp/workdir/ggpicrust2/old/ggpicrust2.Rcheck’ * using R version 4.5.1 (2025-06-13) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 -* running under: Ubuntu 24.04.3 LTS +* running under: Ubuntu 24.04.4 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘ClustAssess/DESCRIPTION’ ... OK +* checking for file ‘ggpicrust2/DESCRIPTION’ ... OK * checking extension type ... Package -* this is package ‘ClustAssess’ version ‘1.1.0’ +* this is package ‘ggpicrust2’ version ‘2.5.14’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... INFO -Package suggested but not available for checking: ‘monocle3’ +Package suggested but not available for checking: ‘lefser’ * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK -* checking whether package ‘ClustAssess’ can be installed ... OK -* used C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’ +* checking whether package ‘ggpicrust2’ can be installed ... OK * checking installed package size ... INFO - installed size is 5.4Mb + installed size is 9.5Mb sub-directories of 1Mb or more: - R 1.5Mb - libs 3.7Mb + data 6.5Mb + extdata 1.0Mb + help 1.4Mb * checking package directory ... OK +* checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK @@ -183,6 +2395,7 @@ Package suggested but not available for checking: ‘monocle3’ * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK +* checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK @@ -196,12 +2409,19 @@ Package suggested but not available for checking: ‘monocle3’ * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK -* checking line endings in C/C++/Fortran sources/headers ... OK -* checking compiled code ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking LazyData ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... OK Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes ... OK +* checking re-building of vignette outputs ... OK * DONE Status: OK @@ -209,6 +2429,269 @@ Status: OK +``` +# MiscMetabar (NA) + +* : + +Run `revdepcheck::cloud_details(, "MiscMetabar")` for more info + +## Error before installation + +### Devel + +``` + + + + + + +``` +### CRAN + +``` + + + + + + +``` +# richCluster (NA) + +* : + +Run `revdepcheck::cloud_details(, "richCluster")` for more info + +## Error before installation + +### Devel + +``` + + + + + + +``` +### CRAN + +``` + + + + + + +``` +# rsat (0.1.21) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "rsat")` for more info + +## In both + +* checking whether package ‘rsat’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/rsat/new/rsat.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘rsat’ ... +** this is package ‘rsat’ version ‘0.1.21’ +** package ‘rsat’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error: object ‘tm_scale_bar’ is not exported by 'namespace:tmap' +Execution halted +ERROR: lazy loading failed for package ‘rsat’ +* removing ‘/tmp/workdir/rsat/new/rsat.Rcheck/rsat’ + + +``` +### CRAN + +``` +* installing *source* package ‘rsat’ ... +** this is package ‘rsat’ version ‘0.1.21’ +** package ‘rsat’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error: object ‘tm_scale_bar’ is not exported by 'namespace:tmap' +Execution halted +ERROR: lazy loading failed for package ‘rsat’ +* removing ‘/tmp/workdir/rsat/old/rsat.Rcheck/rsat’ + + +``` +# scAnnotate (0.3) + +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "scAnnotate")` for more info + +## In both + +* checking whether package ‘scAnnotate’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/scAnnotate/new/scAnnotate.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘scAnnotate’ ... +** this is package ‘scAnnotate’ version ‘0.3’ +** package ‘scAnnotate’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error: object ‘HarmonyMatrix’ is not exported by 'namespace:harmony' +Execution halted +ERROR: lazy loading failed for package ‘scAnnotate’ +* removing ‘/tmp/workdir/scAnnotate/new/scAnnotate.Rcheck/scAnnotate’ + + +``` +### CRAN + +``` +* installing *source* package ‘scAnnotate’ ... +** this is package ‘scAnnotate’ version ‘0.3’ +** package ‘scAnnotate’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error: object ‘HarmonyMatrix’ is not exported by 'namespace:harmony' +Execution halted +ERROR: lazy loading failed for package ‘scAnnotate’ +* removing ‘/tmp/workdir/scAnnotate/old/scAnnotate.Rcheck/scAnnotate’ + + +``` +# spopt (0.1.2) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "spopt")` for more info + +## In both + +* checking whether package ‘spopt’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/spopt/new/spopt.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘spopt’ ... +** this is package ‘spopt’ version ‘0.1.2’ +** package ‘spopt’ successfully unpacked and MD5 sums checked +** using staged installation +Using cargo 1.75.0 +Using rustc 1.75.0 (82e1608df 2023-12-21) (built from a source tarball) +Building for CRAN. +Writing `src/Makevars`. +`tools/config.R` has finished. +** libs +using C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0’ +gcc -std=gnu2x -I"/opt/R/4.5.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c entrypoint.c -o entrypoint.o +if [ -d ./vendor ]; then \ + echo "=== Using offline vendor directory ==="; \ + mkdir -p /tmp/workdir/spopt/new/spopt.Rcheck/00_pkg_src/spopt/src/.cargo && \ + cp rust/vendor-config.toml /tmp/workdir/spopt/new/spopt.Rcheck/00_pkg_src/spopt/src/.cargo/config.toml; \ +elif [ -f ./rust/vendor.tar.xz ]; then \ + echo "=== Using offline vendor tarball ==="; \ + tar xf rust/vendor.tar.xz && \ + mkdir -p /tmp/workdir/spopt/new/spopt.Rcheck/00_pkg_src/spopt/src/.cargo && \ + cp rust/vendor-config.toml /tmp/workdir/spopt/new/spopt.Rcheck/00_pkg_src/spopt/src/.cargo/config.toml; \ +fi +=== Using offline vendor tarball === +export CARGO_HOME=/tmp/workdir/spopt/new/spopt.Rcheck/00_pkg_src/spopt/src/.cargo && \ +export PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/root/.cargo/bin" && \ +RUSTFLAGS=" --print=native-static-libs" cargo build -j 2 --offline --lib --release --manifest-path=./rust/Cargo.toml --target-dir ./rust/target +error: package `sprs v0.11.4` cannot be built because it requires rustc 1.85.0 or newer, while the currently active rustc version is 1.75.0 +Either upgrade to rustc 1.85.0 or newer, or use +cargo update sprs@0.11.4 --precise ver +where `ver` is the latest version of `sprs` supporting rustc 1.75.0 +make: *** [Makevars:27: rust/target/release/libspopt.a] Error 101 +ERROR: compilation failed for package ‘spopt’ +* removing ‘/tmp/workdir/spopt/new/spopt.Rcheck/spopt’ + + +``` +### CRAN + +``` +* installing *source* package ‘spopt’ ... +** this is package ‘spopt’ version ‘0.1.2’ +** package ‘spopt’ successfully unpacked and MD5 sums checked +** using staged installation +Using cargo 1.75.0 +Using rustc 1.75.0 (82e1608df 2023-12-21) (built from a source tarball) +Building for CRAN. +Writing `src/Makevars`. +`tools/config.R` has finished. +** libs +using C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0’ +gcc -std=gnu2x -I"/opt/R/4.5.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c entrypoint.c -o entrypoint.o +if [ -d ./vendor ]; then \ + echo "=== Using offline vendor directory ==="; \ + mkdir -p /tmp/workdir/spopt/old/spopt.Rcheck/00_pkg_src/spopt/src/.cargo && \ + cp rust/vendor-config.toml /tmp/workdir/spopt/old/spopt.Rcheck/00_pkg_src/spopt/src/.cargo/config.toml; \ +elif [ -f ./rust/vendor.tar.xz ]; then \ + echo "=== Using offline vendor tarball ==="; \ + tar xf rust/vendor.tar.xz && \ + mkdir -p /tmp/workdir/spopt/old/spopt.Rcheck/00_pkg_src/spopt/src/.cargo && \ + cp rust/vendor-config.toml /tmp/workdir/spopt/old/spopt.Rcheck/00_pkg_src/spopt/src/.cargo/config.toml; \ +fi +=== Using offline vendor tarball === +export CARGO_HOME=/tmp/workdir/spopt/old/spopt.Rcheck/00_pkg_src/spopt/src/.cargo && \ +export PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/root/.cargo/bin" && \ +RUSTFLAGS=" --print=native-static-libs" cargo build -j 2 --offline --lib --release --manifest-path=./rust/Cargo.toml --target-dir ./rust/target +error: package `rayon-core v1.13.0` cannot be built because it requires rustc 1.80 or newer, while the currently active rustc version is 1.75.0 +Either upgrade to rustc 1.80 or newer, or use +cargo update rayon-core@1.13.0 --precise ver +where `ver` is the latest version of `rayon-core` supporting rustc 1.75.0 +make: *** [Makevars:27: rust/target/release/libspopt.a] Error 101 +ERROR: compilation failed for package ‘spopt’ +* removing ‘/tmp/workdir/spopt/old/spopt.Rcheck/spopt’ + + ``` # streamDAG (1.6) @@ -228,7 +2711,7 @@ Run `revdepcheck::cloud_details(, "streamDAG")` for more info * R was compiled by gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 -* running under: Ubuntu 24.04.3 LTS +* running under: Ubuntu 24.04.4 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘streamDAG/DESCRIPTION’ ... OK @@ -256,7 +2739,7 @@ Status: 1 ERROR * R was compiled by gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 -* running under: Ubuntu 24.04.3 LTS +* running under: Ubuntu 24.04.4 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘streamDAG/DESCRIPTION’ ... OK diff --git a/revdep/problems.md b/revdep/problems.md index 080d122a571..d70e45da858 100644 --- a/revdep/problems.md +++ b/revdep/problems.md @@ -1,247 +1,776 @@ -# Cascade (2.3) +# comato (1.1) -* GitHub: -* Email: -* GitHub mirror: +* Email: +* GitHub mirror: -Run `revdepcheck::cloud_details(, "Cascade")` for more info +Run `revdepcheck::cloud_details(, "comato")` for more info ## Newly broken -* checking whether package ‘Cascade’ can be installed ... WARNING +* checking examples ... ERROR ``` - Found the following significant warnings: - Warning: replacing previous import ‘igraph::circulant’ by ‘magic::circulant’ when loading ‘Cascade’ - See ‘/tmp/workdir/Cascade/new/Cascade.Rcheck/00install.out’ for details. + ... + > g2 = set.vertex.attribute(erdos.renyi.game(5, 0.7, type="gnp"), "name", value=1:5) + > g3 = set.vertex.attribute(erdos.renyi.game(5, 0.7, type="gnp"), "name", value=1:5) + > E(g1)$name <- rep("", length(E(g1))) + > E(g2)$name <- rep("", length(E(g2))) + > E(g3)$name <- rep("", length(E(g3))) + > #Create conceptmaps object from three conceptmap objects + > simple_cms = conceptmaps(list(conceptmap(g1), conceptmap(g2), conceptmap(g3))) + > + > plot(simple_cms, layout="spring") + Warning: `graph.union()` was deprecated in igraph 2.0.0. + ℹ Please use `union.igraph()` instead. + ℹ The deprecated feature was likely used in the comato package. + Please report the issue to the authors. + Error: + ! `layout.spring()` was deprecated in igraph 2.1.0 and is now defunct. + ℹ Please use `layout_with_fr()` instead. + Backtrace: + ▆ + 1. ├─base::plot(simple_cms, layout = "spring") + 2. └─comato:::plot.conceptmaps(simple_cms, layout = "spring") + 3. └─igraph::layout.spring(union) + 4. └─lifecycle::deprecate_stop("2.1.0", "layout.spring()", "layout_with_fr()") + 5. └─lifecycle:::deprecate_stop0(msg) + 6. └─rlang::cnd_signal(...) + Execution halted ``` -# DiagrammeR (1.0.11) +# cranly (0.6.0) -* GitHub: -* Email: -* GitHub mirror: +* GitHub: +* Email: +* GitHub mirror: -Run `revdepcheck::cloud_details(, "DiagrammeR")` for more info +Run `revdepcheck::cloud_details(, "cranly")` for more info + +## Newly broken + +* checking re-building of vignette outputs ... ERROR + ``` + ... + ▆ + 1. ├─base::summary(package_network) + 2. └─cranly:::summary.cranly_network(package_network) + 3. └─igraph::eigen_centrality(cranly_graph, scale = FALSE) + 4. └─lifecycle::deprecate_stop(...) + 5. └─lifecycle:::deprecate_stop0(msg) + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + + Error: processing vignette 'cranly.Rmd' failed with diagnostics: + The `scale` argument of `eigen_centrality()` always as if TRUE as of + igraph 2.1.1. + ℹ Normalization is always performed + --- failed re-building ‘cranly.Rmd’ + + --- re-building ‘dependence_trees.Rmd’ using rmarkdown + --- finished re-building ‘dependence_trees.Rmd’ + + --- re-building ‘extractors.Rmd’ using rmarkdown + --- finished re-building ‘extractors.Rmd’ + + SUMMARY: processing the following file failed: + ‘cranly.Rmd’ + + Error: Vignette re-building failed. + Execution halted + ``` + +# dci (1.0.3) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "dci")` for more info ## Newly broken * checking examples ... ERROR ``` ... - > # for all nodes in the graph - > graph %>% - + get_leverage_centrality() - Error in `purrr::map()`: - ℹ In index: 1. - Caused by error in `igraph::neighbors()`: - ! `vid` must specify exactly one vertex - Backtrace: ▆ - 1. ├─graph %>% get_leverage_centrality() - 2. ├─DiagrammeR::get_leverage_centrality(.) - 3. │ ├─... %>% unlist() - 4. │ └─purrr::map(...) - 5. │ └─purrr:::map_("list", .x, .f, ..., .progress = .progress) - 6. │ ├─purrr:::with_indexed_errors(...) - 7. │ │ └─base::withCallingHandlers(...) - 8. │ ├─purrr:::call_with_cleanup(...) - 9. │ └─DiagrammeR (local) .f(.x[[i]], ...) - 10. │ ├─base::mean(...) - 11. │ └─igraph::neighbors(ig_graph, degree_vals) - 12. │ └─igraph:::neighbors_impl(graph = graph, vid = v, mode = mode) - 13. │ └─cli::cli_abort(...) - 14. │ └─rlang::abort(...) - 15. └─base::unlist(.) + 1. ├─dci::river_net(...) + 2. │ └─dci:::node_labeling(net) + 3. │ └─activate(net, nodes) %>% ... + 4. ├─dplyr::mutate(...) + 5. ├─tidygraph:::mutate.tbl_graph(...) + 6. │ └─tidygraph::mutate_as_tbl(.data, !!!dot) + 7. │ ├─dplyr::mutate(d_tmp, ...) + 8. │ ├─sf:::mutate.sf(d_tmp, ...) + 9. │ │ └─sf:::.re_sf(NextMethod(), sf_column_name = sf_column_name, agr) + 10. │ │ └─base::stopifnot(...) + 11. │ ├─base::NextMethod() + 12. │ └─dplyr:::mutate.data.frame(d_tmp, ...) + 13. │ └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by) + 14. │ ├─base::withCallingHandlers(...) + 15. │ └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns) + 16. │ └─mask$eval_all_mutate(quo) + 17. │ └─dplyr (local) eval() + 18. └─tidygraph::map_bfs(...) + 19. └─tidygraph:::bfs_df(graph, root, mode, unreachable) + 20. └─igraph::bfs(...) + 21. └─lifecycle::deprecate_stop("2.2.0", "bfs(father = )", "bfs(parent = )") + 22. └─lifecycle:::deprecate_stop0(msg) + 23. └─rlang::cnd_signal(...) Execution halted ``` * checking tests ... ERROR ``` ... - 'test-add_graphs.R:3:1', 'test-add_graphs.R:223:1', - 'test-add_graphs.R:1706:1', 'test-add_nodes_edges_from_table.R:268:1', - 'test-cache_attrs.R:3:1', 'test-colorize_nodes_edges.R:219:1', - 'test-create_combine_nodes.R:3:1', 'test-create_subgraph.R:3:1', - 'test-delete_node_edge.R:255:1', - 'test-get_select_last_nodes_edges_created.R:75:1', - 'test-graph_series.R:323:1', 'test-graph_validation.R:3:1', - 'test-graph_validation.R:234:1', 'test-graph_validation.R:292:1', - 'test-render_graph.R:3:3', 'test-selections.R:1:1', - 'test-set_get_node_edge_attrs.R:236:1', 'test-similarity_measures.R:1:1', - 'test-similarity_measures.R:113:1', 'test-transform_graph.R:98:1', - 'test-transform_graph.R:262:1', 'test-trav_out_until.R:1:1', - 'test-traversals.R:3:1' ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Error ('test-get_node_calculations.R:255:3'): Getting leverage centrality is possible ── - - Error in `purrr::map(seq_along(degree_vals), function(x) { mean((degree_vals[x] - degree_vals[igraph::neighbors(ig_graph, degree_vals)])/(degree_vals[x] + degree_vals[igraph::neighbors(ig_graph, degree_vals)])) })`: i In index: 1. - Caused by error in `igraph::neighbors()`: - ! `vid` must specify exactly one vertex + ── Error ('test-label.R:6:3'): Correct node labels created ───────────────────── + + Error in `stopifnot(!inherits(x, "sf"), !missing(sf_column_name), !missing(agr))`: i In argument: `node_label = tidygraph::map_bfs(...)`. + Caused by error: + ! The `father` argument of `bfs()` was deprecated in igraph 2.2.0 and is now defunct. + i Please use the `parent` argument instead. + ── Error ('test-label.R:18:3'): Correct member labels created ────────────────── + + Error in `stopifnot(!inherits(x, "sf"), !missing(sf_column_name), !missing(agr))`: i In argument: `member_label = tidygraph::map_dfs_int(...)`. + Caused by error: + ! The `father` argument of `dfs()` was deprecated in igraph 2.2.0 and is now defunct. + i Please use the `parent` argument instead. + ── Error ('test-river_net.R:18:3'): Simple river network is created ──────────── + + Error in `stopifnot(!inherits(x, "sf"), !missing(sf_column_name), !missing(agr))`: i In argument: `node_label = tidygraph::map_bfs(...)`. + Caused by error: + ! The `father` argument of `bfs()` was deprecated in igraph 2.2.0 and is now defunct. + i Please use the `parent` argument instead. - [ FAIL 1 | WARN 3 | SKIP 24 | PASS 1796 ] + [ FAIL 3 | WARN 0 | SKIP 1 | PASS 46 ] Error: ! Test failures. Execution halted ``` -# jewel (2.0.2) +* checking re-building of vignette outputs ... ERROR + ``` + ... + 15. │ └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by) + 16. │ ├─base::withCallingHandlers(...) + 17. │ └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns) + 18. │ └─mask$eval_all_mutate(quo) + 19. │ └─dplyr (local) eval() + 20. └─tidygraph::map_bfs(...) + 21. └─tidygraph:::bfs_df(graph, root, mode, unreachable) + 22. └─igraph::bfs(...) + 23. └─lifecycle::deprecate_stop("2.2.0", "bfs(father = )", "bfs(parent = )") + 24. └─lifecycle:::deprecate_stop0(msg) + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + + Error: processing vignette 'user_guide.Rmd' failed with diagnostics: + ℹ In argument: `node_label = tidygraph::map_bfs(...)`. + Caused by error: + ! The `father` argument of `bfs()` was deprecated in igraph 2.2.0 and is + now defunct. + ℹ Please use the `parent` argument instead. + --- failed re-building ‘user_guide.Rmd’ + + SUMMARY: processing the following file failed: + ‘user_guide.Rmd’ + + Error: Vignette re-building failed. + Execution halted + ``` + +# degreenet (1.3-6) -* GitHub: -* Email: -* GitHub mirror: +* Email: +* GitHub mirror: -Run `revdepcheck::cloud_details(, "jewel")` for more info +Run `revdepcheck::cloud_details(, "degreenet")` for more info ## Newly broken * checking examples ... ERROR ``` - ... + Running examples in ‘degreenet-Ex.R’ failed The error most likely occurred in: - > ### Name: constructWeights - > ### Title: Construct weights for _jewel_ minimization problem from prior - > ### information on vertices degrees. - > ### Aliases: constructWeights + > ### Name: reedmolloy + > ### Title: Generate a undirected network with a given sequence of degrees + > ### Aliases: reedmolloy + > ### Keywords: models > > ### ** Examples > - > { - + K <- 3 - + p <- 50 - + n <- 20 - + data <- generateData_rewire(K = K, p = p, n = n, ncores = 1, verbose = FALSE) - + G_list_true <- data$Graphs - + true_degrees <- rowSums(G_list_true[[1]]) - + cut <- sort(true_degrees, decreasing = TRUE)[ceiling(p * 0.03)] - + apriori_hubs <- ifelse(true_degrees >= cut, 10, 1) - + W <- constructWeights(apriori_hubs, K = K) - + } - Error in rewire_impl(rewire = graph, n = niter, mode = mode) : - The value 2.4500000000000002 is not representable as an integer. Invalid value - Source: rinterface_extra.c:83 - Calls: generateData_rewire ... do_call -> eval -> eval -> -> rewire_impl + > # Now, simulate a Poisson Lognormal distribution over 100 + > # observations with mean = -1 and s.d. = 1. + > + > set.seed(2) + > s4 <- simpln(n=100, v=c(-1,1)) + > table(s4) + s4 + 1 2 3 4 5 6 + 65 18 7 4 4 2 + > # + > simr <- reedmolloy(s4) + Error in reedmolloy(s4) : + The reedmolloy function failed to form a valid network from the passed degree sequence. Execution halted ``` -# manynet (1.7.0) +# ECoL (0.3.0) -* GitHub: -* Email: -* GitHub mirror: +* GitHub: +* Email: +* GitHub mirror: -Run `revdepcheck::cloud_details(, "manynet")` for more info +Run `revdepcheck::cloud_details(, "ECoL")` for more info ## Newly broken +* checking examples ... ERROR + ``` + ... + ! `hub.score()` was deprecated in igraph 2.0.0 and is now defunct. + ℹ Please use `hits_scores()` instead. + Backtrace: + ▆ + 1. ├─ECoL::complexity(Species ~ ., iris) + 2. └─ECoL:::complexity.formula(Species ~ ., iris) + 3. └─ECoL:::complexity.default(...) + 4. ├─base::unlist(...) + 5. └─base::sapply(...) + 6. └─base::lapply(X = X, FUN = FUN, ...) + 7. └─ECoL (local) FUN(X[[i]], ...) + 8. ├─base::do.call(group, list(x = x, y = y, summary = summary, ...)) + 9. ├─ECoL::network(x = ``, y = ``, summary = ``) + 10. └─ECoL:::network.default(x = ``, y = ``, summary = ``) + 11. └─base::sapply(...) + 12. └─base::lapply(X = X, FUN = FUN, ...) + 13. └─ECoL (local) FUN(X[[i]], ...) + 14. ├─base::eval(call(paste("c", f, sep = "."), graph)) + 15. │ └─base::eval(call(paste("c", f, sep = "."), graph)) + 16. └─ECoL:::c.Hubs(``) + 17. └─igraph::hub.score(graph) + 18. └─lifecycle::deprecate_stop("2.0.0", "hub.score()", "hits_scores()") + 19. └─lifecycle:::deprecate_stop0(msg) + 20. └─rlang::cnd_signal(...) + Execution halted + ``` + * checking tests ... ERROR ``` ... - > test-member_community.R: v `node_in_walktrap()` returns the highest modularity (0.826). - > test-member_community.R: ========>---------------------- 25% | ETA: 37s - [ FAIL 1 | WARN 0 | SKIP 5 | PASS 695 ] - - ══ Skipped tests (5) ═══════════════════════════════════════════════════════════ - • On CRAN (5): 'test-manip_as.R:93:3', 'test-manip_split.R:49:3', - 'test-mark_nodes.R:85:3', 'test-mark_ties.R:41:3', 'test-mark_ties.R:50:3' - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Error ('test-make_generate.R:45:3'): generate_citations works ─────────────── - Error in `lastcit_game_impl(nodes = n, edges_per_node = edges, agebins = agebins, preference = pref, directed = directed)`: Expecting a scalar integer but received a vector of length 2. Invalid value - Source: rinterface_extra.c:79 + 20. └─rlang::cnd_signal(...) + ── Error ('test_network.R:11:3'): multiclass.result ──────────────────────────── + + Error: `hub.score()` was deprecated in igraph 2.0.0 and is now defunct. + ℹ Please use `hits_scores()` instead. Backtrace: - ▆ - 1. ├─testthat::expect_s3_class(...) at test-make_generate.R:45:3 - 2. │ └─testthat::quasi_label(enquo(object)) - 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) - 4. └─manynet::generate_citations(ison_southern_women) - 5. └─igraph::sample_last_cit(n, edges = ties, agebins = agebins, directed = directed) - 6. └─igraph:::lastcit_game_impl(...) + ▆ + 1. ├─ECoL::network(Species ~ ., iris, measures = "Hubs", summary = "mean") at test_network.R:11:3 + 2. └─ECoL:::network.formula(...) + 3. └─ECoL:::network.default(...) + 4. └─base::sapply(...) + 5. └─base::lapply(X = X, FUN = FUN, ...) + 6. └─ECoL (local) FUN(X[[i]], ...) + 7. ├─base::eval(call(paste("c", f, sep = "."), graph)) + 8. │ └─base::eval(call(paste("c", f, sep = "."), graph)) + 9. └─ECoL:::c.Hubs(``) + 10. └─igraph::hub.score(graph) + 11. └─lifecycle::deprecate_stop("2.0.0", "hub.score()", "hits_scores()") + 12. └─lifecycle:::deprecate_stop0(msg) + 13. └─rlang::cnd_signal(...) - [ FAIL 1 | WARN 0 | SKIP 5 | PASS 695 ] + [ FAIL 3 | WARN 4 | SKIP 0 | PASS 96 ] Error: ! Test failures. Execution halted ``` -# rSpectral (1.0.0.14) +# FrF2 (2.3-4) + +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "FrF2")` for more info + +## Newly broken + +* checking tests ... NOTE + ``` + ... + < 4: `clique.number()` was deprecated in igraph 2.0.0. + < ℹ Please use `clique_num()` instead. + < ℹ The deprecated feature was likely used in the FrF2 package. + < Please report the issue to the authors. + Running ‘godolphintest.R’ + Comparing ‘godolphintest.Rout’ to ‘godolphintest.Rout.save’ ...49,65d48 + < Warning messages: + < 1: `graph.empty()` was deprecated in igraph 2.1.0. + < ℹ Please use `make_empty_graph()` instead. + < ℹ The deprecated feature was likely used in the FrF2 package. + < Please report the issue to the authors. + < 2: `add.edges()` was deprecated in igraph 2.0.0. + < ℹ Please use `add_edges()` instead. + < ℹ The deprecated feature was likely used in the FrF2 package. + < Please report the issue to the authors. + < 3: `independence.number()` was deprecated in igraph 2.0.0. + < ℹ Please use `ivs_size()` instead. + < ℹ The deprecated feature was likely used in the FrF2 package. + < Please report the issue to the authors. + < 4: `clique.number()` was deprecated in igraph 2.0.0. + < ℹ Please use `clique_num()` instead. + < ℹ The deprecated feature was likely used in the FrF2 package. + < Please report the issue to the authors. + Running ‘pbtest.R’ + Comparing ‘pbtest.Rout’ to ‘pbtest.Rout.save’ ... OK + ``` + +# ggraph (2.2.2) -* GitHub: -* Email: -* GitHub mirror: +* GitHub: +* Email: +* GitHub mirror: -Run `revdepcheck::cloud_details(, "rSpectral")` for more info +Run `revdepcheck::cloud_details(, "ggraph")` for more info + +## Newly broken + +* checking examples ... ERROR + ``` + ... + Caused by error: + ! The `father` argument of `bfs()` was deprecated in igraph 2.2.0 and is + now defunct. + ℹ Please use the `parent` argument instead. + Backtrace: + ▆ + 1. ├─tbl_graph(flare$vertices, flare$edges) %>% ... + 2. ├─dplyr::mutate(...) + 3. ├─tidygraph:::mutate.tbl_graph(...) + 4. │ └─tidygraph::mutate_as_tbl(.data, !!!dot) + 5. │ ├─dplyr::mutate(d_tmp, ...) + 6. │ └─dplyr:::mutate.data.frame(d_tmp, ...) + 7. │ └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by) + 8. │ ├─base::withCallingHandlers(...) + 9. │ └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns) + 10. │ └─mask$eval_all_mutate(quo) + 11. │ └─dplyr (local) eval() + 12. └─tidygraph::map_bfs_chr(...) + 13. └─tidygraph::map_bfs(...) + 14. └─tidygraph:::bfs_df(graph, root, mode, unreachable) + 15. └─igraph::bfs(...) + 16. └─lifecycle::deprecate_stop("2.2.0", "bfs(father = )", "bfs(parent = )") + 17. └─lifecycle:::deprecate_stop0(msg) + 18. └─rlang::cnd_signal(...) + Execution halted + ``` + +* checking re-building of vignette outputs ... ERROR + ``` + ... + 16. └─lifecycle:::deprecate_stop0(msg) + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + + Error: processing vignette 'Edges.Rmd' failed with diagnostics: + ℹ In argument: `Class = map_bfs_back_chr(...)`. + Caused by error: + ! The `father` argument of `bfs()` was deprecated in igraph 2.2.0 and is + now defunct. + ℹ Please use the `parent` argument instead. + --- failed re-building ‘Edges.Rmd’ + + --- re-building ‘Layouts.Rmd’ using rmarkdown + --- finished re-building ‘Layouts.Rmd’ + + --- re-building ‘Nodes.Rmd’ using rmarkdown + --- finished re-building ‘Nodes.Rmd’ + + --- re-building ‘tidygraph.Rmd’ using rmarkdown + --- finished re-building ‘tidygraph.Rmd’ + + SUMMARY: processing the following file failed: + ‘Edges.Rmd’ + + Error: Vignette re-building failed. + Execution halted + ``` + +# GoodFitSBM (0.0.1) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "GoodFitSBM")` for more info + +## Newly broken + +* checking examples ... ERROR + ``` + ... + ℹ The deprecated feature was likely used in the GoodFitSBM package. + Please report the issue at . + Warning: `get.edge.ids()` was deprecated in igraph 2.1.0. + ℹ Please use `get_edge_ids()` instead. + ℹ The deprecated feature was likely used in the GoodFitSBM package. + Please report the issue at . + Error: + ! The `vp` argument of `get_edge_ids()` supplied as a matrix should be a + n times 2 matrix, not 2 times n as of igraph 2.1.5. + ℹ either transpose the matrix with t() or convert it to a data.frame with two + columns. + Backtrace: + ▆ + 1. └─GoodFitSBM::goftest_BetaSBM(adjsymm, C = class, numGraphs = 10) + 2. └─GoodFitSBM::sample_a_move_BetaSBM(C, G) + 3. └─GoodFitSBM:::Get.Next.Network(...) + 4. └─GoodFitSBM:::Get.Move.beta.SBM(b, blocks = SBM.blocks, coin = beta.SBM.coin) + 5. └─GoodFitSBM:::Get.Induced.Subgraph(g, v.block[[i]]) + 6. └─igraph::get.edge.ids(g, pairs) + 7. └─igraph::get_edge_ids(...) + 8. └─igraph:::el_to_vec(vp, call = rlang::caller_env()) + 9. └─lifecycle::deprecate_stop(...) + 10. └─lifecycle:::deprecate_stop0(msg) + 11. └─rlang::cnd_signal(...) + Execution halted + ``` + +# migraph (1.6.2) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "migraph")` for more info ## Newly broken * checking tests ... ERROR ``` ... - This graph was created by an old(er) igraph version. - i Call `igraph::upgrade_graph()` on it to use with the current igraph version. - For now we convert it on the fly... - Saving _problems/test-igraph-19.R - Saving _problems/test-igraph-26.R - [ FAIL 2 | WARN 4 | SKIP 0 | PASS 10 ] + 'test-tutorials_netrics.R:8:3' + • On Linux (1): 'test-model_tests.R:58:3' + • Skipping slow functions in diffusion.Rmd (1): 'test-tutorials_migraph.R:12:5' + • empty test (1): 'test-measure_over.R:1:1' ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test-igraph.R:19:3'): membership fix_neig=0 is correct ──────────── - Expected `c$modularity` to equal `exp_mod10`. - Differences: - `actual`: 0.432 - `expected`: 0.408 - - ── Failure ('test-igraph.R:26:3'): membership fix_neig=1 is correct ──────────── - Expected `c$modularity` to equal `exp_mod11`. + ── Failure ('test-tutorials_migraph.R:12:5'): migraph tutorial code runs without warnings or errors ── + Expected `w` to be NULL. Differences: - `actual`: 0.3758 - `expected`: 0.3776 + `actual` is an S3 object of class , a list + `expected` is NULL + Warning in expression 17 : rg <- create_ring(32, width = 2) + Backtrace: + ▆ + 1. ├─testthat::expect_null(...) at test-tutorials_migraph.R:12:5 + 2. │ └─testthat::quasi_label(enquo(object), label) + 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) + 4. └─migraph:::check_tute_functions(tute, skip = "ergm\\(|play_diffusions\\(") + 5. └─testthat::expect_null(...) at ./helper-functions.R:126:5 - [ FAIL 2 | WARN 4 | SKIP 0 | PASS 10 ] + [ FAIL 1 | WARN 0 | SKIP 5 | PASS 347 ] Error: ! Test failures. Execution halted ``` -# sfnetworks (0.6.5) +# nat (1.8.25) -* GitHub: -* Email: -* GitHub mirror: +* GitHub: +* Email: +* GitHub mirror: -Run `revdepcheck::cloud_details(, "sfnetworks")` for more info +Run `revdepcheck::cloud_details(, "nat")` for more info ## Newly broken +* checking examples ... ERROR + ``` + ... + > hist(igraph::distances(ngw)) + > + > # converting back and forth between neurons and graphs + > g=as.ngraph(Cell07PNs[[1]]) + > gstem=igraph::induced_subgraph(g, 1:10) + > # this is fine + > plot(gstem) + > plot(as.neuron(gstem)) + Error: + ! The `father` argument of `dfs()` was deprecated in igraph 2.2.0 and is + now defunct. + ℹ Please use the `parent` argument instead. + Backtrace: + ▆ + 1. ├─base::plot(as.neuron(gstem)) + 2. ├─nat::as.neuron(gstem) + 3. └─nat:::as.neuron.igraph(gstem) + 4. └─nat:::as.neuron.ngraph(x, ...) + 5. ├─nat::as.seglist(masterg <- x, origin = origin, Verbose = Verbose) + 6. └─nat:::as.seglist.igraph(masterg <- x, origin = origin, Verbose = Verbose) + 7. └─igraph::dfs(x, root = origin, father = TRUE, mode = "all") + 8. └─lifecycle::deprecate_stop("2.2.0", "dfs(father = )", "dfs(parent = )") + 9. └─lifecycle:::deprecate_stop0(msg) + 10. └─rlang::cnd_signal(...) + Execution halted + ``` + * checking tests ... ERROR ``` ... - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 276 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Error ('test_paths.R:41:3'): Only the first from argument - is used for shortest paths calculations ── - Error in `all_shortest_paths(x, from, to, weights = weights, ...)`: `from` must specify exactly one vertex + 7. └─igraph::dfs(x, root = origin, father = TRUE, mode = "all") + 8. └─lifecycle::deprecate_stop("2.2.0", "dfs(father = )", "dfs(parent = )") + 9. └─lifecycle:::deprecate_stop0(msg) + 10. └─rlang::cnd_signal(...) + ── Error ('test-seglist.R:13:3'): convert graph to seglist ───────────────────── + + Error: The `father` argument of `dfs()` was deprecated in igraph 2.2.0 and is + now defunct. + ℹ Please use the `parent` argument instead. Backtrace: - ▆ - 1. ├─testthat::expect_warning(...) at test_paths.R:41:3 - 2. │ └─testthat:::quasi_capture(...) - 3. │ ├─testthat (local) .capture(...) - 4. │ │ └─base::withCallingHandlers(...) - 5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) - 6. ├─sfnetworks::st_network_paths(...) - 7. └─sfnetworks:::st_network_paths.sfnetwork(...) - 8. └─sfnetworks:::get_all_shortest_paths(...) - 9. └─igraph::all_shortest_paths(x, from, to, weights = weights, ...) - 10. └─igraph:::get_all_shortest_paths_dijkstra_impl(...) - 11. └─cli::cli_abort(...) - 12. └─rlang::abort(...) + ▆ + 1. ├─testthat::expect_equal(as.seglist(g), sl) at test-seglist.R:13:3 + 2. │ └─testthat::quasi_label(enquo(object), label) + 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) + 4. ├─nat::as.seglist(g) + 5. └─nat:::as.seglist.igraph(g) + 6. └─igraph::dfs(x, root = origin, father = TRUE, mode = "all") + 7. └─lifecycle::deprecate_stop("2.2.0", "dfs(father = )", "dfs(parent = )") + 8. └─lifecycle:::deprecate_stop0(msg) + 9. └─rlang::cnd_signal(...) - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 276 ] + [ FAIL 38 | WARN 2 | SKIP 6 | PASS 585 ] Error: ! Test failures. Execution halted ``` +* checking re-building of vignette outputs ... ERROR + ``` + ... + Backtrace: + ▆ + 1. ├─base::subset(n1, X > 240) + 2. └─nat:::subset.neuron(n1, X > 240) + 3. └─nat::prune_vertices(x, r, invert = !invert, ...) + 4. ├─nat::as.neuron(as.ngraph(dg), ...) + 5. └─nat:::as.neuron.ngraph(as.ngraph(dg), ...) + 6. ├─nat::as.seglist(masterg <- x, origin = origin, Verbose = Verbose) + 7. └─nat:::as.seglist.igraph(masterg <- x, origin = origin, Verbose = Verbose) + 8. └─igraph::dfs(x, root = origin, father = TRUE, mode = "all") + 9. └─lifecycle::deprecate_stop("2.2.0", "dfs(father = )", "dfs(parent = )") + 10. └─lifecycle:::deprecate_stop0(msg) + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + + Error: processing vignette 'neurons-intro.Rmd' failed with diagnostics: + The `father` argument of `dfs()` was deprecated in igraph 2.2.0 and is + now defunct. + ℹ Please use the `parent` argument instead. + --- failed re-building ‘neurons-intro.Rmd’ + + SUMMARY: processing the following file failed: + ‘neurons-intro.Rmd’ + + Error: Vignette re-building failed. + Execution halted + ``` + +# qgraph (1.9.8) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "qgraph")` for more info + +## Newly broken + +* checking examples ... ERROR + ``` + ... + Warning: `watts.strogatz.game()` was deprecated in igraph 2.0.0. + ℹ Please use `sample_smallworld()` instead. + > smallworldness(regnet, B=10) + Warning: `average.path.length()` was deprecated in igraph 2.0.0. + ℹ Please use `mean_distance()` instead. + ℹ The deprecated feature was likely used in the qgraph package. + Please report the issue at . + Warning: `degree.sequence.game()` was deprecated in igraph 2.0.0. + ℹ Please use `sample_degseq()` instead. + ℹ The deprecated feature was likely used in the qgraph package. + Please report the issue at . + Error: + ! The `method` argument of `sample_degseq()` must be fast.heur.simple + instead of simple.no.multiple as of igraph 2.1.0. + Backtrace: + ▆ + 1. └─qgraph::smallworldness(regnet, B = 10) + 2. └─base::lapply(...) + 3. └─qgraph (local) FUN(X[[i]], ...) + 4. └─igraph::degree.sequence.game(deg.dist, method = "simple.no.multiple") + 5. └─igraph::sample_degseq(out.deg = out.deg, in.deg = in.deg, method = method) + 6. └─lifecycle::deprecate_stop("2.1.0", "sample_degseq(method = 'must be fast.heur.simple instead of simple.no.multiple')") + 7. └─lifecycle:::deprecate_stop0(msg) + 8. └─rlang::cnd_signal(...) + Execution halted + ``` + +# R6causal (0.8.3) + +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "R6causal")` for more info + +## Newly broken + +* checking whether package ‘R6causal’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: `set.edge.attribute()` was deprecated in igraph 2.0.0. + Warning: `induced.subgraph()` was deprecated in igraph 2.0.0. + Warning: `get.vertex.attribute()` was deprecated in igraph 2.0.0. + See ‘/tmp/workdir/R6causal/new/R6causal.Rcheck/00install.out’ for details. + ``` + +# scistreer (1.2.1) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "scistreer")` for more info + +## Newly broken + +* checking examples ... ERROR + ``` + ... + ℹ Please use the `parent` argument instead. + Backtrace: + ▆ + 1. ├─scistreer::annotate_tree(tree_small, P_small) + 2. │ └─scistreer::mut_to_tree(gtree, mut_nodes) + 3. │ └─... %>% ... + 4. ├─dplyr::mutate(., GT = ifelse(GT == "" & !is.na(site), site, GT)) + 5. ├─dplyr::mutate(...) + 6. ├─tidygraph:::mutate.tbl_graph(...) + 7. │ └─tidygraph::mutate_as_tbl(.data, !!!dot) + 8. │ ├─dplyr::mutate(d_tmp, ...) + 9. │ └─dplyr:::mutate.data.frame(d_tmp, ...) + 10. │ └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by) + 11. │ ├─base::withCallingHandlers(...) + 12. │ └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns) + 13. │ └─mask$eval_all_mutate(quo) + 14. │ └─dplyr (local) eval() + 15. ├─base::unlist(...) + 16. └─tidygraph::map_bfs(...) + 17. └─tidygraph:::bfs_df(graph, root, mode, unreachable) + 18. └─igraph::bfs(...) + 19. └─lifecycle::deprecate_stop("2.2.0", "bfs(father = )", "bfs(parent = )") + 20. └─lifecycle:::deprecate_stop0(msg) + 21. └─rlang::cnd_signal(...) + Execution halted + ``` + +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘Rcpp’ + All declared Imports should be used. + ``` + +# tidygraph (1.3.1) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "tidygraph")` for more info + +## Newly broken + +* checking examples ... ERROR + ``` + ... + Caused by error: + ! The `father` argument of `bfs()` was deprecated in igraph 2.2.0 and is + now defunct. + ℹ Please use the `parent` argument instead. + Backtrace: + ▆ + 1. ├─... %>% ... + 2. ├─dplyr::mutate(...) + 3. ├─tidygraph:::mutate.tbl_graph(...) + 4. │ └─tidygraph::mutate_as_tbl(.data, !!!dot) + 5. │ ├─dplyr::mutate(d_tmp, ...) + 6. │ └─dplyr:::mutate.data.frame(d_tmp, ...) + 7. │ └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by) + 8. │ ├─base::withCallingHandlers(...) + 9. │ └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns) + 10. │ └─mask$eval_all_mutate(quo) + 11. │ └─dplyr (local) eval() + 12. └─tidygraph::map_bfs_dbl(...) + 13. └─tidygraph::map_bfs(...) + 14. └─tidygraph:::bfs_df(graph, root, mode, unreachable) + 15. └─igraph::bfs(...) + 16. └─lifecycle::deprecate_stop("2.2.0", "bfs(father = )", "bfs(parent = )") + 17. └─lifecycle:::deprecate_stop0(msg) + 18. └─rlang::cnd_signal(...) + Execution halted + ``` + +* checking tests ... ERROR + ``` + ... + 8. └─lifecycle:::deprecate_stop0(msg) + 9. └─rlang::cnd_signal(...) + ── Error ('test-search.R:9:3'): search returns correct type ──────────────────── + + Error in `mutate(d_tmp, ...)`: i In argument: `val = fn`. + Caused by error: + ! The `father` argument of `bfs()` was deprecated in igraph 2.2.0 and is now defunct. + i Please use the `parent` argument instead. + ── Error ('test-search.R:22:3'): search returns correct length ───────────────── + + Error in `mutate(d_tmp, ...)`: i In argument: `val = fn`. + Caused by error: + ! The `father` argument of `bfs()` was deprecated in igraph 2.2.0 and is now defunct. + i Please use the `parent` argument instead. + ── Error ('test-search.R:36:3'): search returns correct length ───────────────── + + Error in `mutate(d_tmp, ...)`: i In argument: `val = fn`. + Caused by error: + ! The `father` argument of `bfs()` was deprecated in igraph 2.2.0 and is now defunct. + i Please use the `parent` argument instead. + + [ FAIL 5 | WARN 12 | SKIP 1 | PASS 424 ] + Error: + ! Test failures. + Execution halted + ``` + +## In both + +* checking DESCRIPTION meta-information ... NOTE + ``` + Missing dependency on R >= 4.1.0 because package code uses the pipe + |> or function shorthand \(...) syntax added in R 4.1.0. + File(s) using such syntax: + ‘iterate.Rd’ ‘random_walk_rank.Rd’ + ``` + +# vkR (0.2) + +* GitHub: +* Email: +* GitHub mirror: + +Run `revdepcheck::cloud_details(, "vkR")` for more info + +## Newly broken + +* checking dependencies in R code ... WARNING + ``` + Missing or unexported object: ‘igraph::get.edge’ + ``` + diff --git a/tests/testthat/_snaps/centrality.md b/tests/testthat/_snaps/centrality.md index f6ffca6419b..bcb12bae957 100644 --- a/tests/testthat/_snaps/centrality.md +++ b/tests/testthat/_snaps/centrality.md @@ -38,8 +38,8 @@ Code invisible(eigen_centrality(g, scale = FALSE)) Condition - Warning: - The `scale` argument of `eigen_centrality()` always as if TRUE as of igraph 2.1.1. + Error: + ! The `scale` argument of `eigen_centrality()` always as if TRUE as of igraph 2.1.1. i Normalization is always performed # arpack() errors well diff --git a/tests/testthat/_snaps/community.md b/tests/testthat/_snaps/community.md index e01280a95f5..757b8b0be73 100644 --- a/tests/testthat/_snaps/community.md +++ b/tests/testthat/_snaps/community.md @@ -1,8 +1,8 @@ -# modularity_matrix still accepts a membership argument for compatibility +# modularity_matrix no longer accepts a membership argument for compatibility Code x <- modularity_matrix(karate, membership = rep(1, vcount(karate))) Condition - Warning: - The `membership` argument of `modularity_matrix()` is no longer used as of igraph 2.1.0. + Error: + ! The `membership` argument of `modularity_matrix()` is no longer used as of igraph 2.1.0. diff --git a/tests/testthat/test-centrality.R b/tests/testthat/test-centrality.R index 71bd753a7e6..4c806459f42 100644 --- a/tests/testthat/test-centrality.R +++ b/tests/testthat/test-centrality.R @@ -838,7 +838,7 @@ test_that("eigen_centrality() deprecated scale argument", { invisible(eigen_centrality(g, scale = TRUE)) }) # For some reason, this produces different outputs on Windows and macOS - expect_snapshot({ + expect_snapshot(error = TRUE, { invisible(eigen_centrality(g, scale = FALSE)) }) }) diff --git a/tests/testthat/test-community.R b/tests/testthat/test-community.R index a5ba5644e72..6891cc9e76d 100644 --- a/tests/testthat/test-community.R +++ b/tests/testthat/test-community.R @@ -376,11 +376,11 @@ test_that("modularity_matrix works", { expect_equal(karate_modmat1, karate_modmat2) }) -test_that("modularity_matrix still accepts a membership argument for compatibility", { +test_that("modularity_matrix no longer accepts a membership argument for compatibility", { karate <- make_graph("zachary") - expect_snapshot( + expect_snapshot(error = TRUE, { x <- modularity_matrix(karate, membership = rep(1, vcount(karate))) - ) + }) }) test_that("cluster_louvain works", { diff --git a/tests/testthat/test-games.R b/tests/testthat/test-games.R index 46b4c1e7bb5..8f68f2842b0 100644 --- a/tests/testthat/test-games.R +++ b/tests/testthat/test-games.R @@ -155,17 +155,17 @@ test_that("sample_degseq supports the sample_(...) syntax", { test_that("sample_degseq works() -- old method names", { withr::local_options("lifecycle_verbosity" = "warning") - expect_warning( + expect_error( sample_degseq(c(1, 1, 2, 2, 2), method = "simple"), "must be" ) - expect_warning( + expect_error( sample_degseq(c(1, 1, 2, 2, 2), method = "simple.no.multiple"), "must be" ) - expect_warning( + expect_error( sample_degseq(c(1, 1, 2, 2, 2), method = "simple.no.multiple.uniform"), "must be" ) diff --git a/tests/testthat/test-interface.R b/tests/testthat/test-interface.R index 0e73189645e..9be76e65bc9 100644 --- a/tests/testthat/test-interface.R +++ b/tests/testthat/test-interface.R @@ -220,7 +220,7 @@ test_that("get_edge_id() errors correctly for wrong matrices", { mat <- matrix(c(1, 2, 3, 4), nrow = 2, ncol = 2) lifecycle::expect_defunct(get_edge_ids(g, mat)) mat <- matrix(c(1, 2, 1, 3, 1, 4), nrow = 2, ncol = 3) - lifecycle::expect_deprecated(get_edge_ids(g, mat)) + lifecycle::expect_defunct(get_edge_ids(g, mat)) }) test_that("invalidate_cache works", { diff --git a/tools/bump-lifecycle.R b/tools/bump-lifecycle.R new file mode 100644 index 00000000000..e940961f15c --- /dev/null +++ b/tools/bump-lifecycle.R @@ -0,0 +1,480 @@ +library(treesitter) +library(treesitter.r) + +# --- Reset to baseline (undo any previous partial run) --- +# .claude/settings.local.json is untracked, so git reset --hard leaves it alone. +# This script is tracked, so we save and restore it across the reset. +local({ + baseline <- "fb68fc60b2e673a2994885ed454dbbaca709096c" + script_path <- here::here("tools", "bump-lifecycle.R") + saved <- readLines(script_path, warn = FALSE) + cli::cli_alert_info("Resetting to {substr(baseline, 1L, 7L)} ...") + system2("git", c("-C", here::here(), "reset", "--hard", baseline)) + writeLines(saved, script_path) + cli::cli_alert_success("Restored tools/bump-lifecycle.R") +}) + +lang <- treesitter.r::language() + +# deprecate_soft / deprecate_warn / deprecate_stop are all 14 chars — same length, +# so substr<-() replacement never shifts line/column positions. +next_level <- c( + deprecate_soft = "deprecate_warn", + deprecate_warn = "deprecate_stop" +) + +# Uncomment to inspect node types for a sample expression: +# text <- 'lifecycle::deprecate_soft("1.0.0", "foo()")' +# node_show_s_expression(tree_root_node(parser_parse(parser(lang), text))) + +# --- tree navigation helpers --- + +fn_to_call <- function(fn_node) { + # "deprecate_X" identifier -> namespace_operator -> call + node_parent(node_parent(fn_node)) +} + +# A pure shim is a function whose body contains exactly one statement: the deprecate_stop() call. +is_pure_shim <- function(fn_node) { + call_node <- fn_to_call(fn_node) + body_node <- node_parent(call_node) # braced_expression (the { } body) + fn_def_node <- node_parent(body_node) # function_definition + asgn_node <- node_parent(fn_def_node) # binary_operator (<-) + + if (node_type(fn_def_node) != "function_definition") { + return(FALSE) + } + if (node_type(asgn_node) != "binary_operator") { + return(FALSE) + } + length(node_named_children(body_node)) == 1L +} + +get_asgn_node <- function(fn_node) { + node_parent(node_parent(node_parent(fn_to_call(fn_node)))) +} + +get_fn_name <- function(fn_node) { + node_text(node_named_children(get_asgn_node(fn_node))[[1L]]) +} + +# Returns TRUE if fn_name appears as an identifier in any R file other than current_path. +# Used to protect shims that are still referenced internally. +is_referenced_elsewhere <- function(fn_name, current_path) { + escaped <- gsub("([.^$|*+?(){}\\[\\]])", "\\\\\\1", fn_name) + pattern <- paste0("(?= 1L && grepl("^\\s*(#'.*)?$", lines[i])) { + i <- i - 1L + } + if (i + 1L > first_fn_line - 1L) { + integer(0L) + } else { + seq(i + 1L, first_fn_line - 1L) + } +} + +# --- test helpers --- + +# Add `error = TRUE` to the expect_snapshot() call at row_1indexed in test_file. +add_error_true <- function(test_file, row_1indexed) { + if (!file.exists(test_file)) { + return(invisible(FALSE)) + } + lines <- readLines(test_file, warn = FALSE) + text <- paste(lines, collapse = "\n") + root <- tree_root_node(parser_parse(parser(lang), text)) + + q <- query( + lang, + '(call function: (identifier) @fn (#eq? @fn "expect_snapshot"))' + ) + caps <- query_captures(q, root) + fn_nodes <- caps$node[caps$name == "fn"] + + for (fn in fn_nodes) { + if (point_row(node_start_point(fn)) + 1L != row_1indexed) { + next + } + + call_node <- node_parent(fn) + args_node <- Filter( + \(n) node_type(n) == "arguments", + node_children(call_node) + ) + if (length(args_node) == 0L) { + next + } + args_node <- args_node[[1L]] + + if (grepl("error\\s*=\\s*TRUE", node_text(args_node))) { + return(invisible(FALSE)) + } + + # Insert `error = TRUE, ` right after the opening `(` + open_row <- point_row(node_start_point(args_node)) + 1L + open_col <- point_column(node_start_point(args_node)) + 1L + line <- lines[open_row] + lines[open_row] <- paste0( + substr(line, 1L, open_col), + "error = TRUE, ", + substr(line, open_col + 1L, nchar(line)) + ) + writeLines(lines, test_file) + return(invisible(TRUE)) + } + invisible(FALSE) +} + +# Patch expect_snapshot() calls for lifecycle errors found by run_one(). +# failures: list of {msg, src_file, line} returned from the callr subprocess. +fix_lifecycle_snapshot_failures <- function(failures, root) { + fixed <- FALSE + for (f in failures) { + if (!grepl("lifecycle_error_deprecated|defunctError|defunct", f$msg)) { + next + } + src_file <- f$src_file + line <- f$line + if (is.null(src_file) || is.null(line) || is.na(line)) { + next + } + file_path <- if (file.exists(src_file)) { + src_file + } else { + file.path(root, "tests", "testthat", basename(src_file)) + } + if (!file.exists(file_path)) { + next + } + if (add_error_true(file_path, line)) fixed <- TRUE + } + fixed +} + +# --- test runner --- + +# Accumulates {commit, tests} pairs for changes that left tests failing. +unresolved_failures <- list() +n_commits <- 0L + +# Returns character vector of still-failing test names (empty if all pass). +run_tests <- function(path) { + src_name <- fs::path_ext_remove(fs::path_file(path)) + test_file <- here::here("tests", "testthat", paste0("test-", src_name, ".R")) + if (!file.exists(test_file)) { + return(character(0)) + } + + root <- here::here() + + # Each call runs in a fresh subprocess — no memory accumulation in the main session. + run_one <- function(update_snapshots = FALSE) { + callr::r( + function(root, src_name, update_snapshots) { + if (update_snapshots) { + options(testthat.snapshot.update = TRUE) + } + result <- testthat::test_local( + root, + filter = src_name, + stop_on_failure = FALSE, + reporter = "minimal" + ) + df <- as.data.frame(result) + failures <- list() + for (fr in result) { + for (exp in fr) { + if (!inherits(exp, c("expectation_failure", "expectation_error"))) { + next + } + msg <- tryCatch(conditionMessage(exp), error = function(e) "") + srcref <- tryCatch(exp$srcref, error = function(e) NULL) + src_file <- tryCatch( + attr(srcref, "srcfile")$filename, + error = function(e) NULL + ) + line <- tryCatch(as.integer(srcref)[1L], error = function(e) { + NA_integer_ + }) + failures[[length(failures) + 1L]] <- list( + msg = msg, + src_file = src_file, + line = line + ) + } + } + list( + n_fail = sum(df$failed, na.rm = TRUE) + sum(df$error, na.rm = TRUE), + bad_tests = df$test[df$failed + df$error > 0L], + failures = failures + ) + }, + args = list( + root = root, + src_name = src_name, + update_snapshots = update_snapshots + ) + ) + } + + out <- run_one() + + if (out$n_fail > 0L && fix_lifecycle_snapshot_failures(out$failures, root)) { + out <- run_one() + } + + if (out$n_fail > 0L) { + out <- run_one(update_snapshots = TRUE) + if (out$n_fail > 0L) { + bad <- out$bad_tests + cli::cli_alert_warning( + "{out$n_fail} test(s) still failing after snapshot update (need manual fixes): {paste(bad, collapse = ', ')}" + ) + return(bad) + } + } + + character(0) +} + +commit_change <- function(path, msg) { + bad <- run_tests(path) + if (length(bad) > 0L) { + unresolved_failures[[length(unresolved_failures) + 1L]] <<- list( + commit = msg, + tests = bad + ) + } + gert::git_add(fs::path_rel(path, here::here())) + # Stage any modified test or snapshot files produced during the test run + status <- gert::git_status() + extra <- status$file[startsWith(status$file, "tests/") & !status$staged] + if (length(extra) > 0L) { + gert::git_add(extra) + } + gert::git_commit(msg) + n_commits <<- n_commits + 1L +} + +write_unresolved_report <- function() { + if (length(unresolved_failures) == 0L) { + return(invisible(NULL)) + } + out <- here::here("lifecycle-TODO.md") + lines <- c( + "# lifecycle bump — unresolved test failures", + "", + paste0( + "These commits were made but left tests failing that need manual fixes ", + "(tests call deprecated functions expecting a result, not an error):" + ), + "" + ) + for (item in unresolved_failures) { + lines <- c( + lines, + paste0("## `", item$commit, "`"), + "", + paste0("- ", item$tests), + "" + ) + } + writeLines(lines, out) + cli::cli_alert_warning( + "Wrote {length(unresolved_failures)} unresolved item(s) to lifecycle-TODO.md" + ) +} + +# --- queries --- + +bump_query <- query( + lang, + ' + (call + function: (namespace_operator + lhs: (identifier) @ns + rhs: (identifier) @fn) + arguments: (arguments + (argument) + (argument value: (string content: (string_content) @what))) + (#eq? @ns "lifecycle") + (#match? @fn "^deprecate_(soft|warn)$")) +' +) + +stop_query <- query( + lang, + ' + (call + function: (namespace_operator + lhs: (identifier) @ns + rhs: (identifier) @fn) + arguments: (arguments + (argument) + (argument value: (string content: (string_content) @what))) + (#eq? @ns "lifecycle") + (#eq? @fn "deprecate_stop")) +' +) + +# --- per-file processing --- + +process_file <- function(path) { + # ---- 1. BUMP: deprecate_soft -> deprecate_warn, deprecate_warn -> deprecate_stop ---- + + lines <- readLines(path, warn = FALSE) + root <- tree_root_node(parser_parse( + parser(lang), + paste(lines, collapse = "\n") + )) + matches <- query_matches(bump_query, root)[[1]] + + if (length(matches) > 0L) { + fn_nodes <- lapply(matches, \(m) m$node[m$name == "fn"][[1]]) + what_nodes <- lapply(matches, \(m) m$node[m$name == "what"][[1]]) + rows <- vapply(fn_nodes, \(n) point_row(node_start_point(n)), numeric(1)) + cols <- vapply(fn_nodes, \(n) point_column(node_start_point(n)), numeric(1)) + old_names <- vapply(fn_nodes, node_text, character(1)) + whats <- vapply(what_nodes, node_text, character(1)) + + # Calls with >2 args produce a duplicate match for the same @fn node. + # Keep only the first occurrence (args 1+2 = version+what). + dups <- duplicated(paste(rows, cols, sep = ":")) + fn_nodes <- fn_nodes[!dups] + what_nodes <- what_nodes[!dups] + rows <- rows[!dups] + cols <- cols[!dups] + old_names <- old_names[!dups] + whats <- whats[!dups] + + for (i in order(rows, decreasing = TRUE)) { + r <- rows[i] + 1L + c <- cols[i] + 1L + new_name <- next_level[[old_names[i]]] + substr(lines[r], c, c + 13L) <- new_name + writeLines(lines, path) + msg <- sprintf( + "feat!: bump %s from %s to %s", + whats[i], + old_names[i], + new_name + ) + commit_change(path, msg) + } + } + + # ---- 2. REMOVE: pure deprecate_stop shim functions ---- + + # Re-parse after bumps (newly-bumped deprecate_stop shims are included here). + lines <- readLines(path, warn = FALSE) + root <- tree_root_node(parser_parse( + parser(lang), + paste(lines, collapse = "\n") + )) + stop_matches <- query_matches(stop_query, root)[[1]] + fn_nodes <- lapply(stop_matches, \(m) m$node[m$name == "fn"][[1]]) + what_nodes <- lapply(stop_matches, \(m) m$node[m$name == "what"][[1]]) + + # Same deduplication: calls with a third argument (e.g. `with`) match twice. + if (length(fn_nodes) > 0L) { + stop_rows <- vapply( + fn_nodes, + \(n) point_row(node_start_point(n)), + numeric(1) + ) + stop_cols <- vapply( + fn_nodes, + \(n) point_column(node_start_point(n)), + numeric(1) + ) + stop_dups <- duplicated(paste(stop_rows, stop_cols, sep = ":")) + fn_nodes <- fn_nodes[!stop_dups] + what_nodes <- what_nodes[!stop_dups] + } + + if (length(fn_nodes) == 0L) { + return(invisible(NULL)) + } + + shim_mask <- vapply(fn_nodes, is_pure_shim, logical(1)) + fn_shims <- fn_nodes[shim_mask] + what_shims <- what_nodes[shim_mask] + if (length(fn_shims) == 0L) { + return(invisible(NULL)) + } + + asgn_nodes <- lapply(fn_shims, get_asgn_node) + starts <- vapply( + asgn_nodes, + \(n) point_row(node_start_point(n)) + 1L, + numeric(1) + ) + ends <- vapply(asgn_nodes, \(n) point_row(node_end_point(n)) + 1L, numeric(1)) + whats <- vapply(what_shims, node_text, character(1)) + + for (j in order(starts, decreasing = TRUE)) { + fn_name <- get_fn_name(fn_shims[[j]]) + if (is_referenced_elsewhere(fn_name, path)) { + cli::cli_alert_warning( + "Skipping removal of {fn_name}(): still referenced in other R files (fix iterators manually)" + ) + unresolved_failures[[length(unresolved_failures) + 1L]] <<- list( + commit = sprintf( + "feat!: remove deprecated %s (lifecycle::deprecate_stop)", + whats[j] + ), + tests = paste0(fn_name, "() skipped: still referenced in other R files") + ) + next + } + lines <- readLines(path, warn = FALSE) + doc_range <- preceding_doc_range(lines, starts[j]) + fn_range <- seq(starts[j], ends[j]) + after_line <- ends[j] + 1L + trail <- if ( + after_line <= length(lines) && grepl("^\\s*$", lines[after_line]) + ) { + after_line + } else { + integer(0L) + } + writeLines(lines[-c(doc_range, fn_range, trail)], path) + msg <- sprintf( + "feat!: remove deprecated %s (lifecycle::deprecate_stop)", + whats[j] + ) + commit_change(path, msg) + } +} + +# --- run over all R source files --- + +r_files <- fs::dir_ls(here::here("R"), glob = "*.R") + +cli::cli_progress_bar( + total = length(r_files), + format = "{cli::pb_bar} {cli::pb_current}/{cli::pb_total} | {n_commits} commits | ETA {cli::pb_eta} | {cli::pb_status}", + format_done = "{cli::pb_total} files done | {n_commits} commits in {cli::pb_elapsed}", + clear = FALSE +) +for (path in r_files) { + cli::cli_progress_update(status = basename(path)) + process_file(path) + cli::cli_progress_update(inc = 1L) +} +cli::cli_progress_done() + +write_unresolved_report() diff --git a/tools/commit-lifecycle.R b/tools/commit-lifecycle.R new file mode 100644 index 00000000000..36521d3e358 --- /dev/null +++ b/tools/commit-lifecycle.R @@ -0,0 +1,147 @@ +# create a Rbuildignored, gitignored directory called 'lifecycle' + +# lifecycle_dir <- here::here("lifecycle") +# dir.create(lifecycle_dir, showWarnings = FALSE) +# +# usethis::use_build_ignore("lifecycle") +# usethis::use_git_ignore("lifecycle") + +# collect all functions changed from the commit messages on this branch, add items to `lifecycle/NEWS.md` which +# is `NEWS.md` with the edits — already done, lifecycle/NEWS.md exists + +# reset mixed to right before the PR + +# cli::cli_alert_info("Resetting to merge-base {substr(merge_base, 1, 7)}...") +# gert::git_reset_mixed(merge_base, repo = here::here()) +# cli::cli_alert_success("Reset to merge-base") + +# copy all changed files, except man/ and NAMESPACE which should be reset to their previous state, +# to 'lifecycle', use their version from main instead. + +# changed <- gert::git_status(repo = here::here())$file +# r_changed <- changed[grepl("^R/", changed)] +# test_changed <- changed[grepl("^tests/", changed)] +# +# for (f in c(r_changed, test_changed)) { +# dest_dir <- dirname(here::here("lifecycle", f)) +# dir.create(dest_dir, showWarnings = FALSE, recursive = TRUE) +# file.copy(here::here(f), here::here("lifecycle", f), overwrite = TRUE) +# } +# cli::cli_alert_success("Saved {length(r_changed)} R files and {length(test_changed)} test files to lifecycle/") + +# gert::git_reset_hard("main", repo = here::here()) +# cli::cli_alert_success("Restored working tree to main (man/, NAMESPACE, R/ all from main)") + +# rebase the branch on main + +# gert::git_pull(repo = here::here(), remote = "origin", refspec = "main") +# cli::cli_alert_success("Pulled and fast-forwarded to main") + +if (gert::git_ahead_behind("main", repo = here::here())$ahead == 0) { + gert::git_fetch( + "origin", + refspec = "refs/heads/main:refs/heads/main", + repo = here::here() + ) + gert::git_reset_mixed("main", repo = here::here()) +} else { + cli::cli_alert_info( + "Commits already ahead of main — skipping reset, resuming" + ) +} + +if (gert::git_ahead_behind("main", repo = here::here())$ahead == 0) { + usethis::use_build_ignore("lifecycle") + usethis::use_git_ignore("lifecycle") + + gert::git_add( + c("tools/commit-lifecycle.R", "tools/handle-lifecycle.R", ".gitignore", ".Rbuildignore"), + repo = here::here() + ) + gert::git_commit("chore: add commit-lifecycle.R script", repo = here::here()) + cli::cli_alert_success("Committed tools/commit-lifecycle.R") +} + +# one commit per R script (copied back from the 'lifecycle' directory) + corresponding R test file if needed + run `document()` + run `test()`. + +r_files <- list.files(here::here("lifecycle", "R"), full.names = FALSE) + +for (stem in tools::file_path_sans_ext(r_files)) { + r_file <- paste0("R/", stem, ".R") + lifecycle_r <- here::here("lifecycle", r_file) + + file.copy(lifecycle_r, here::here(r_file), overwrite = TRUE) + files_to_stage <- r_file + + lifecycle_test <- here::here( + "lifecycle", + "tests", + "testthat", + paste0("test-", stem, ".R") + ) + if (file.exists(lifecycle_test)) { + dest_test <- here::here("tests", "testthat", paste0("test-", stem, ".R")) + file.copy(lifecycle_test, dest_test, overwrite = TRUE) + files_to_stage <- c(files_to_stage, paste0("tests/testthat/test-", stem, ".R")) + + lifecycle_snap <- here::here( + "lifecycle", + "tests", + "testthat", + "_snaps", + paste0(stem, ".md") + ) + if (file.exists(lifecycle_snap)) { + dest_snap <- here::here( + "tests", + "testthat", + "_snaps", + paste0(stem, ".md") + ) + file.copy(lifecycle_snap, dest_snap, overwrite = TRUE) + files_to_stage <- c(files_to_stage, paste0("tests/testthat/_snaps/", stem, ".md")) + } + } + + devtools::document(quiet = TRUE) + if (file.exists(lifecycle_test)) { + tryCatch( + callr::r( + function(pkg, filter) { + devtools::test(pkg = pkg, filter = filter, stop_on_failure = FALSE) + }, + args = list(pkg = here::here(), filter = stem) + ), + error = function(e) { + cli::cli_alert_warning( + "Tests errored for {stem}: {conditionMessage(e)}" + ) + } + ) + } + + gert::git_add(c(files_to_stage, "man", "NAMESPACE"), repo = here::here()) + gert::git_commit( + paste0("feat!: bump deprecated functions in R/", stem, ".R"), + repo = here::here() + ) + cli::cli_alert_success("Committed {r_file}") +} + +file.copy( + here::here("lifecycle", "NEWS.md"), + here::here("NEWS.md"), + overwrite = TRUE +) +gert::git_add("NEWS.md", repo = here::here()) +gert::git_commit( + "chore: update NEWS.md for lifecycle bumps\n\n!NEWS", + repo = here::here() +) +cli::cli_alert_success("Committed NEWS.md") + +# R CMD check after all the commits + +devtools::check() + +# I will do the force pushing once I am happy. diff --git a/tools/handle-lifecycle.R b/tools/handle-lifecycle.R new file mode 100644 index 00000000000..5103b1c8e37 --- /dev/null +++ b/tools/handle-lifecycle.R @@ -0,0 +1,139 @@ +# For each R file still containing lifecycle::deprecate_soft or lifecycle::deprecate_warn: +# advance the level with regex, document, test (stop on error so you can fix), +# prompt to continue, add NEWS item, commit. + +already_committed <- system2( + "git", + c("diff", "--name-only", "main..HEAD"), + stdout = TRUE +) +already_committed <- basename(already_committed[grepl( + "^R/", + already_committed +)]) + +r_files <- sort(setdiff( + list.files(here::here("R"), pattern = "\\.R$", full.names = FALSE), + already_committed +)) + +for (f in r_files) { + path <- here::here("R", f) + lines <- readLines(path, warn = FALSE) + + has_soft <- any(grepl("lifecycle::deprecate_soft", lines, fixed = TRUE)) + has_warn <- any(grepl("lifecycle::deprecate_warn", lines, fixed = TRUE)) + + if (!has_soft && !has_warn) { + next + } + + stem <- tools::file_path_sans_ext(f) + cli::cli_alert_info("Processing R/{f}") + + # Extract function names before replacement for NEWS + extract_fns <- function(lines, level) { + hits <- grep( + paste0("lifecycle::", level), + lines, + fixed = TRUE, + value = TRUE + ) + m <- regmatches( + hits, + regexpr( + paste0('lifecycle::', level, '\\([^,]+,\\s*"([^("]+)\\('), + hits, + perl = TRUE + ) + ) + sub(paste0('.*"'), "", m[nzchar(m)]) + } + soft_fns <- extract_fns(lines, "deprecate_soft") + warn_fns <- extract_fns(lines, "deprecate_warn") + + # Advance: warn -> stop first to avoid double-replacement + lines <- gsub( + "lifecycle::deprecate_warn", + "lifecycle::deprecate_stop", + lines, + fixed = TRUE + ) + lines <- gsub( + "lifecycle::deprecate_soft", + "lifecycle::deprecate_warn", + lines, + fixed = TRUE + ) + writeLines(lines, path) + + devtools::document(quiet = TRUE) + + # Tests — stop on failure so the user can fix + if ( + file.exists(here::here("tests", "testthat", paste0("test-", stem, ".R"))) + ) { + callr::r( + function(pkg, filter) { + devtools::test(pkg = pkg, filter = filter, stop_on_failure = TRUE) + }, + args = list(pkg = here::here(), filter = stem) + ) + } + + answer <- readline(paste0( + "Tests passed for R/", + f, + ". Commit? [Enter = yes / n = stop] " + )) + if (trimws(tolower(answer)) == "n") { + stop("Stopped at R/", f, ". Fix, then commit manually and re-run.") + } + + # Add NEWS items + news_entries <- c( + if (length(soft_fns) > 0) + paste0("- `", soft_fns, "()` is now deprecated with a warning instead of a message."), + if (length(warn_fns) > 0) + paste0("- `", warn_fns, "()` is now defunct (errors instead of warning).") + ) + + news_lines <- readLines(here::here("NEWS.md"), warn = FALSE) + depr_idx <- which(news_lines == "## Deprecated and defunct") + + if (length(depr_idx) > 0) { + insert_pos <- depr_idx[[1]] + 2L + new_news <- c( + news_lines[seq_len(insert_pos - 1L)], + news_entries, + news_lines[seq(insert_pos, length(news_lines))] + ) + } else { + first_ver_idx <- which(grepl("^# igraph", news_lines))[[1]] + new_news <- c( + news_lines[seq_len(first_ver_idx)], + "", + "## Deprecated and defunct", + "", + news_entries, + "", + news_lines[seq(first_ver_idx + 1L, length(news_lines))] + ) + } + writeLines(new_news, here::here("NEWS.md")) + + commit_msg <- if (has_soft && has_warn) { + paste0("feat!: bump deprecated functions in R/", f) + } else if (has_soft) { + paste0("feat!: bump deprecate_soft to deprecate_warn in R/", f) + } else { + paste0("feat!: bump deprecate_warn to deprecate_stop in R/", f) + } + + gert::git_add( + c(paste0("R/", f), "man", "NAMESPACE", "NEWS.md"), + repo = here::here() + ) + gert::git_commit(commit_msg, repo = here::here()) + cli::cli_alert_success("Committed R/{f}") +}