[med-svn] [r-cran-igraph] branch master updated (7ca8ad4 -> 466539f)
Andreas Tille
tille at debian.org
Wed Apr 6 07:41:08 UTC 2016
This is an automated email from the git hooks/post-receive script.
tille pushed a change to branch master
in repository r-cran-igraph.
from 7ca8ad4 Moved packaging from SVN to Git
new ed939d6 Imported Upstream version 1.0.1
new 466539f Merge tag 'upstream/1.0.1'
The 2 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.
Summary of changes:
AUTHORS | 133 -
DESCRIPTION | 36 +-
MD5 | 1797 ++--
NAMESPACE | 1268 ++-
NEWS | 1036 ---
R/adjacency.R | 400 +
R/assortativity.R | 113 +
R/attributes.R | 790 +-
R/auto.R | 1317 ++-
R/basic.R | 70 +-
R/bipartite.R | 130 +-
R/centrality.R | 683 +-
R/centralization.R | 345 +
R/cliques.R | 242 +-
R/cocitation.R | 55 +-
R/cohesive.blocks.R | 302 +-
R/community.R | 1599 +++-
R/components.R | 134 +-
R/console.R | 154 +-
R/conversion.R | 615 +-
R/data_frame.R | 254 +
R/decomposition.R | 62 +-
R/degseq.R | 89 +
R/demo.R | 106 +-
R/embedding.R | 347 +
R/epi.R | 64 +-
R/fit.R | 119 +-
R/flow.R | 639 +-
R/foreign.R | 206 +-
R/games.R | 1423 ++-
R/glet.R | 99 +-
R/hrg.R | 472 +-
R/igraph-package.R | 190 +
R/incidence.R | 242 +
R/indexing.R | 234 +-
R/interface.R | 415 +-
R/iterators.R | 1603 +++-
R/layout.R | 2534 ++++--
R/layout_drl.R | 275 +
R/lazyeval.R | 244 +
R/make.R | 1563 ++++
R/mgclust.R | 168 +
R/minimum.spanning.tree.R | 47 +-
R/motifs.R | 172 +-
R/nexus.R | 214 +-
R/operators.R | 780 +-
R/other.R | 98 +-
R/package.R | 9 -
R/palette.R | 210 +
R/par.R | 122 +-
R/paths.R | 231 +
R/plot.R | 154 +-
R/plot.common.R | 83 +-
R/plot.shapes.R | 268 +-
R/pp.R | 25 +
R/print.R | 440 +-
R/printr.R | 189 +
R/random_walk.R | 53 +
R/revolver.R | 493 -
R/rewire.R | 142 +
R/scan.R | 424 +
R/scg.R | 539 +-
R/sgm.R | 138 +
R/similarity.R | 65 +
R/simple.R | 70 +
R/sir.R | 103 +
R/socnet.R | 1061 +--
R/sparsedf.R | 6 +
R/structural.properties.R | 2067 ++++-
R/structure.generators.R | 883 --
R/structure.info.R | 30 +-
R/test.R | 50 +-
R/tkplot.R | 683 +-
R/topology.R | 895 +-
R/triangles.R | 73 +
R/utils.R | 99 +
R/uuid.R | 13 +
R/versions.R | 120 +
R/weakref.R | 41 +
R/zzz-deprecate.R | 610 ++
configure | 115 +-
configure.ac | 146 +
configure.in | 119 -
demo/centrality.R | 62 +-
demo/cohesive.R | 14 +-
demo/community.R | 66 +-
demo/crashR.R | 52 +-
demo/hrg.R | 30 +-
demo/smallworld.R | 54 +-
inst/AUTHORS | 5 +
inst/NEWS.md | 1034 +++
inst/README.md | 32 +
inst/benchmarks/correlated.R | 8 +
inst/benchmarks/local.scan.R | 57 +
inst/benchmarks/time_dirSelect.R | 7 +
inst/benchmarks/time_fr_layout.R | 12 +
inst/benchmarks/time_kk_layout.R | 17 +
inst/benchmarks/time_print.R | 54 +
inst/benchmarks/time_sgm.R | 11 +
inst/benchmarks/time_sir.R | 2 +-
inst/tests/dyad.census.R | 20 +-
inst/tests/test-constructor-modifiers.R | 116 +
inst/tests/test-index-es.R | 40 +
inst/tests/test-isomorphism.R | 121 +
inst/tests/test-make.R | 61 +
inst/tests/test-make_graph.R | 57 +
inst/tests/test-new-layout-api.R | 59 +
inst/tests/test-notable.R | 38 +
inst/tests/test-old-data-type.R | 68 +
inst/tests/test-random_walk.R | 28 +
inst/tests/test-version.R | 20 +
inst/tests/test-versions.R | 25 +
inst/tests/test-vs-es-printing.R | 88 +
inst/tests/test-vs-es-quirks.R | 32 +
inst/tests/test-vs-es.R | 272 +
inst/tests/test-vs-indexing-lapply.R | 11 +
inst/tests/test-vs-operators.R | 651 ++
inst/tests/test-weakref.R | 106 +
inst/tests/test_add.edges.R | 43 +-
inst/tests/test_add.vertices.R | 16 +-
inst/tests/test_adjacency.spectral.embedding.R | 234 +
inst/tests/test_all.st.cuts.R | 26 +-
inst/tests/test_alpha.centrality.R | 53 +-
inst/tests/test_are.connected.R | 28 +-
inst/tests/test_arpack.R | 2 +-
inst/tests/test_articulation.points.R | 12 +-
inst/tests/test_as.directed.R | 8 +-
inst/tests/test_as.undirected.R | 8 +-
inst/tests/test_assortativity.R | 18 +-
inst/tests/test_attributes.R | 164 +-
inst/tests/test_authority.score.R | 34 +-
inst/tests/test_average.path.length.R | 28 +-
inst/tests/test_ba.game.R | 50 +-
inst/tests/test_betweenness.R | 6 +-
inst/tests/test_biconnected.components.R | 15 +-
inst/tests/test_bipartite.projection.R | 78 +-
inst/tests/test_bipartite.random.game.R | 40 +-
inst/tests/test_bonpow.R | 12 +-
inst/tests/test_bug-1019624.R | 4 +-
inst/tests/test_bug-1032819.R | 6 +-
inst/tests/test_bug-1033045.R | 6 +-
inst/tests/test_bug-1073705-indexing.R | 10 +-
inst/tests/test_bug-1073800-clique.R | 7 +-
inst/tests/test_callbacks.R | 2 +-
inst/tests/test_canonical.permutation.R | 20 +-
inst/tests/test_cliques.R | 12 +-
inst/tests/test_closeness.R | 42 +-
inst/tests/test_clusters.R | 40 +-
inst/tests/test_communities.R | 52 +-
inst/tests/test_constraint.R | 6 +-
inst/tests/test_contract.vertices.R | 8 +-
inst/tests/test_correlated.R | 79 +
inst/tests/test_count.multiple.R | 16 +-
inst/tests/test_decompose.graph.R | 34 +-
inst/tests/test_degree.R | 8 +-
inst/tests/test_degree.sequence.game.R | 26 +-
inst/tests/test_delete.edges.R | 8 +-
inst/tests/test_delete.vertices.R | 10 +-
inst/tests/test_diameter.R | 20 +-
inst/tests/test_dimSelect.R | 33 +
inst/tests/test_dominator.tree.R | 16 +-
inst/tests/test_dot.product.game.R | 46 +
inst/tests/test_dyad.census.R | 10 +-
inst/tests/test_edge.betweenness.R | 28 +-
inst/tests/test_edge.betweenness.community.R | 19 +-
inst/tests/test_edge.connectivity.R | 42 +-
inst/tests/test_edgenames.R | 26 +-
inst/tests/test_evcent.R | 32 +-
inst/tests/test_fartherst.nodes.R | 34 +-
inst/tests/test_fastgreedy.community.R | 19 +-
inst/tests/test_forestfire.R | 6 +-
inst/tests/test_get.adjacency.R | 24 +-
inst/tests/test_get.adjlist.R | 36 +-
inst/tests/test_get.all.shortest.paths.R | 13 +-
inst/tests/test_get.diameter.R | 14 +-
inst/tests/test_get.edge.R | 8 +-
inst/tests/test_get.edgelist.R | 8 +-
inst/tests/test_get.incidence.R | 10 +-
inst/tests/test_get.shortest.paths.R | 12 +-
inst/tests/test_girth.R | 8 +-
inst/tests/test_graph.adhesion.R | 70 +-
inst/tests/test_graph.adjacency.R | 66 +-
inst/tests/test_graph.adjlist.R | 16 +-
inst/tests/test_graph.bfs.R | 10 +-
inst/tests/test_graph.bipartite.R | 10 +-
inst/tests/test_graph.complementer.R | 10 +-
inst/tests/test_graph.compose.R | 10 +-
inst/tests/test_graph.coreness.R | 10 +-
inst/tests/test_graph.data.frame.R | 18 +-
inst/tests/test_graph.de.bruijn.R | 10 +-
inst/tests/test_graph.density.R | 12 +-
inst/tests/test_graph.edgelist.R | 22 +-
inst/tests/test_graph.eigen.R | 10 +-
inst/tests/test_graph.formula.R | 6 +-
inst/tests/test_graph.isoclass.R | 14 +-
inst/tests/test_graph.kautz.R | 8 +-
inst/tests/test_graph.knn.R | 24 +-
inst/tests/test_graph.maxflow.R | 16 +-
inst/tests/test_graph.mincut.R | 12 +-
inst/tests/test_graph.subisomorphic.lad.R | 67 +-
inst/tests/test_graph.subisomorphic.vf2.R | 4 +-
inst/tests/test_graphNEL.R | 14 +-
inst/tests/test_graphlets.R | 39 +-
inst/tests/test_hrg.R | 6 +-
inst/tests/test_hsbm.R | 113 +
inst/tests/test_igraph.options.R | 12 +-
inst/tests/test_independent.vertex.sets.R | 10 +-
inst/tests/test_indexing.R | 111 +-
inst/tests/test_indexing2.R | 14 +-
inst/tests/test_indexing3.R | 10 +
inst/tests/test_is.bipartite.R | 12 +-
inst/tests/test_is.chordal.R | 27 +-
inst/tests/test_iterators.R | 40 +-
inst/tests/test_label.propagation.community.R | 8 +-
inst/tests/test_laplacian.spectral.embedding.R | 442 +
inst/tests/test_largest.cliques.R | 10 +-
inst/tests/test_largest.independent.vertex.sets.R | 12 +-
inst/tests/test_layout.fr.R | 25 +
inst/tests/test_layout.gem.R | 12 +
inst/tests/test_layout.kk.R | 53 +
inst/tests/test_layout.mds.R | 18 +-
inst/tests/test_layout.merge.R | 14 +-
inst/tests/test_leading.eigenvector.community.R | 27 +-
inst/tests/test_maximal_cliques.R | 30 +-
inst/tests/test_minimal.st.separators.R | 10 +-
inst/tests/test_minimum.size.separators.R | 32 +-
inst/tests/test_modularity_matrix.R | 12 +-
inst/tests/test_motifs.R | 32 +-
inst/tests/test_multilevel.community.R | 10 +-
inst/tests/test_neighborhood.R | 52 +-
inst/tests/test_neighbors.R | 6 +-
inst/tests/test_operators.R | 45 +-
inst/tests/test_operators3.R | 16 +-
inst/tests/test_operators4.R | 98 +-
inst/tests/test_optimal.community.R | 16 +-
inst/tests/test_pajek.R | 4 +-
inst/tests/test_print.R | 25 +-
inst/tests/test_sample.R | 29 +
inst/tests/test_sbm.game.R | 16 +-
inst/tests/test_scan.R | 188 +
inst/tests/test_scg.R | 6 +-
inst/tests/test_sdf.R | 7 +-
inst/tests/test_sgm.R | 48 +
inst/tests/test_sir.R | 2 +-
inst/tests/test_sphere.R | 40 +
inst/tests/test_transitivity.R | 12 +-
inst/tests/test_triangles.R | 39 +
inst/tests/test_unfold.tree.R | 10 +-
inst/tests/test_walktrap.community.R | 19 +-
inst/tests/test_watts.strogatz.game.R | 8 +-
man/E.Rd | 100 +
man/SCGintro.Rd | 156 -
man/V.Rd | 93 +
man/aaa-igraph-package.Rd | 69 +-
man/add_edges.Rd | 55 +
man/add_layout_.Rd | 69 +
man/add_vertices.Rd | 50 +
man/adjacent.triangles.Rd | 36 -
man/adjacent_vertices.Rd | 41 +
man/aging.prefatt.game.Rd | 120 -
man/all.st.cuts.Rd | 51 -
man/all.st.mincuts.Rd | 63 -
man/all_simple_paths.Rd | 47 +
man/alpha.centrality.Rd | 73 -
man/alpha_centrality.Rd | 88 +
man/are_adjacent.Rd | 48 +
man/arpack.Rd | 393 +-
man/articulation.points.Rd | 33 -
man/articulation_points.Rd | 43 +
man/as.directed.Rd | 104 +-
man/as.igraph.Rd | 41 +-
man/as_adj_list.Rd | 50 +
man/as_adjacency_matrix.Rd | 73 +
man/as_edgelist.Rd | 38 +
man/as_graphnel.Rd | 52 +
man/as_ids.Rd | 44 +
man/as_incidence_matrix.Rd | 58 +
man/as_long_data_frame.Rd | 32 +
man/as_membership.Rd | 29 +
man/assortativity.Rd | 173 +-
man/attribute.combination.Rd | 144 -
man/attributes.Rd | 183 -
man/authority_score.Rd | 67 +
man/autocurve.edges.Rd | 43 -
man/automorphisms.Rd | 63 +
man/ba.game.Rd | 108 -
man/betweenness.Rd | 163 +-
man/bfs.Rd | 116 +
man/biconnected.components.Rd | 48 -
man/biconnected_components.Rd | 52 +
man/bipartite.projection.Rd | 83 -
man/bipartite.random.game.Rd | 58 -
man/bipartite_mapping.Rd | 57 +
man/bipartite_projection.Rd | 87 +
man/bonpow.Rd | 117 -
man/c.igraph.es.Rd | 47 +
man/c.igraph.vs.Rd | 47 +
man/canonical.permutation.Rd | 88 -
man/canonical_permutation.Rd | 86 +
man/categorical_pal.Rd | 43 +
man/centr_betw.Rd | 61 +
man/centr_betw_tmax.Rd | 53 +
man/centr_clo.Rd | 57 +
man/centr_clo_tmax.Rd | 54 +
man/centr_degree.Rd | 61 +
man/centr_degree_tmax.Rd | 55 +
man/centr_eigen.Rd | 71 +
man/centr_eigen_tmax.Rd | 57 +
man/centralization.Rd | 156 -
man/centralize.Rd | 89 +
man/cliques.Rd | 143 +-
man/closeness.Rd | 114 +-
man/cluster_edge_betweenness.Rd | 102 +
man/cluster_fast_greedy.Rd | 66 +
man/cluster_infomap.Rd | 70 +
man/cluster_label_prop.Rd | 72 +
man/cluster_leading_eigen.Rd | 116 +
man/cluster_louvain.Rd | 70 +
man/cluster_optimal.Rd | 75 +
man/cluster_spinglass.Rd | 146 +
man/cluster_walktrap.Rd | 67 +
man/clusters.Rd | 73 -
man/cocitation.Rd | 61 +-
man/cohesive.blocks.Rd | 269 -
man/cohesive_blocks.Rd | 282 +
man/communities.Rd | 465 +-
man/community.edge.betweenness.Rd | 96 -
man/community.structure.Rd | 44 -
man/compare.Rd | 73 +
man/compare.communities.Rd | 75 -
man/complementer.Rd | 46 +
man/component_wise.Rd | 67 +
man/components.Rd | 102 +-
man/compose.Rd | 76 +
man/consensus_tree.Rd | 54 +
man/console.Rd | 35 +
man/constraint.Rd | 83 +-
man/contract.Rd | 49 +
man/contract.vertices.Rd | 51 -
man/conversion.Rd | 82 -
man/convex.hull.Rd | 34 -
man/convex_hull.Rd | 36 +
man/coreness.Rd | 53 +
man/count_isomorphisms.Rd | 67 +
man/count_motifs.Rd | 43 +
man/count_subgraph_isomorphisms.Rd | 100 +
man/count_triangles.Rd | 63 +
man/curve_multiple.Rd | 49 +
man/decompose.Rd | 48 +
man/decompose.graph.Rd | 40 -
man/degree.Rd | 77 +-
man/degree.sequence.game.Rd | 86 -
man/delete_edge_attr.Rd | 70 +
man/delete_edges.Rd | 40 +
man/delete_graph_attr.Rd | 69 +
man/delete_vertex_attr.Rd | 70 +
man/delete_vertices.Rd | 42 +
man/dendPlot.Rd | 24 -
man/dendPlot.communities.Rd | 95 -
man/dendPlot.igraphHRG.Rd | 94 -
man/dfs.Rd | 109 +
man/diameter.Rd | 85 +-
man/difference.Rd | 24 +
man/difference.igraph.Rd | 64 +
man/difference.igraph.es.Rd | 52 +
man/difference.igraph.vs.Rd | 52 +
man/dim_select.Rd | 72 +
man/disjoint_union.Rd | 57 +
man/distances.Rd | 207 +
man/diverging_pal.Rd | 53 +
man/diversity.Rd | 58 +
man/dominator.tree.Rd | 75 -
man/dominator_tree.Rd | 69 +
man/dyad.census.Rd | 38 -
man/dyad_census.Rd | 44 +
man/each_edge.Rd | 41 +
man/eccentricity.Rd | 73 +-
man/edge.Rd | 63 +
man/edge.connectivity.Rd | 80 -
man/edge_attr-set.Rd | 79 +
man/edge_attr.Rd | 75 +
man/edge_attr_names.Rd | 67 +
man/edge_connectivity.Rd | 86 +
man/edge_density.Rd | 53 +
man/ego.Rd | 92 +
man/eigen_centrality.Rd | 85 +
man/embed_adjacency_matrix.Rd | 88 +
man/embed_laplacian_matrix.Rd | 100 +
man/ends.Rd | 40 +
man/erdos.renyi.game.Rd | 88 +-
man/evcent.Rd | 76 -
man/evolver.Rd | 243 -
man/fastgreedy.community.Rd | 63 -
man/fit_hrg.Rd | 90 +
man/fit_power_law.Rd | 119 +
man/forest.fire.game.Rd | 79 -
man/gclust.app.Rd | 29 +
man/gclust.rsvt.Rd | 33 +
man/get.adjlist.Rd | 41 -
man/get.edge.ids.Rd | 85 +-
man/get.incidence.Rd | 48 -
man/getAICc.Rd | 28 +
man/girth.Rd | 64 +-
man/gorder.Rd | 35 +
man/graph.adjacency.Rd | 156 -
man/graph.adjlist.Rd | 62 -
man/graph.automorphisms.Rd | 58 -
man/graph.bfs.Rd | 113 -
man/graph.bipartite.Rd | 54 -
man/graph.complementer.Rd | 40 -
man/graph.compose.Rd | 72 -
man/graph.constructors.Rd | 176 -
man/graph.data.frame.Rd | 110 -
man/graph.de.bruijn.Rd | 38 -
man/graph.density.Rd | 44 -
man/graph.dfs.Rd | 102 -
man/graph.difference.Rd | 55 -
man/graph.disjoint.union.Rd | 49 -
man/graph.diversity.Rd | 57 -
man/graph.eigen.Rd | 81 -
man/graph.famous.Rd | 133 -
man/graph.formula.Rd | 125 -
man/graph.full.bipartite.Rd | 39 -
man/graph.graphdb.Rd | 78 -
man/graph.incidence.Rd | 73 -
man/graph.intersection.Rd | 56 -
man/graph.isomorphism.Rd | 329 -
man/graph.kautz.Rd | 34 -
man/graph.kcores.Rd | 42 -
man/graph.knn.Rd | 63 -
man/graph.laplacian.Rd | 49 -
man/graph.lcf.Rd | 31 -
man/graph.maxflow.Rd | 128 -
man/graph.motifs.Rd | 62 -
man/graph.strength.Rd | 44 -
man/graph.structure.Rd | 351 -
man/graph.union.Rd | 54 -
man/graphNEL.Rd | 71 -
man/graph_.Rd | 23 +
man/graph_attr-set.Rd | 76 +
man/graph_attr.Rd | 70 +
man/graph_attr_names.Rd | 66 +
man/graph_from_adj_list.Rd | 70 +
man/graph_from_adjacency_matrix.Rd | 150 +
man/graph_from_atlas.Rd | 74 +
man/graph_from_data_frame.Rd | 124 +
man/graph_from_edgelist.Rd | 70 +
man/graph_from_graphdb.Rd | 93 +
man/graph_from_graphnel.Rd | 67 +
man/graph_from_incidence_matrix.Rd | 85 +
man/graph_from_isomorphism_class.Rd | 50 +
man/graph_from_lcf.Rd | 42 +
man/graph_from_literal.Rd | 153 +
man/graph_version.Rd | 32 +
man/graphlet_basis.Rd | 99 +
man/graphlets.Rd | 100 -
man/grg.game.Rd | 39 -
man/groups.Rd | 43 +
man/growing.random.game.Rd | 35 -
man/gsize.Rd | 40 +
man/head_of.Rd | 34 +
man/hrg-methods.Rd | 39 +
man/hrg.Rd | 241 +-
man/hrg_tree.Rd | 29 +
man/hub_score.Rd | 64 +
man/identical_graphs.Rd | 20 +
man/igraph-attribute-combination.Rd | 109 +
man/igraph-dollar.Rd | 73 +
man/igraph-es-attributes.Rd | 117 +
man/igraph-es-indexing.Rd | 154 +
man/igraph-es-indexing2.Rd | 85 +
man/igraph-minus.Rd | 69 +
man/igraph-vs-attributes.Rd | 133 +
man/igraph-vs-indexing.Rd | 167 +
man/igraph-vs-indexing2.Rd | 86 +
man/igraph.console.Rd | 28 -
man/igraph.par.Rd | 108 -
man/igraph.sample.Rd | 29 -
man/igraph.version.Rd | 30 -
man/igraph.vertex.shapes.Rd | 257 -
man/igraph_demo.Rd | 42 +
man/igraph_options.Rd | 106 +
man/igraph_test.Rd | 29 +
man/igraph_version.Rd | 34 +
man/igraphdemo.Rd | 33 -
man/igraphtest.Rd | 22 -
man/incident.Rd | 42 +
man/incident_edges.Rd | 41 +
man/independent.sets.Rd | 76 -
man/infomap.Rd | 64 -
man/interconnected.islands.Rd | 33 -
man/intersection.Rd | 24 +
man/intersection.igraph.Rd | 63 +
man/intersection.igraph.es.Rd | 48 +
man/intersection.igraph.vs.Rd | 48 +
man/is.bipartite.Rd | 56 -
man/is.chordal.Rd | 71 -
man/is.dag.Rd | 28 -
man/is.degree.sequence.Rd | 55 -
man/is.graph.Rd | 24 -
man/is.multiple.Rd | 76 -
man/is.mutual.Rd | 39 -
man/is.named.Rd | 35 -
man/is.separator.Rd | 69 -
man/is.weighted.Rd | 33 -
man/is_chordal.Rd | 77 +
man/is_dag.Rd | 36 +
man/is_degseq.Rd | 49 +
man/is_directed.Rd | 38 +
man/is_graphical.Rd | 45 +
man/is_igraph.Rd | 29 +
man/is_min_separator.Rd | 63 +
man/is_named.Rd | 44 +
man/is_separator.Rd | 36 +
man/is_weighted.Rd | 42 +
man/isomorphic.Rd | 150 +
man/isomorphism_class.Rd | 56 +
man/isomorphisms.Rd | 49 +
man/iterators.Rd | 234 -
man/ivs.Rd | 90 +
man/k.regular.game.Rd | 51 -
man/keeping_degseq.Rd | 43 +
man/kleinberg.Rd | 65 -
man/knn.Rd | 70 +
man/label.propagation.community.Rd | 70 -
man/laplacian_matrix.Rd | 58 +
man/layout.Rd | 324 -
man/layout.bipartite.Rd | 48 -
man/layout.deprecated.Rd | 35 +
man/layout.drl.Rd | 103 -
man/layout.fruchterman.reingold.grid.Rd | 20 +
man/layout.grid.Rd | 47 -
man/layout.mds.Rd | 52 -
man/layout.merge.Rd | 58 -
man/layout.spring.Rd | 20 +
man/layout.star.Rd | 36 -
man/layout.sugiyama.Rd | 195 -
man/layout.svd.Rd | 20 +
man/layout_.Rd | 107 +
man/layout_as_bipartite.Rd | 104 +
man/layout_as_star.Rd | 90 +
man/layout_as_tree.Rd | 119 +
man/layout_in_circle.Rd | 88 +
man/layout_nicely.Rd | 86 +
man/layout_on_grid.Rd | 99 +
man/layout_on_sphere.Rd | 75 +
man/layout_randomly.Rd | 75 +
man/layout_with_dh.Rd | 173 +
man/layout_with_drl.Rd | 116 +
man/layout_with_fr.Rd | 146 +
man/layout_with_gem.Rd | 105 +
man/layout_with_graphopt.Rd | 108 +
man/layout_with_kk.Rd | 134 +
man/layout_with_lgl.Rd | 94 +
man/layout_with_mds.Rd | 103 +
man/layout_with_sugiyama.Rd | 242 +
man/leading.eigenvector.Rd | 133 -
man/line.graph.Rd | 38 -
man/local_scan.Rd | 99 +
man/make_.Rd | 48 +
man/make_bipartite_graph.Rd | 68 +
man/make_chordal_ring.Rd | 70 +
man/make_clusters.Rd | 35 +
man/make_de_bruijn_graph.Rd | 54 +
man/make_empty_graph.Rd | 63 +
man/make_full_bipartite_graph.Rd | 54 +
man/make_full_citation_graph.Rd | 60 +
man/make_full_graph.Rd | 65 +
man/make_graph.Rd | 211 +
man/make_kautz_graph.Rd | 49 +
man/make_lattice.Rd | 83 +
man/make_line_graph.Rd | 48 +
man/make_ring.Rd | 69 +
man/make_star.Rd | 71 +
man/make_tree.Rd | 71 +
man/match_vertices.Rd | 80 +
man/matching.Rd | 156 +-
man/max_cardinality.Rd | 58 +
man/max_flow.Rd | 77 +
man/maximum.cardinality.search.Rd | 49 -
man/merge_coords.Rd | 106 +
man/min_cut.Rd | 81 +
man/min_separators.Rd | 81 +
man/min_st_separators.Rd | 48 +
man/minimal.st.separators.Rd | 43 -
man/minimum.size.separators.Rd | 78 -
man/minimum.spanning.tree.Rd | 47 -
man/modularity.Rd | 79 -
man/modularity.igraph.Rd | 85 +
man/motifs.Rd | 49 +
man/mst.Rd | 56 +
man/multilevel.community.Rd | 70 -
man/neighborhood.Rd | 77 -
man/neighbors.Rd | 43 +
man/nexus.Rd | 345 +-
man/norm_coords.Rd | 77 +
man/normalize.Rd | 66 +
man/optimal.community.Rd | 70 -
man/page.rank.Rd | 130 -
man/page_rank.Rd | 142 +
man/path.Rd | 58 +
man/permute.Rd | 55 +
man/permute.vertices.Rd | 46 -
man/pipe.Rd | 28 +
man/plot.common.Rd | 67 +-
man/plot.graph.Rd | 64 -
man/plot.igraph.Rd | 82 +
man/plot.sir.Rd | 110 +-
man/plot_dendrogram.communities.Rd | 100 +
man/plot_dendrogram.igraphHRG.Rd | 92 +
man/plus-.igraph.Rd | 117 +
man/power.law.fit.Rd | 116 -
man/power_centrality.Rd | 131 +
man/predict_edges.Rd | 85 +
man/preference.game.Rd | 62 -
man/print.graph.Rd | 82 -
man/print.igraph.Rd | 97 +
man/print.igraph.es.Rd | 83 +
man/print.igraph.vs.Rd | 81 +
man/print.igraphHRG.Rd | 66 +
man/print.igraphHRGConsensus.Rd | 36 +
man/r_pal.Rd | 24 +
man/radius.Rd | 49 +
man/random_walk.Rd | 48 +
man/read.graph.Rd | 343 -
man/read_graph.Rd | 60 +
man/reciprocity.Rd | 63 +-
man/rep.igraph.Rd | 31 +
man/rev.igraph.es.Rd | 44 +
man/rev.igraph.vs.Rd | 43 +
man/rewire.Rd | 48 +-
man/rewire.edges.Rd | 33 -
man/rglplot.Rd | 49 +-
man/running.mean.Rd | 28 -
man/running_mean.Rd | 36 +
man/sample_.Rd | 30 +
man/sample_bipartite.Rd | 74 +
man/sample_correlated_gnp.Rd | 53 +
man/sample_correlated_gnp_pair.Rd | 54 +
man/sample_degseq.Rd | 99 +
man/sample_dirichlet.Rd | 38 +
man/sample_dot_product.Rd | 58 +
man/sample_fitness.Rd | 79 +
man/sample_fitness_pl.Rd | 86 +
man/sample_forestfire.Rd | 79 +
man/sample_gnm.Rd | 52 +
man/sample_gnp.Rd | 51 +
man/sample_grg.Rd | 53 +
man/sample_growing.Rd | 49 +
man/sample_hierarchical_sbm.Rd | 60 +
man/sample_hrg.Rd | 30 +
man/sample_islands.Rd | 39 +
man/sample_k_regular.Rd | 54 +
man/sample_last_cit.Rd | 71 +
man/sample_motifs.Rd | 51 +
man/sample_pa.Rd | 122 +
man/sample_pa_age.Rd | 135 +
man/sample_pref.Rd | 87 +
man/sample_sbm.Rd | 57 +
man/sample_seq.Rd | 42 +
man/sample_smallworld.Rd | 61 +
man/sample_sphere_surface.Rd | 43 +
man/sample_sphere_volume.Rd | 43 +
man/sample_traits_callaway.Rd | 73 +
man/sbm.game.Rd | 43 -
man/scan_stat.Rd | 64 +
man/scg-method.Rd | 52 +
man/scg.Rd | 293 +-
man/scg.grouping.Rd | 127 -
man/scg_eps.Rd | 59 +
man/scg_extra.Rd | 51 -
man/scg_group.Rd | 133 +
man/scg_semi_proj.Rd | 100 +
man/semiProjectors.Rd | 92 -
man/sequential_pal.Rd | 41 +
man/set_edge_attr.Rd | 75 +
man/set_graph_attr.Rd | 71 +
man/set_vertex_attr.Rd | 75 +
man/shapes.Rd | 261 +
man/shortest.paths.Rd | 196 -
man/similarity.Rd | 109 +-
man/simplified.Rd | 22 +
man/simplify.Rd | 81 +-
man/sir.Rd | 172 +-
man/spectrum.Rd | 79 +
man/spinglass.community.Rd | 144 -
man/split_join_distance.Rd | 44 +
man/srand.Rd | 35 +-
man/st_cuts.Rd | 56 +
man/st_min_cuts.Rd | 66 +
man/static.fitness.game.Rd | 73 -
man/static.power.law.game.Rd | 78 -
man/stochasticMatrix.Rd | 49 -
man/stochastic_matrix.Rd | 55 +
man/strength.Rd | 56 +
man/structure.info.Rd | 88 -
man/sub-.igraph.Rd | 130 +
man/sub-sub-.igraph.Rd | 86 +
man/subcomponent.Rd | 44 +
man/subgraph.Rd | 96 +-
man/subgraph.centrality.Rd | 45 -
man/subgraph_centrality.Rd | 51 +
man/subgraph_isomorphic.Rd | 128 +
man/subgraph_isomorphisms.Rd | 89 +
man/tail_of.Rd | 34 +
man/tkigraph.Rd | 29 +-
man/tkplot.Rd | 288 +-
man/topo_sort.Rd | 42 +
man/topological.sort.Rd | 39 -
man/traits.Rd | 53 -
man/transitivity.Rd | 169 +-
man/triad.census.Rd | 56 -
man/triad_census.Rd | 55 +
man/undocumented.Rd | 40 -
man/unfold.tree.Rd | 48 -
man/unfold_tree.Rd | 48 +
man/union.Rd | 24 +
man/union.igraph.Rd | 59 +
man/union.igraph.es.Rd | 49 +
man/union.igraph.vs.Rd | 49 +
man/unique.igraph.es.Rd | 48 +
man/unique.igraph.vs.Rd | 48 +
man/upgrade_graph.Rd | 32 +
man/vertex.Rd | 50 +
man/vertex.connectivity.Rd | 86 -
man/vertex.shape.pie.Rd | 2 +-
man/vertex_attr-set.Rd | 79 +
man/vertex_attr.Rd | 76 +
man/vertex_attr_names.Rd | 68 +
man/vertex_connectivity.Rd | 101 +
man/walktrap.community.Rd | 60 -
man/watts.strogatz.game.Rd | 44 -
man/which_multiple.Rd | 82 +
man/which_mutual.Rd | 47 +
man/with_edge_.Rd | 28 +
man/with_graph_.Rd | 24 +
man/with_vertex_.Rd | 29 +
man/without_attr.Rd | 25 +
man/without_loops.Rd | 23 +
man/without_multiples.Rd | 22 +
man/write.graph.Rd | 194 -
man/write_graph.Rd | 53 +
src/AMD/Include/amd.h | 411 +
src/AMD/Include/amd_internal.h | 347 +
src/AMD/Makefile | 73 +
src/AMD/README.txt | 213 +
src/AMD/Source/amd.f | 1214 +++
src/AMD/Source/amd_1.c | 180 +
src/AMD/Source/amd_2.c | 1842 ++++
src/AMD/Source/amd_aat.c | 184 +
src/AMD/Source/amd_control.c | 63 +
src/AMD/Source/amd_defaults.c | 37 +
src/AMD/Source/amd_dump.c | 179 +
src/AMD/Source/amd_global.c | 83 +
src/AMD/Source/amd_info.c | 119 +
src/AMD/Source/amd_order.c | 199 +
src/AMD/Source/amd_post_tree.c | 120 +
src/AMD/Source/amd_postorder.c | 206 +
src/AMD/Source/amd_preprocess.c | 118 +
src/AMD/Source/amd_valid.c | 92 +
src/AMD/Source/amdbar.f | 1206 +++
src/CHOLMOD.diff | 89 +
src/CHOLMOD/Check/License.txt | 24 +
src/CHOLMOD/Check/cholmod_check.c | 2709 ++++++
src/CHOLMOD/Check/cholmod_read.c | 1319 +++
src/CHOLMOD/Check/cholmod_write.c | 744 ++
src/CHOLMOD/Check/lesser.txt | 504 ++
src/CHOLMOD/Cholesky/License.txt | 24 +
src/CHOLMOD/Cholesky/cholmod_amd.c | 211 +
src/CHOLMOD/Cholesky/cholmod_analyze.c | 942 ++
src/CHOLMOD/Cholesky/cholmod_colamd.c | 209 +
src/CHOLMOD/Cholesky/cholmod_etree.c | 226 +
src/CHOLMOD/Cholesky/cholmod_factorize.c | 428 +
src/CHOLMOD/Cholesky/cholmod_postorder.c | 291 +
src/CHOLMOD/Cholesky/cholmod_rcond.c | 160 +
src/CHOLMOD/Cholesky/cholmod_resymbol.c | 608 ++
src/CHOLMOD/Cholesky/cholmod_rowcolcounts.c | 536 ++
src/CHOLMOD/Cholesky/cholmod_rowfac.c | 735 ++
src/CHOLMOD/Cholesky/cholmod_solve.c | 1684 ++++
src/CHOLMOD/Cholesky/cholmod_spsolve.c | 396 +
src/CHOLMOD/Cholesky/lesser.txt | 504 ++
src/CHOLMOD/Cholesky/t_cholmod_lsolve.c | 850 ++
src/CHOLMOD/Cholesky/t_cholmod_ltsolve.c | 849 ++
src/CHOLMOD/Cholesky/t_cholmod_rowfac.c | 457 +
src/CHOLMOD/Cholesky/t_cholmod_solve.c | 177 +
src/CHOLMOD/Core/License.txt | 25 +
src/CHOLMOD/Core/cholmod_aat.c | 301 +
src/CHOLMOD/Core/cholmod_add.c | 281 +
src/CHOLMOD/Core/cholmod_band.c | 373 +
src/CHOLMOD/Core/cholmod_change_factor.c | 1226 +++
src/CHOLMOD/Core/cholmod_common.c | 701 ++
src/CHOLMOD/Core/cholmod_complex.c | 549 ++
src/CHOLMOD/Core/cholmod_copy.c | 406 +
src/CHOLMOD/Core/cholmod_dense.c | 701 ++
src/CHOLMOD/Core/cholmod_error.c | 79 +
src/CHOLMOD/Core/cholmod_factor.c | 936 ++
src/CHOLMOD/Core/cholmod_memory.c | 575 ++
src/CHOLMOD/Core/cholmod_sparse.c | 651 ++
src/CHOLMOD/Core/cholmod_transpose.c | 1138 +++
src/CHOLMOD/Core/cholmod_triplet.c | 772 ++
src/CHOLMOD/Core/cholmod_version.c | 37 +
src/CHOLMOD/Core/lesser.txt | 504 ++
src/CHOLMOD/Core/t_cholmod_change_factor.c | 660 ++
src/CHOLMOD/Core/t_cholmod_dense.c | 265 +
src/CHOLMOD/Core/t_cholmod_transpose.c | 317 +
src/CHOLMOD/Core/t_cholmod_triplet.c | 175 +
src/CHOLMOD/Include/License.txt | 8 +
src/CHOLMOD/Include/README.txt | 25 +
src/CHOLMOD/Include/cholmod.h | 125 +
src/CHOLMOD/Include/cholmod_blas.h | 455 +
src/CHOLMOD/Include/cholmod_camd.h | 102 +
src/CHOLMOD/Include/cholmod_check.h | 427 +
src/CHOLMOD/Include/cholmod_cholesky.h | 565 ++
src/CHOLMOD/Include/cholmod_complexity.h | 264 +
src/CHOLMOD/Include/cholmod_config.h | 85 +
src/CHOLMOD/Include/cholmod_core.h | 2395 +++++
src/CHOLMOD/Include/cholmod_internal.h | 404 +
src/CHOLMOD/Include/cholmod_io64.h | 45 +
src/CHOLMOD/Include/cholmod_matrixops.h | 237 +
src/CHOLMOD/Include/cholmod_modify.h | 306 +
src/CHOLMOD/Include/cholmod_partition.h | 166 +
src/CHOLMOD/Include/cholmod_supernodal.h | 172 +
src/CHOLMOD/Include/cholmod_template.h | 238 +
src/CHOLMOD/Makefile | 75 +
src/CHOLMOD/MatrixOps/License.txt | 25 +
src/CHOLMOD/MatrixOps/cholmod_drop.c | 183 +
src/CHOLMOD/MatrixOps/cholmod_horzcat.c | 203 +
src/CHOLMOD/MatrixOps/cholmod_norm.c | 452 +
src/CHOLMOD/MatrixOps/cholmod_scale.c | 217 +
src/CHOLMOD/MatrixOps/cholmod_sdmult.c | 149 +
src/CHOLMOD/MatrixOps/cholmod_ssmult.c | 487 +
src/CHOLMOD/MatrixOps/cholmod_submatrix.c | 425 +
src/CHOLMOD/MatrixOps/cholmod_symmetry.c | 488 +
src/CHOLMOD/MatrixOps/cholmod_vertcat.c | 201 +
src/CHOLMOD/MatrixOps/gpl.txt | 340 +
src/CHOLMOD/MatrixOps/t_cholmod_sdmult.c | 726 ++
src/CHOLMOD/Modify/License.txt | 25 +
src/CHOLMOD/Modify/cholmod_rowadd.c | 678 ++
src/CHOLMOD/Modify/cholmod_rowdel.c | 461 +
src/CHOLMOD/Modify/cholmod_updown.c | 1570 ++++
src/CHOLMOD/Modify/gpl.txt | 340 +
src/CHOLMOD/Modify/t_cholmod_updown.c | 214 +
src/CHOLMOD/Modify/t_cholmod_updown_numkr.c | 746 ++
src/CHOLMOD/Partition/License.txt | 25 +
src/CHOLMOD/Partition/cholmod_camd.c | 231 +
src/CHOLMOD/Partition/cholmod_ccolamd.c | 208 +
src/CHOLMOD/Partition/cholmod_csymamd.c | 144 +
src/CHOLMOD/Partition/cholmod_metis.c | 795 ++
src/CHOLMOD/Partition/cholmod_nesdis.c | 2168 +++++
src/CHOLMOD/Partition/lesser.txt | 504 ++
src/CHOLMOD/README.txt | 81 +
src/CHOLMOD/Supernodal/License.txt | 25 +
src/CHOLMOD/Supernodal/cholmod_super_numeric.c | 307 +
src/CHOLMOD/Supernodal/cholmod_super_solve.c | 217 +
src/CHOLMOD/Supernodal/cholmod_super_symbolic.c | 862 ++
src/CHOLMOD/Supernodal/gpl.txt | 340 +
src/CHOLMOD/Supernodal/t_cholmod_gpu.c | 972 ++
src/CHOLMOD/Supernodal/t_cholmod_super_numeric.c | 912 ++
src/CHOLMOD/Supernodal/t_cholmod_super_solve.c | 450 +
src/COLAMD/Include/colamd.h | 251 +
src/COLAMD/Makefile | 56 +
src/COLAMD/README.txt | 118 +
src/COLAMD/Source/colamd.c | 3604 ++++++++
src/COLAMD/Source/colamd_global.c | 24 +
src/Makevars.in | 10 +-
src/Makevars.win | 7 +-
src/SuiteSparse_config/Makefile | 43 +
src/SuiteSparse_config/README.txt | 48 +
src/SuiteSparse_config/SuiteSparse_config.c | 191 +
src/SuiteSparse_config/SuiteSparse_config.h | 202 +
src/SuiteSparse_config/SuiteSparse_config.mk | 393 +
src/SuiteSparse_config/SuiteSparse_config_GPU.mk | 393 +
src/SuiteSparse_config/SuiteSparse_config_Mac.mk | 395 +
src/adjlist.c | 44 +-
src/bigint.c | 6 -
src/blas.c | 6 +
src/cattributes.c | 502 +-
src/centrality.c | 48 +-
src/community.c | 48 +-
src/components.c | 91 +-
src/config.h.in | 32 +-
src/{ => cs}/cs_add.c | 0
src/{ => cs}/cs_amd.c | 0
src/{ => cs}/cs_chol.c | 0
src/{ => cs}/cs_cholsol.c | 0
src/{ => cs}/cs_compress.c | 0
src/{ => cs}/cs_counts.c | 0
src/{ => cs}/cs_cumsum.c | 0
src/{ => cs}/cs_dfs.c | 0
src/{ => cs}/cs_dmperm.c | 0
src/{ => cs}/cs_droptol.c | 0
src/{ => cs}/cs_dropzeros.c | 0
src/{ => cs}/cs_dupl.c | 0
src/{ => cs}/cs_entry.c | 0
src/{ => cs}/cs_ereach.c | 0
src/{ => cs}/cs_etree.c | 0
src/{ => cs}/cs_fkeep.c | 0
src/{ => cs}/cs_gaxpy.c | 0
src/{ => cs}/cs_happly.c | 0
src/{ => cs}/cs_house.c | 0
src/{ => cs}/cs_ipvec.c | 0
src/{ => cs}/cs_leaf.c | 0
src/{ => cs}/cs_load.c | 0
src/{ => cs}/cs_lsolve.c | 0
src/{ => cs}/cs_ltsolve.c | 0
src/{ => cs}/cs_lu.c | 0
src/{ => cs}/cs_lusol.c | 0
src/{ => cs}/cs_malloc.c | 0
src/{ => cs}/cs_maxtrans.c | 0
src/{ => cs}/cs_multiply.c | 0
src/{ => cs}/cs_norm.c | 0
src/{ => cs}/cs_permute.c | 0
src/{ => cs}/cs_pinv.c | 0
src/{ => cs}/cs_post.c | 0
src/{ => cs}/cs_print.c | 0
src/{ => cs}/cs_pvec.c | 0
src/{ => cs}/cs_qr.c | 0
src/{ => cs}/cs_qrsol.c | 0
src/cs/cs_randperm.c | 49 +
src/{ => cs}/cs_reach.c | 0
src/{ => cs}/cs_scatter.c | 0
src/{ => cs}/cs_scc.c | 0
src/{ => cs}/cs_schol.c | 0
src/{ => cs}/cs_spsolve.c | 0
src/{ => cs}/cs_sqr.c | 0
src/{ => cs}/cs_symperm.c | 0
src/{ => cs}/cs_tdfs.c | 0
src/{ => cs}/cs_transpose.c | 0
src/{ => cs}/cs_updown.c | 0
src/{ => cs}/cs_usolve.c | 0
src/{ => cs}/cs_util.c | 0
src/{ => cs}/cs_utsolve.c | 0
src/cs_randperm.c | 44 -
src/dotproduct.c | 276 +
src/dqueue.c | 6 +
src/dqueue.pmt | 1 -
src/drl_layout.cpp | 2 +-
src/embedding.c | 1116 +++
src/evolver_cit.c | 179 -
src/f2c.h | 230 -
src/f2c_dummy.c | 25 -
src/flow.c | 16 +-
src/foreign-dl-lexer.c | 58 +-
src/foreign-dl-parser.c | 116 +-
src/foreign-dl-parser.h | 2 +-
src/foreign-gml-lexer.c | 28 +-
src/foreign-gml-parser.c | 38 +-
src/foreign-gml-parser.h | 2 +-
src/foreign-graphml.c | 600 +-
src/foreign-lgl-lexer.c | 20 +-
src/foreign-lgl-parser.c | 16 +-
src/foreign-lgl-parser.h | 2 +-
src/foreign-ncol-lexer.c | 18 +-
src/foreign-ncol-parser.c | 14 +-
src/foreign-ncol-parser.h | 2 +-
src/foreign-pajek-lexer.c | 104 +-
src/foreign-pajek-parser.c | 176 +-
src/foreign-pajek-parser.h | 2 +-
src/foreign.c | 16 +-
src/games.c | 270 +-
src/gengraph_box_list.h | 2 +
src/gengraph_definitions.h | 4 +
src/gengraph_graph_molloy_hash.cpp | 4 +-
src/gengraph_graph_molloy_optimized.cpp | 16 +-
src/gengraph_qsort.h | 4 +
src/gengraph_vertex_cover.h | 4 +
src/glpenv01.c | 234 -
src/glpk/COPYING | 676 ++
src/glpk/README | 39 +
src/glpk/amd/COPYING | 502 ++
src/glpk/amd/README | 58 +
src/{ => glpk/amd}/amd_1.c | 0
src/{ => glpk/amd}/amd_2.c | 0
src/{ => glpk/amd}/amd_aat.c | 0
src/{ => glpk/amd}/amd_control.c | 0
src/{ => glpk/amd}/amd_defaults.c | 0
src/{ => glpk/amd}/amd_dump.c | 0
src/{ => glpk/amd}/amd_info.c | 0
src/{ => glpk/amd}/amd_order.c | 0
src/{ => glpk/amd}/amd_post_tree.c | 0
src/{ => glpk/amd}/amd_postorder.c | 0
src/{ => glpk/amd}/amd_preprocess.c | 0
src/{ => glpk/amd}/amd_valid.c | 0
src/glpk/colamd/COPYING | 502 ++
src/glpk/colamd/README | 98 +
src/{ => glpk/colamd}/colamd.c | 0
src/{ => glpk}/glpapi01.c | 0
src/{ => glpk}/glpapi02.c | 0
src/{ => glpk}/glpapi03.c | 0
src/{ => glpk}/glpapi04.c | 0
src/{ => glpk}/glpapi05.c | 0
src/{ => glpk}/glpapi06.c | 0
src/{ => glpk}/glpapi07.c | 0
src/{ => glpk}/glpapi08.c | 0
src/{ => glpk}/glpapi09.c | 0
src/{ => glpk}/glpapi10.c | 0
src/{ => glpk}/glpapi11.c | 0
src/{ => glpk}/glpapi12.c | 0
src/{ => glpk}/glpapi13.c | 0
src/{ => glpk}/glpapi14.c | 0
src/{ => glpk}/glpapi15.c | 0
src/{ => glpk}/glpapi16.c | 0
src/{ => glpk}/glpapi17.c | 0
src/{ => glpk}/glpapi18.c | 0
src/{ => glpk}/glpapi19.c | 0
src/{ => glpk}/glpavl.c | 0
src/{ => glpk}/glpbfd.c | 0
src/{ => glpk}/glpbfx.c | 0
src/{ => glpk}/glpcpx.c | 0
src/{ => glpk}/glpdmp.c | 0
src/{ => glpk}/glpdmx.c | 0
src/glpk/glpenv01.c | 238 +
src/{ => glpk}/glpenv02.c | 0
src/{ => glpk}/glpenv03.c | 0
src/{ => glpk}/glpenv04.c | 0
src/{ => glpk}/glpenv05.c | 0
src/{ => glpk}/glpenv06.c | 0
src/{ => glpk}/glpenv07.c | 0
src/{ => glpk}/glpenv08.c | 0
src/{ => glpk}/glpfhv.c | 0
src/{ => glpk}/glpgmp.c | 0
src/{ => glpk}/glphbm.c | 0
src/{ => glpk}/glpini01.c | 0
src/{ => glpk}/glpini02.c | 0
src/{ => glpk}/glpios01.c | 0
src/{ => glpk}/glpios02.c | 0
src/{ => glpk}/glpios03.c | 0
src/{ => glpk}/glpios04.c | 0
src/{ => glpk}/glpios05.c | 0
src/{ => glpk}/glpios06.c | 0
src/{ => glpk}/glpios07.c | 0
src/{ => glpk}/glpios08.c | 0
src/{ => glpk}/glpios09.c | 0
src/{ => glpk}/glpios10.c | 0
src/{ => glpk}/glpios11.c | 0
src/{ => glpk}/glpios12.c | 0
src/{ => glpk}/glpipm.c | 0
src/glpk/glpk.inc | 1 +
src/{ => glpk}/glplib01.c | 0
src/{ => glpk}/glplib02.c | 0
src/{ => glpk}/glplib03.c | 0
src/{ => glpk}/glplpf.c | 0
src/{ => glpk}/glplpx01.c | 0
src/{ => glpk}/glplpx02.c | 0
src/{ => glpk}/glplpx03.c | 0
src/{ => glpk}/glpluf.c | 0
src/{ => glpk}/glplux.c | 0
src/{ => glpk}/glpmat.c | 0
src/{ => glpk}/glpmpl01.c | 0
src/{ => glpk}/glpmpl02.c | 0
src/{ => glpk}/glpmpl03.c | 0
src/{ => glpk}/glpmpl04.c | 0
src/{ => glpk}/glpmpl05.c | 0
src/{ => glpk}/glpmpl06.c | 0
src/{ => glpk}/glpmps.c | 0
src/{ => glpk}/glpnet01.c | 0
src/{ => glpk}/glpnet02.c | 0
src/{ => glpk}/glpnet03.c | 0
src/{ => glpk}/glpnet04.c | 0
src/{ => glpk}/glpnet05.c | 0
src/{ => glpk}/glpnet06.c | 0
src/{ => glpk}/glpnet07.c | 0
src/{ => glpk}/glpnet08.c | 0
src/{ => glpk}/glpnet09.c | 0
src/{ => glpk}/glpnpp01.c | 0
src/{ => glpk}/glpnpp02.c | 0
src/{ => glpk}/glpnpp03.c | 0
src/{ => glpk}/glpnpp04.c | 0
src/{ => glpk}/glpnpp05.c | 0
src/{ => glpk}/glpqmd.c | 0
src/{ => glpk}/glprgr.c | 0
src/{ => glpk}/glprng01.c | 0
src/{ => glpk}/glprng02.c | 0
src/{ => glpk}/glpscf.c | 0
src/{ => glpk}/glpscl.c | 0
src/{ => glpk}/glpsdf.c | 0
src/{ => glpk}/glpspm.c | 0
src/{ => glpk}/glpspx01.c | 0
src/{ => glpk}/glpspx02.c | 0
src/{ => glpk}/glpsql.c | 0
src/{ => glpk}/glpssx01.c | 0
src/{ => glpk}/glpssx02.c | 0
src/{ => glpk}/glptsp.c | 0
src/heap.pmt | 1 -
src/igraph.h | 97 -
src/igraph_adjlist.h | 238 -
src/igraph_blas.h | 72 -
src/igraph_blas_internal.h | 10 +
src/igraph_constants.h | 159 -
src/igraph_dqueue.h | 76 -
src/igraph_eigen.h | 118 -
src/igraph_error.h | 721 --
src/igraph_games.h | 194 -
src/igraph_lapack.h | 118 -
src/igraph_lapack_internal.h | 6 +
src/igraph_layout.h | 253 -
src/igraph_math.h | 4 +
src/igraph_matrix.h | 107 -
src/igraph_matrix_pmt.h | 234 -
src/igraph_motifs.h | 104 -
src/igraph_neighborhood.h | 51 -
src/igraph_paths.h | 135 -
src/igraph_pmt.h | 142 -
src/igraph_random.h | 129 -
src/igraph_revolver.h | 1200 ---
src/igraph_sparsemat.h | 264 -
src/igraph_stack.c | 6 +
src/igraph_stack.h | 82 -
src/igraph_vector.h | 174 -
src/igraph_version.h | 6 +-
src/include/igraph.h | 99 +
src/include/igraph_adjlist.h | 238 +
src/{ => include}/igraph_arpack.h | 0
src/{ => include}/igraph_array.h | 0
src/{ => include}/igraph_array_pmt.h | 0
src/{ => include}/igraph_attributes.h | 0
src/{ => include}/igraph_bipartite.h | 0
src/include/igraph_blas.h | 74 +
src/{ => include}/igraph_centrality.h | 0
src/{ => include}/igraph_cliques.h | 0
src/{ => include}/igraph_cocitation.h | 0
src/{ => include}/igraph_cohesive_blocks.h | 0
src/{ => include}/igraph_community.h | 0
src/{ => include}/igraph_complex.h | 0
src/{ => include}/igraph_components.h | 0
src/include/igraph_constants.h | 167 +
src/{ => include}/igraph_constructors.h | 0
src/{ => include}/igraph_conversion.h | 0
src/{ => include}/igraph_datatype.h | 0
src/include/igraph_dqueue.h | 82 +
src/{ => include}/igraph_dqueue_pmt.h | 0
src/include/igraph_eigen.h | 119 +
src/include/igraph_embedding.h | 77 +
src/{ => include}/igraph_epidemics.h | 0
src/include/igraph_error.h | 723 ++
src/{ => include}/igraph_flow.h | 0
src/{ => include}/igraph_foreign.h | 0
src/include/igraph_games.h | 235 +
src/{ => include}/igraph_graphlets.h | 0
src/{ => include}/igraph_heap.h | 0
src/{ => include}/igraph_heap_pmt.h | 0
src/{ => include}/igraph_hrg.h | 0
src/{ => include}/igraph_interface.h | 0
src/{ => include}/igraph_interrupt.h | 0
src/{ => include}/igraph_iterators.h | 0
src/include/igraph_lapack.h | 121 +
src/include/igraph_layout.h | 258 +
src/include/igraph_lsap.h | 12 +
src/{ => include}/igraph_matching.h | 0
src/include/igraph_matrix.h | 109 +
src/include/igraph_matrix_pmt.h | 243 +
src/{ => include}/igraph_memory.h | 0
src/{ => include}/igraph_microscopic_update.h | 0
src/{ => include}/igraph_mixing.h | 0
src/include/igraph_motifs.h | 106 +
src/include/igraph_neighborhood.h | 52 +
src/{ => include}/igraph_nongraph.h | 0
src/{ => include}/igraph_operators.h | 0
src/include/igraph_paths.h | 147 +
src/include/igraph_pmt.h | 150 +
src/{ => include}/igraph_pmt_off.h | 0
src/{ => include}/igraph_progress.h | 0
src/{ => include}/igraph_psumtree.h | 0
src/{ => include}/igraph_qsort.h | 0
src/include/igraph_random.h | 142 +
src/include/igraph_scan.h | 78 +
src/{ => include}/igraph_scg.h | 0
src/{ => include}/igraph_separators.h | 0
src/include/igraph_sparsemat.h | 281 +
src/{ => include}/igraph_spmatrix.h | 0
src/include/igraph_stack.h | 88 +
src/{ => include}/igraph_stack_pmt.h | 0
src/{ => include}/igraph_statusbar.h | 0
src/{ => include}/igraph_structural.h | 0
src/{ => include}/igraph_strvector.h | 0
src/include/igraph_threading.h.in | 51 +
src/{ => include}/igraph_topology.h | 0
src/{ => include}/igraph_transitivity.h | 0
src/{ => include}/igraph_types.h | 0
src/include/igraph_vector.h | 188 +
src/{ => include}/igraph_vector_pmt.h | 0
src/{ => include}/igraph_vector_ptr.h | 0
src/{ => include}/igraph_vector_type.h | 0
src/include/igraph_version.h.in | 40 +
src/{ => include}/igraph_visitor.h | 0
src/lad.c | 48 +-
src/lapack.c | 17 +
src/layout.c | 993 +--
src/layout_dh.c | 399 +
src/layout_fr.c | 677 ++
src/layout_gem.c | 241 +
src/layout_kk.c | 597 ++
src/lazyeval.c | 173 +
src/lsap.c | 614 ++
src/matching.c | 12 +-
src/matrix.c | 30 +-
src/matrix.pmt | 11 +
src/operators.c | 8 +-
src/other.c | 81 +-
src/paths.c | 159 +
src/{ => plfit}/error.c | 0
src/{ => plfit}/gss.c | 0
src/{ => plfit}/kolmogorov.c | 0
src/{ => plfit}/lbfgs.c | 0
src/{ => plfit}/options.c | 0
src/{ => plfit}/plfit.c | 0
src/plfit/plfit.inc | 9 +
src/{ => plfit}/zeta.c | 0
src/prpack.cpp | 2 +-
src/prpack/prpack.inc | 23 +
src/{ => prpack}/prpack_base_graph.cpp | 0
src/{ => prpack}/prpack_igraph_graph.cpp | 0
src/{ => prpack}/prpack_preprocessed_ge_graph.cpp | 0
src/{ => prpack}/prpack_preprocessed_gs_graph.cpp | 0
src/{ => prpack}/prpack_preprocessed_scc_graph.cpp | 0
.../prpack_preprocessed_schur_graph.cpp | 0
src/{ => prpack}/prpack_result.cpp | 0
src/prpack/prpack_solver.cpp | 879 ++
src/prpack/prpack_utils.cpp | 60 +
src/prpack_solver.cpp | 877 --
src/prpack_utils.cpp | 61 -
src/random.c | 339 +
src/random_walk.c | 113 +
src/revolver_cit.c | 6479 --------------
src/revolver_grow.c | 1284 ---
src/revolver_ml_cit.c | 3548 --------
src/rinterface.c | 9398 ++++++++------------
src/rinterface.h | 6 +
src/rinterface_extra.c | 115 +-
src/sbm.c | 387 +
src/scan.c | 859 ++
src/{ => simpleraytracer}/Color.cpp | 0
src/{ => simpleraytracer}/Color.h | 0
src/{ => simpleraytracer}/Light.cpp | 0
src/{ => simpleraytracer}/Light.h | 0
src/{ => simpleraytracer}/Point.cpp | 0
src/{ => simpleraytracer}/Point.h | 0
src/{ => simpleraytracer}/RIgraphRay.cpp | 0
src/{ => simpleraytracer}/Ray.cpp | 0
src/{ => simpleraytracer}/Ray.h | 0
src/{ => simpleraytracer}/RayTracer.cpp | 0
src/{ => simpleraytracer}/RayTracer.h | 0
src/{ => simpleraytracer}/RayVector.cpp | 0
src/{ => simpleraytracer}/RayVector.h | 0
src/{ => simpleraytracer}/Shape.cpp | 0
src/{ => simpleraytracer}/Shape.h | 0
src/{ => simpleraytracer}/Sphere.cpp | 0
src/{ => simpleraytracer}/Sphere.h | 0
src/{ => simpleraytracer}/Triangle.cpp | 0
src/{ => simpleraytracer}/Triangle.h | 0
src/{ => simpleraytracer}/unit_limiter.cpp | 0
src/{ => simpleraytracer}/unit_limiter.h | 0
src/sparsemat.c | 317 +
src/stack.pmt | 1 -
src/structural_properties.c | 71 +-
src/triangles.c | 52 +-
src/triangles_template.h | 21 +-
src/triangles_template1.h | 12 +-
src/type_indexededgelist.c | 33 +-
src/uuid/COPYING | 28 +
src/uuid/Makevars.in | 2 +
src/uuid/Makevars.win | 1 +
src/uuid/R.c | 25 +
src/uuid/clear.c | 43 +
src/uuid/compare.c | 55 +
src/uuid/config.h.in | 82 +
src/uuid/copy.c | 45 +
src/uuid/gen_uuid.c | 575 ++
src/uuid/isnull.c | 48 +
src/uuid/pack.c | 69 +
src/uuid/parse.c | 79 +
src/uuid/unpack.c | 63 +
src/uuid/unparse.c | 76 +
src/uuid/uuid.h | 104 +
src/uuid/uuidP.h | 63 +
src/uuid/uuidd.h | 54 +
src/uuid/win32/config.h | 84 +
src/vector.c | 100 +-
src/visitors.c | 5 +-
1279 files changed, 137557 insertions(+), 48676 deletions(-)
delete mode 100644 AUTHORS
delete mode 100644 NEWS
create mode 100644 R/adjacency.R
create mode 100644 R/assortativity.R
create mode 100644 R/centralization.R
create mode 100644 R/data_frame.R
create mode 100644 R/degseq.R
create mode 100644 R/embedding.R
create mode 100644 R/igraph-package.R
create mode 100644 R/incidence.R
create mode 100644 R/layout_drl.R
create mode 100644 R/lazyeval.R
create mode 100644 R/make.R
create mode 100644 R/mgclust.R
create mode 100644 R/palette.R
create mode 100644 R/paths.R
create mode 100644 R/pp.R
create mode 100644 R/printr.R
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delete mode 100644 R/revolver.R
create mode 100644 R/rewire.R
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create mode 100644 R/sgm.R
create mode 100644 R/similarity.R
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delete mode 100644 R/structure.generators.R
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create mode 100644 configure.ac
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create mode 100644 inst/benchmarks/time_kk_layout.R
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create mode 100644 inst/tests/test_hsbm.R
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delete mode 100644 man/dendPlot.igraphHRG.Rd
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create mode 100644 man/difference.igraph.vs.Rd
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create mode 100644 man/ego.Rd
create mode 100644 man/eigen_centrality.Rd
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delete mode 100644 man/fastgreedy.community.Rd
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delete mode 100644 man/get.adjlist.Rd
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create mode 100644 man/identical_graphs.Rd
create mode 100644 man/igraph-attribute-combination.Rd
create mode 100644 man/igraph-dollar.Rd
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create mode 100644 man/igraph-es-indexing.Rd
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delete mode 100644 man/igraph.version.Rd
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rename src/{ => include}/igraph_array_pmt.h (100%)
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create mode 100644 src/include/igraph_eigen.h
create mode 100644 src/include/igraph_embedding.h
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create mode 100644 src/include/igraph_lapack.h
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create mode 100644 src/include/igraph_lsap.h
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rename src/{ => include}/igraph_structural.h (100%)
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create mode 100644 src/include/igraph_threading.h.in
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create mode 100644 src/include/igraph_vector.h
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rename src/{ => include}/igraph_vector_type.h (100%)
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rename src/{ => include}/igraph_visitor.h (100%)
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create mode 100644 src/layout_fr.c
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create mode 100644 src/lsap.c
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rename src/{ => plfit}/gss.c (100%)
rename src/{ => plfit}/kolmogorov.c (100%)
rename src/{ => plfit}/lbfgs.c (100%)
rename src/{ => plfit}/options.c (100%)
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create mode 100644 src/plfit/plfit.inc
rename src/{ => plfit}/zeta.c (100%)
create mode 100644 src/prpack/prpack.inc
rename src/{ => prpack}/prpack_base_graph.cpp (100%)
rename src/{ => prpack}/prpack_igraph_graph.cpp (100%)
rename src/{ => prpack}/prpack_preprocessed_ge_graph.cpp (100%)
rename src/{ => prpack}/prpack_preprocessed_gs_graph.cpp (100%)
rename src/{ => prpack}/prpack_preprocessed_scc_graph.cpp (100%)
rename src/{ => prpack}/prpack_preprocessed_schur_graph.cpp (100%)
rename src/{ => prpack}/prpack_result.cpp (100%)
create mode 100644 src/prpack/prpack_solver.cpp
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delete mode 100644 src/revolver_grow.c
delete mode 100644 src/revolver_ml_cit.c
create mode 100644 src/scan.c
rename src/{ => simpleraytracer}/Color.cpp (100%)
rename src/{ => simpleraytracer}/Color.h (100%)
rename src/{ => simpleraytracer}/Light.cpp (100%)
rename src/{ => simpleraytracer}/Light.h (100%)
rename src/{ => simpleraytracer}/Point.cpp (100%)
rename src/{ => simpleraytracer}/Point.h (100%)
rename src/{ => simpleraytracer}/RIgraphRay.cpp (100%)
rename src/{ => simpleraytracer}/Ray.cpp (100%)
rename src/{ => simpleraytracer}/Ray.h (100%)
rename src/{ => simpleraytracer}/RayTracer.cpp (100%)
rename src/{ => simpleraytracer}/RayTracer.h (100%)
rename src/{ => simpleraytracer}/RayVector.cpp (100%)
rename src/{ => simpleraytracer}/RayVector.h (100%)
rename src/{ => simpleraytracer}/Shape.cpp (100%)
rename src/{ => simpleraytracer}/Shape.h (100%)
rename src/{ => simpleraytracer}/Sphere.cpp (100%)
rename src/{ => simpleraytracer}/Sphere.h (100%)
rename src/{ => simpleraytracer}/Triangle.cpp (100%)
rename src/{ => simpleraytracer}/Triangle.h (100%)
rename src/{ => simpleraytracer}/unit_limiter.cpp (100%)
rename src/{ => simpleraytracer}/unit_limiter.h (100%)
create mode 100644 src/uuid/COPYING
create mode 100644 src/uuid/Makevars.in
create mode 100644 src/uuid/Makevars.win
create mode 100644 src/uuid/R.c
create mode 100644 src/uuid/clear.c
create mode 100644 src/uuid/compare.c
create mode 100644 src/uuid/config.h.in
create mode 100644 src/uuid/copy.c
create mode 100644 src/uuid/gen_uuid.c
create mode 100644 src/uuid/isnull.c
create mode 100644 src/uuid/pack.c
create mode 100644 src/uuid/parse.c
create mode 100644 src/uuid/unpack.c
create mode 100644 src/uuid/unparse.c
create mode 100644 src/uuid/uuid.h
create mode 100644 src/uuid/uuidP.h
create mode 100644 src/uuid/uuidd.h
create mode 100644 src/uuid/win32/config.h
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