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igraph / rigraph

igraph R package
https://r.igraph.org
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Install of igraph 1.6.0 fails under R 4.2.1 #992

Closed stephenashton-dhsc closed 10 months ago

stephenashton-dhsc commented 11 months ago

What happens?

When try to compile/install igraph 1.6.0 under R 4.2.1, I receive a compile error

* installing *source* package 'igraph' ...
** package 'igraph' successfully unpacked and MD5 sums checked
** using staged installation
** libs
gcc  -I"C:/PROGRA~1/R/R-42~1.1/include" -DNDEBUG -IC:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/include/libxml2 -IC:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DHAVE_STRCASECMP -DWin32 -DHAVE_LIBXML=1 -DHAVE_UNISTD_H -Wall -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_GFORTRAN -DINTERNAL_ARPACK -IC:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/include -DHAVE_GLPK=1 -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Icore -Iinclude -Ivendor -DNDEBUG -DNTIMER -DNPRINT -IC:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/include -I'C:/Users/SAshton/AppData/Local/R/win-library/4.2.1/cpp11/include'   -I"C:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c core/centrality/betweenness.c -o core/centrality/betweenness.o
gcc.exe: error: Files/rtools42/x86_64-w64-mingw32.static.posix/include/libxml2: No such file or directory
gcc.exe: error: Files/rtools42/x86_64-w64-mingw32.static.posix/include: No such file or directory
gcc.exe: error: Files/rtools42/x86_64-w64-mingw32.static.posix/include: No such file or directory
gcc.exe: error: Files/rtools42/x86_64-w64-mingw32.static.posix/include: No such file or directory
make: *** [C:/PROGRA~1/R/R-42~1.1/etc/x64/Makeconf:253: core/centrality/betweenness.o] Error 1
ERROR: compilation failed for package 'igraph'
* removing 'C:/Users/SAshton/AppData/Local/R/win-library/4.2.1/igraph'
* restoring previous 'C:/Users/SAshton/AppData/Local/R/win-library/4.2.1/igraph'

If you need any additional information, please let me know.

To Reproduce

install.packages("igraph")
#> Installing package into 'C:/Users/SAshton/AppData/Local/R/win-library/4.2.1'
#> (as 'lib' is unspecified)
#> 
#>   There is a binary version available but the source version is later:
#>        binary source needs_compilation
#> igraph  1.5.1  1.6.0              TRUE
#> installing the source package 'igraph'
#> Warning in install.packages("igraph"): installation of package 'igraph' had
#> non-zero exit status

Created on 2023-12-11 with reprex v2.0.2

szhorvat commented 11 months ago

@krlmlr You probably know this already, but just in case I wanted to mention that this seems related to the space in Program Files

stephenashton-dhsc commented 11 months ago

Could it also be to do with the dependency on libxml2?

I'm not 100% sure if we've got this (as this is on a corporate laptop, where we've got a lot of restrictions on what can be installed/accessed).

Apologies if it is this (as I know it's mentioned elsewhere) - I can always wait for the binary :)

szhorvat commented 11 months ago

That may be an additional issue, and for your convenience I recommend waiting for the binary. But clearly the path after the -I flags should be quoted. Without the quoting this won't work.

krlmlr commented 10 months ago

@Antonov548: Can you please take a look?

In the meantime, can you install from r-universe: https://igraph.r-universe.dev/igraph# ? Binaries are available there too.

stephenashton-dhsc commented 10 months ago

Just to confirm, it does appear that the issue is being caused by the space in the path - if I run Sys.setenv(RTOOLS42_HOME="C:\\PROGRA~1\\rtools42") to use the alias for the Program Files directory, it all works without issue.

Antonov548 commented 10 months ago

Also can confirm that installation happens without errors for me.

krlmlr commented 10 months ago

@Antonov548: As @stephenashton-dhsc wrote, this depends on where the RTools are installed. On a path with spaces, it fails now. We need quotes after or around -I (and perhaps other path-related switches) in Makevars.win .

Antonov548 commented 10 months ago

I just don't see any " in the 1.5 version. @stephenashton-dhsc is it only with latest 1.6? I think if it worked before it will help to find a way to fix it, because simply adding " doesn't add it for commpilation.

To properly reproduce it I have to install R in some folder with space.

stephenashton-dhsc commented 10 months ago

Apologies, I've just checked and it does appear to be a historical issue (not just related to 1.6.0), as I can also reproduce the error with my default setup for both 1.5.1 and 1.5.0 - I'm sure I've installed igraph from source on this machine previously, but clearly not!

krlmlr commented 10 months ago

Thanks, this helps.

@Antonov548: I think the installation location of RTools is critical, the one of R itself less so, but could also play a role.

krlmlr commented 10 months ago

Is this really an igraph issue? Can you install, e.g., rlang from source?

https://github.com/r-lib/rlang/

stephenashton-dhsc commented 10 months ago

It looks like rlang is working - although it looks like the -I arguments being processed are quoted, so the space in the file path won't matter.

I suspect it's a broader issue to be honest - if a path with a space if passed unquoted, I presume it would fail within any package source build.

> install.packages("rlang", type = "source")
Installing package into ‘C:/Users/SAshton/AppData/Local/R/win-library/4.2.1’
(as ‘lib’ is unspecified)
--- Please select a CRAN mirror for use in this session ---
trying URL 'https://cloud.r-project.org/src/contrib/rlang_1.1.2.tar.gz'
Content type 'application/x-gzip' length 763521 bytes (745 KB)
downloaded 745 KB

* installing *source* package 'rlang' ...
** package 'rlang' successfully unpacked and MD5 sums checked
** using staged installation
** libs
gcc  -I"C:/PROGRA~1/R/R-42~1.1/include" -DNDEBUG -I./rlang/    -I"C:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c capture.c -o capture.o
gcc  -I"C:/PROGRA~1/R/R-42~1.1/include" -DNDEBUG -I./rlang/    -I"C:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c internal.c -o internal.o
gcc  -I"C:/PROGRA~1/R/R-42~1.1/include" -DNDEBUG -I./rlang/    -I"C:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c rlang.c -o rlang.o
gcc  -I"C:/PROGRA~1/R/R-42~1.1/include" -DNDEBUG -I./rlang/    -I"C:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c version.c -o version.o
gcc -shared -s -static-libgcc -o rlang.dll tmp.def capture.o internal.o rlang.o version.o -LC:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/lib -LC:/PROGRA~1/R/R-42~1.1/bin/x64 -lR
installing to C:/Users/SAshton/AppData/Local/R/win-library/4.2.1/00LOCK-rlang/00new/rlang/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rlang)

The downloaded source packages are in
        ‘C:\Users\SAshton\AppData\Local\Temp\1\RtmpAz05Vc\downloaded_packages’
krlmlr commented 10 months ago

@Antonov548: I think Makevars.ucrt is to blame here.

Antonov548 commented 10 months ago

@Antonov548: I think Makevars.ucrt is to blame here.

Yes, you are right. It's in ucrt. I forgot that it's used. I have tried with quotes locally and it works, it actually add quotes to compilation https://github.com/igraph/rigraph/pull/1000

stephenashton-dhsc commented 10 months ago

Just ran the new branch and it's working for me - thanks all! 👍

stephenashton-dhsc commented 10 months ago

Actually, spoke too soon - failed on the very last call!

g++ -std=gnu++11 -shared -s -static-libgcc -o igraph.dll igraph-win.def init.o cpp11.o rinterface_extra.o cpprinterface.o lazyeval.o rinterface.o rrandom.o vendor/io/dl-parser.o vendor/io/ncol-lexer.o vendor/io/gml-parser.o vendor/io/ncol-parser.o vendor/io/gml-lexer.o vendor/io/dl-lexer.o vendor/io/lgl-parser.o vendor/io/lgl-lexer.o vendor/io/pajek-lexer.o vendor/io/pajek-parser.o vendor/cigraph/src/version.o vendor/cigraph/src/io/parse_utils.o vendor/cigraph/src/io/dl.o vendor/cigraph/src/io/edgelist.o vendor/cigraph/src/io/dimacs.o vendor/cigraph/src/io/gml.o vendor/cigraph/src/io/graphml.o vendor/cigraph/src/io/ncol.o vendor/cigraph/src/io/dot.o vendor/cigraph/src/io/lgl.o vendor/cigraph/src/io/pajek.o vendor/cigraph/src/io/leda.o vendor/cigraph/src/io/gml-tree.o vendor/cigraph/src/io/graphdb.o vendor/cigraph/src/misc/degree_sequence.o vendor/cigraph/src/misc/feedback_arc_set.o vendor/cigraph/src/misc/cocitation.o vendor/cigraph/src/misc/scan.o vendor/cigraph/src/misc/embedding.o vendor/cigraph/src/misc/power_law_fit.o vendor/cigraph/src/misc/cycle_bases.o vendor/cigraph/src/misc/mixing.o vendor/cigraph/src/misc/motifs.o vendor/cigraph/src/misc/graphicality.o vendor/cigraph/src/misc/matching.o vendor/cigraph/src/misc/order_cycle.o vendor/cigraph/src/misc/spanning_trees.o vendor/cigraph/src/misc/sir.o vendor/cigraph/src/misc/bipartite.o vendor/cigraph/src/misc/chordality.o vendor/cigraph/src/misc/microscopic_update.o vendor/cigraph/src/misc/coloring.o vendor/cigraph/src/misc/other.o vendor/cigraph/src/misc/conversion.o vendor/cigraph/src/hrg/hrg.o vendor/cigraph/src/hrg/hrg_types.o vendor/cigraph/src/isomorphism/lad.o vendor/cigraph/src/isomorphism/queries.o vendor/cigraph/src/isomorphism/isoclasses.o vendor/cigraph/src/isomorphism/isomorphism_misc.o vendor/cigraph/src/isomorphism/vf2.o vendor/cigraph/src/isomorphism/bliss.o vendor/cigraph/src/isomorphism/bliss/heap.o vendor/cigraph/src/isomorphism/bliss/uintseqhash.o vendor/cigraph/src/isomorphism/bliss/partition.o vendor/cigraph/src/isomorphism/bliss/graph.o vendor/cigraph/src/isomorphism/bliss/utils.o vendor/cigraph/src/isomorphism/bliss/orbit.o vendor/cigraph/src/isomorphism/bliss/defs.o vendor/cigraph/src/connectivity/cohesive_blocks.o vendor/cigraph/src/connectivity/separators.o vendor/cigraph/src/connectivity/components.o vendor/cigraph/src/properties/degrees.o vendor/cigraph/src/properties/triangles.o vendor/cigraph/src/properties/basic_properties.o vendor/cigraph/src/properties/girth.o vendor/cigraph/src/properties/loops.o vendor/cigraph/src/properties/constraint.o vendor/cigraph/src/properties/convergence_degree.o vendor/cigraph/src/properties/ecc.o vendor/cigraph/src/properties/neighborhood.o vendor/cigraph/src/properties/dag.o vendor/cigraph/src/properties/multiplicity.o vendor/cigraph/src/properties/spectral.o vendor/cigraph/src/properties/perfect.o vendor/cigraph/src/properties/trees.o vendor/cigraph/src/games/growing_random.o vendor/cigraph/src/games/citations.o vendor/cigraph/src/games/establishment.o vendor/cigraph/src/games/watts_strogatz.o vendor/cigraph/src/games/tree.o vendor/cigraph/src/games/dotproduct.o vendor/cigraph/src/games/degree_sequence.o vendor/cigraph/src/games/erdos_renyi.o vendor/cigraph/src/games/static_fitness.o vendor/cigraph/src/games/preference.o vendor/cigraph/src/games/recent_degree.o vendor/cigraph/src/games/callaway_traits.o vendor/cigraph/src/games/grg.o vendor/cigraph/src/games/k_regular.o vendor/cigraph/src/games/correlated.o vendor/cigraph/src/games/barabasi.o vendor/cigraph/src/games/sbm.o vendor/cigraph/src/games/islands.o vendor/cigraph/src/games/forestfire.o vendor/cigraph/src/games/degree_sequence_vl/gengraph_graph_molloy_optimized.o vendor/cigraph/src/games/degree_sequence_vl/gengraph_degree_sequence.o vendor/cigraph/src/games/degree_sequence_vl/gengraph_graph_molloy_hash.o vendor/cigraph/src/games/degree_sequence_vl/gengraph_random.o vendor/cigraph/src/games/degree_sequence_vl/gengraph_mr-connected.o vendor/cigraph/src/core/printing.o vendor/cigraph/src/core/interruption.o vendor/cigraph/src/core/vector_ptr.o vendor/cigraph/src/core/memory.o vendor/cigraph/src/core/sparsemat.o vendor/cigraph/src/core/error.o vendor/cigraph/src/core/genheap.o vendor/cigraph/src/core/progress.o vendor/cigraph/src/core/statusbar.o vendor/cigraph/src/core/heap.o vendor/cigraph/src/core/indheap.o vendor/cigraph/src/core/grid.o vendor/cigraph/src/core/trie.o vendor/cigraph/src/core/stack.o vendor/cigraph/src/core/estack.o vendor/cigraph/src/core/buckets.o vendor/cigraph/src/core/vector_list.o vendor/cigraph/src/core/matrix_list.o vendor/cigraph/src/core/fixed_vectorlist.o vendor/cigraph/src/core/strvector.o vendor/cigraph/src/core/marked_queue.o vendor/cigraph/src/core/dqueue.o vendor/cigraph/src/core/array.o vendor/cigraph/src/core/cutheap.o vendor/cigraph/src/core/matrix.o vendor/cigraph/src/core/psumtree.o vendor/cigraph/src/core/vector.o vendor/cigraph/src/core/set.o vendor/cigraph/src/internal/glpk_support.o vendor/cigraph/src/internal/hacks.o vendor/cigraph/src/internal/lsap.o vendor/cigraph/src/internal/zeroin.o vendor/cigraph/src/internal/utils.o vendor/cigraph/src/internal/qsort_r.o vendor/cigraph/src/internal/qsort.o vendor/cigraph/src/operators/disjoint_union.o vendor/cigraph/src/operators/subgraph.o vendor/cigraph/src/operators/intersection.o vendor/cigraph/src/operators/simplify.o vendor/cigraph/src/operators/compose.o vendor/cigraph/src/operators/complementer.o vendor/cigraph/src/operators/rewire_edges.o vendor/cigraph/src/operators/union.o vendor/cigraph/src/operators/permute.o vendor/cigraph/src/operators/misc_internal.o vendor/cigraph/src/operators/contract.o vendor/cigraph/src/operators/add_edge.o vendor/cigraph/src/operators/reverse.o vendor/cigraph/src/operators/difference.o vendor/cigraph/src/operators/connect_neighborhood.o vendor/cigraph/src/operators/rewire.o vendor/cigraph/src/layout/large_graph.o vendor/cigraph/src/layout/sugiyama.o vendor/cigraph/src/layout/circular.o vendor/cigraph/src/layout/layout_bipartite.o vendor/cigraph/src/layout/graphopt.o vendor/cigraph/src/layout/fruchterman_reingold.o vendor/cigraph/src/layout/kamada_kawai.o vendor/cigraph/src/layout/davidson_harel.o vendor/cigraph/src/layout/merge_dla.o vendor/cigraph/src/layout/gem.o vendor/cigraph/src/layout/layout_random.o vendor/cigraph/src/layout/reingold_tilford.o vendor/cigraph/src/layout/merge_grid.o vendor/cigraph/src/layout/umap.o vendor/cigraph/src/layout/mds.o vendor/cigraph/src/layout/layout_grid.o vendor/cigraph/src/layout/drl/drl_graph_3d.o vendor/cigraph/src/layout/drl/drl_layout_3d.o vendor/cigraph/src/layout/drl/drl_parse.o vendor/cigraph/src/layout/drl/DensityGrid_3d.o vendor/cigraph/src/layout/drl/drl_layout.o vendor/cigraph/src/layout/drl/DensityGrid.o vendor/cigraph/src/layout/drl/drl_graph.o vendor/cigraph/src/community/louvain.o vendor/cigraph/src/community/optimal_modularity.o vendor/cigraph/src/community/leading_eigenvector.o vendor/cigraph/src/community/edge_betweenness.o vendor/cigraph/src/community/community_misc.o vendor/cigraph/src/community/leiden.o vendor/cigraph/src/community/modularity.o vendor/cigraph/src/community/label_propagation.o vendor/cigraph/src/community/fast_modularity.o vendor/cigraph/src/community/voronoi.o vendor/cigraph/src/community/fluid.o vendor/cigraph/src/community/spinglass/pottsmodel_2.o vendor/cigraph/src/community/spinglass/NetRoutines.o vendor/cigraph/src/community/spinglass/clustertool.o vendor/cigraph/src/community/spinglass/NetDataTypes.o vendor/cigraph/src/community/walktrap/walktrap_heap.o vendor/cigraph/src/community/walktrap/walktrap_graph.o vendor/cigraph/src/community/walktrap/walktrap_communities.o vendor/cigraph/src/community/walktrap/walktrap.o vendor/cigraph/src/community/infomap/infomap.o vendor/cigraph/src/community/infomap/infomap_Greedy.o vendor/cigraph/src/community/infomap/infomap_FlowGraph.o vendor/cigraph/src/paths/astar.o vendor/cigraph/src/paths/widest_paths.o vendor/cigraph/src/paths/random_walk.o vendor/cigraph/src/paths/distances.o vendor/cigraph/src/paths/floyd_warshall.o vendor/cigraph/src/paths/shortest_paths.o vendor/cigraph/src/paths/eulerian.o vendor/cigraph/src/paths/johnson.o vendor/cigraph/src/paths/bellman_ford.o vendor/cigraph/src/paths/voronoi.o vendor/cigraph/src/paths/unweighted.o vendor/cigraph/src/paths/all_shortest_paths.o vendor/cigraph/src/paths/sparsifier.o vendor/cigraph/src/paths/dijkstra.o vendor/cigraph/src/paths/simple_paths.o vendor/cigraph/src/paths/histogram.o vendor/cigraph/src/flow/flow.o vendor/cigraph/src/flow/st-cuts.o vendor/cigraph/src/flow/flow_conversion.o vendor/cigraph/src/math/utils.o vendor/cigraph/src/math/safe_intop.o vendor/cigraph/src/math/complex.o vendor/cigraph/src/constructors/regular.o vendor/cigraph/src/constructors/de_bruijn.o vendor/cigraph/src/constructors/basic_constructors.o vendor/cigraph/src/constructors/generalized_petersen.o vendor/cigraph/src/constructors/lattices.o vendor/cigraph/src/constructors/adjacency.o vendor/cigraph/src/constructors/famous.o vendor/cigraph/src/constructors/atlas.o vendor/cigraph/src/constructors/linegraph.o vendor/cigraph/src/constructors/kautz.o vendor/cigraph/src/constructors/circulant.o vendor/cigraph/src/constructors/lcf.o vendor/cigraph/src/constructors/trees.o vendor/cigraph/src/constructors/full.o vendor/cigraph/src/constructors/prufer.o vendor/cigraph/src/graph/basic_query.o vendor/cigraph/src/graph/type_indexededgelist.o vendor/cigraph/src/graph/graph_list.o vendor/cigraph/src/graph/caching.o vendor/cigraph/src/graph/type_common.o vendor/cigraph/src/graph/adjlist.o vendor/cigraph/src/graph/cattributes.o vendor/cigraph/src/graph/attributes.o vendor/cigraph/src/graph/visitors.o vendor/cigraph/src/graph/iterators.o vendor/cigraph/src/random/rng_pcg64.o vendor/cigraph/src/random/rng_glibc2.o vendor/cigraph/src/random/rng_pcg32.o vendor/cigraph/src/random/rng_mt19937.o vendor/cigraph/src/random/random.o vendor/cigraph/src/linalg/eigen.o vendor/cigraph/src/linalg/lapack.o vendor/cigraph/src/linalg/arpack.o vendor/cigraph/src/linalg/blas.o vendor/cigraph/src/centrality/centrality_other.o vendor/cigraph/src/centrality/centralization.o vendor/cigraph/src/centrality/hub_authority.o vendor/cigraph/src/centrality/prpack.o vendor/cigraph/src/centrality/pagerank.o vendor/cigraph/src/centrality/coreness.o vendor/cigraph/src/centrality/closeness.o vendor/cigraph/src/centrality/eigenvector.o vendor/cigraph/src/centrality/truss.o vendor/cigraph/src/centrality/betweenness.o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_gs_graph.o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_ge_graph.o vendor/cigraph/src/centrality/prpack/prpack_utils.o vendor/cigraph/src/centrality/prpack/prpack_igraph_graph.o vendor/cigraph/src/centrality/prpack/prpack_result.o vendor/cigraph/src/centrality/prpack/prpack_base_graph.o vendor/cigraph/src/centrality/prpack/prpack_solver.o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_scc_graph.o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_schur_graph.o vendor/cigraph/src/cliques/maximal_cliques.o vendor/cigraph/src/cliques/glet.o vendor/cigraph/src/cliques/cliques.o vendor/cigraph/src/cliques/cliquer_wrapper.o vendor/cigraph/src/cliques/cliquer/cliquer_graph.o vendor/cigraph/src/cliques/cliquer/reorder.o vendor/cigraph/src/cliques/cliquer/cliquer.o vendor/cigraph/vendor/plfit/options.o vendor/cigraph/vendor/plfit/lbfgs.o vendor/cigraph/vendor/plfit/mt.o vendor/cigraph/vendor/plfit/gss.o vendor/cigraph/vendor/plfit/rbinom.o vendor/cigraph/vendor/plfit/plfit_error.o vendor/cigraph/vendor/plfit/hzeta.o vendor/cigraph/vendor/plfit/plfit.o vendor/cigraph/vendor/plfit/platform.o vendor/cigraph/vendor/plfit/sampling.o vendor/cigraph/vendor/plfit/kolmogorov.o vendor/cigraph/vendor/cs/cs_post.o vendor/cigraph/vendor/cs/cs_updown.o vendor/cigraph/vendor/cs/cs_amd.o vendor/cigraph/vendor/cs/cs_happly.o vendor/cigraph/vendor/cs/cs_pinv.o vendor/cigraph/vendor/cs/cs_droptol.o vendor/cigraph/vendor/cs/cs_cumsum.o vendor/cigraph/vendor/cs/cs_permute.o vendor/cigraph/vendor/cs/cs_counts.o vendor/cigraph/vendor/cs/cs_qrsol.o vendor/cigraph/vendor/cs/cs_lu.o vendor/cigraph/vendor/cs/cs_dropzeros.o vendor/cigraph/vendor/cs/cs_tdfs.o vendor/cigraph/vendor/cs/cs_entry.o vendor/cigraph/vendor/cs/cs_chol.o vendor/cigraph/vendor/cs/cs_ltsolve.o vendor/cigraph/vendor/cs/cs_cholsol.o vendor/cigraph/vendor/cs/cs_dfs.o vendor/cigraph/vendor/cs/cs_add.o vendor/cigraph/vendor/cs/cs_usolve.o vendor/cigraph/vendor/cs/cs_pvec.o vendor/cigraph/vendor/cs/cs_ereach.o vendor/cigraph/vendor/cs/cs_etree.o vendor/cigraph/vendor/cs/cs_gaxpy.o vendor/cigraph/vendor/cs/cs_spsolve.o vendor/cigraph/vendor/cs/cs_randperm.o vendor/cigraph/vendor/cs/cs_ipvec.o vendor/cigraph/vendor/cs/cs_house.o vendor/cigraph/vendor/cs/cs_qr.o vendor/cigraph/vendor/cs/cs_print.o vendor/cigraph/vendor/cs/cs_maxtrans.o vendor/cigraph/vendor/cs/cs_dmperm.o vendor/cigraph/vendor/cs/cs_utsolve.o vendor/cigraph/vendor/cs/cs_lusol.o vendor/cigraph/vendor/cs/cs_symperm.o vendor/cigraph/vendor/cs/cs_scatter.o vendor/cigraph/vendor/cs/cs_reach.o vendor/cigraph/vendor/cs/cs_dupl.o vendor/cigraph/vendor/cs/cs_transpose.o vendor/cigraph/vendor/cs/cs_leaf.o vendor/cigraph/vendor/cs/cs_scc.o vendor/cigraph/vendor/cs/cs_lsolve.o vendor/cigraph/vendor/cs/cs_util.o vendor/cigraph/vendor/cs/cs_compress.o vendor/cigraph/vendor/cs/cs_fkeep.o vendor/cigraph/vendor/cs/cs_load.o vendor/cigraph/vendor/cs/cs_norm.o vendor/cigraph/vendor/cs/cs_sqr.o vendor/cigraph/vendor/cs/cs_malloc.o vendor/cigraph/vendor/cs/cs_multiply.o vendor/cigraph/vendor/cs/cs_schol.o vendor/cigraph/vendor/pcg/pcg-rngs-64.o vendor/cigraph/vendor/pcg/pcg-output-32.o vendor/cigraph/vendor/pcg/pcg-advance-128.o vendor/cigraph/vendor/pcg/pcg-advance-64.o vendor/cigraph/vendor/pcg/pcg-rngs-128.o vendor/cigraph/vendor/pcg/pcg-output-128.o vendor/cigraph/vendor/pcg/pcg-output-64.o vendor/arpack/dsaitr.o vendor/arpack/dnaupd.o vendor/arpack/dstqrb.o vendor/arpack/dgetv0.o vendor/arpack/dsapps.o vendor/arpack/dngets.o vendor/arpack/dnaitr.o vendor/arpack/dnaup2.o vendor/arpack/dnconv.o vendor/arpack/dstats.o vendor/arpack/dsortc.o vendor/arpack/dneigh.o vendor/arpack/dnapps.o vendor/arpack/dneupd.o vendor/arpack/dsesrt.o vendor/arpack/dsortr.o vendor/arpack/dvout.o vendor/arpack/dsaup2.o vendor/arpack/dsconv.o vendor/arpack/wrap.o vendor/arpack/dseigt.o vendor/arpack/dlaqrb.o vendor/arpack/dmout.o vendor/arpack/dstatn.o vendor/arpack/ivout.o vendor/arpack/dsgets.o vendor/arpack/second.o vendor/arpack/dsaupd.o vendor/arpack/dseupd.o vendor/mini-gmp/mini-gmp.o vendor/simpleraytracer/Triangle.o vendor/simpleraytracer/Light.o vendor/simpleraytracer/unit_limiter.o vendor/simpleraytracer/Ray.o vendor/simpleraytracer/RayTracer.o vendor/simpleraytracer/Point.o vendor/simpleraytracer/Color.o vendor/simpleraytracer/RIgraphRay.o vendor/simpleraytracer/Sphere.o vendor/simpleraytracer/Shape.o vendor/simpleraytracer/RayVector.o vendor/uuid/isnull.o vendor/uuid/clear.o vendor/uuid/unparse.o vendor/uuid/compare.o vendor/uuid/R.o vendor/uuid/pack.o vendor/uuid/gen_uuid.o vendor/uuid/unpack.o vendor/uuid/parse.o vendor/uuid/copy.o -LC:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/lib -lxml2 -liconv -lz -lws2_32 -lstdc++ -lglpk -lgmp -LC:/PROGRA~1/R/R-42~1.1/bin/x64 -lRblas -LC:/PROGRA~1/R/R-42~1.1/bin/x64 -lRlapack -llzma -LC:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/Program Files/rtools42/x86_64-w64-mingw32.static.posix/lib -LC:/PROGRA~1/R/R-42~1.1/bin/x64 -lR
g++.exe: error: Files/rtools42/x86_64-w64-mingw32.static.posix/lib: No such file or directory
make: *** [C:/PROGRA~1/R/R-42~1.1/share/make/winshlib.mk:16: igraph.dll] Error 1
ERROR: compilation failed for package 'igraph'
stephenashton-dhsc commented 10 months ago

I think this might be within Makevars.in? Will -L${LIB_XML}/lib need to become -L"${LIB_XML}/lib"?

Antonov548 commented 10 months ago

I think this might be within Makevars.in? Will -L${LIB_XML}/lib need to become -L"${LIB_XML}/lib"?

Oh, I see. It also exists in linking stage. I have pushed new changes to the branch. May you try again please?

stephenashton-dhsc commented 10 months ago

Yep, that's got it! (And I actually waited for it to finish this time, rather than just assuming it would after it passed the last error point!)

Massive thanks!

** R
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (igraph)