installation error from both cran and github, missing glpk #423

englianhu · 2020-10-06T20:42:52Z

1st error

install.packages("igraph", dependencies = TRUE, INSTALL_opts = "--no-lock")
...
...
...
back_arc_set.c -o feedback_arc_set.o
In file included from feedback_arc_set.c:31:
igraph_glpk_support.h:36:10: fatal error: glpk.h: No such file or directory
 #include <glpk.h>
          ^~~~~~~~
- compilation terminated.
- make: *** [C:/PROGRA~1/R/R-40~1.2/etc/i386/Makeconf:222: feedback_arc_set.o] Error 1
- ERROR: compilation failed for package 'igraph'
- * removing 'C:/Program Files/R/R-4.0.2/library/igraph'
- Warning in install.packages :
-   installation of package ‘igraph’ had non-zero exit status

2nd error

> devtools::install_github("gaborcsardi/pkgconfig")
Using github PAT from envvar GITHUB_PAT
- Error: Failed to install 'pkgconfig' from GitHub:
-   HTTP error 401.
-   Bad credentials

-   Rate limit remaining: 53/60
-   Rate limit reset at: 2020-10-06 21:09:58 UTC

  
> devtools::install_github("igraph/rigraph")
Using github PAT from envvar GITHUB_PAT
- Error: Failed to install 'unknown package' from GitHub:
-   HTTP error 401.
-   Bad credentials

-   Rate limit remaining: 52/60
-   Rate limit reset at: 2020-10-06 21:09:58 UTC

jan-glx · 2020-10-08T13:55:24Z

Running Sys.unsetenv("GITHUB_PAT") before install_github as described in r-lib/devtools#1566 might resolve your second error (which seems to have nothing to do with igraph).

vtraag · 2020-10-27T13:13:14Z

Ordinarily, the source in the master branch is updated from the dev branch automatically. This is done in the script tools/travis_deploy.sh. Unfortunately this is now not done because GH_TOKEN is not defined in Travis (see https://travis-ci.org/github/igraph/rigraph for build info). @gaborcsardi, if you defined GH_TOKEN and rerun the dev branch, I believe the master branch should be automatically updated accordingly.

vtraag · 2020-11-20T14:36:35Z

I have now corrected the deploy script, which basically updates the code in the master branch (although the commit message is not yet fully correct -- I will look into that) using the latest code from the dev branch.

However, it seems that the remotes package changed its behaviour from the default master to the "default" branch (see r-lib/remotes#508). The default branch for the rigraph repository is the dev branch, which does not contain the appropriate files to install using the remotes package.

For that reason, you should now install the latest development version using: remotes::install_github("igraph/rigraph@master"). I just confirmed that this is working correctly. @jan-glx, @englianhu: could you please confirm this is also working locally for you? If so, we can then close this issue.

pacificma · 2021-01-04T15:31:26Z

I have now corrected the deploy script, which basically updates the code in the master branch (although the commit message is not yet fully correct -- I will look into that) using the latest code from the dev branch.

However, it seems that the remotes package changed its behaviour from the default master to the "default" branch (see r-lib/remotes#508). The default branch for the rigraph repository is the dev branch, which does not contain the appropriate files to install using the remotes package.

For that reason, you should now install the latest development version using: remotes::install_github("igraph/rigraph@master"). I just confirmed that this is working correctly. @jan-glx, @englianhu: could you please confirm this is also working locally for you? If so, we can then close this issue.

Hi I am having same issue on installation. Same error msg shows up with 'remotes::install_github("igraph/rigraph@master")'
Anything to do with the R version btw? Thank you!

gaborcsardi · 2021-01-04T15:34:59Z

Hi I am having same issue on installation. Same error msg shows up with 'remotes::install_github("igraph/rigraph@master")'
Anything to do with the R version btw? Thank you!

Which error? The original post has three.

jan-glx · 2021-01-04T16:29:23Z

Sorry for the late reply, did not want to test on my production environment and forgot about this. But I just ran remotes::install_github("igraph/rigraph@master") on my Windows machine (and it fails with the first error message (missing glpk.h)

details...

R version 4.0.1 (2020-06-06) -- "See Things Now"
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> remotes::install_github("igraph/rigraph@master")
Using github PAT from envvar GITHUB_PAT
Downloading GitHub repo igraph/rigraph@master
These packages have more recent versions available.
It is recommended to update all of them.
Which would you like to update?

1: All                           
2: CRAN packages only            
3: None                          
4: magrittr (1.5 -> 2.0.1) [CRAN]

Enter one or more numbers, or an empty line to skip updates:3
√  checking for file 'C:\Users\jan\AppData\Local\Temp\RtmpGyfl0Y\remotes3eac2db2434a\igraph-rigraph-b3fc250/DESCRIPTION' (338ms)
-  preparing 'igraph': (850ms)
√  checking DESCRIPTION meta-information ... 
-  cleaning src
-  checking for LF line-endings in source and make files and shell scripts (1.6s)
-  checking for empty or unneeded directories (1.4s)
-  building 'igraph_1.2.5.tar.gz'
   Warning: file 'igraph/cleanup' did not have execute permissions: corrected
   Warning: file 'igraph/configure' did not have execute permissions: corrected
   
Installing package into ‘C:/Users/jan/Documents/R/win-library/4.0’
(as ‘lib’ is unspecified)
* installing *source* package 'igraph' ...
** using staged installation
** libs

*** arch - i386
"C:/RBuildTools/4.0/mingw32/bin/"gfortran  -fno-optimize-sibling-calls    -O2  -mfpmath=sse -msse2 -mstackrealign -c AMD/Source/amd.f -o AMD/Source/amd.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_1.c -o AMD/Source/amd_1.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_2.c -o AMD/Source/amd_2.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_aat.c -o AMD/Source/amd_aat.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_control.c -o AMD/Source/amd_control.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_defaults.c -o AMD/Source/amd_defaults.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_dump.c -o AMD/Source/amd_dump.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_global.c -o AMD/Source/amd_global.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_info.c -o AMD/Source/amd_info.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_order.c -o AMD/Source/amd_order.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_post_tree.c -o AMD/Source/amd_post_tree.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_postorder.c -o AMD/Source/amd_postorder.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_preprocess.c -o AMD/Source/amd_preprocess.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c AMD/Source/amd_valid.c -o AMD/Source/amd_valid.o
"C:/RBuildTools/4.0/mingw32/bin/"gfortran  -fno-optimize-sibling-calls    -O2  -mfpmath=sse -msse2 -mstackrealign -c AMD/Source/amdbar.f -o AMD/Source/amdbar.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Check/cholmod_check.c -o CHOLMOD/Check/cholmod_check.o
CHOLMOD/Check/cholmod_check.c: In function 'check_common':
CHOLMOD/Check/cholmod_check.c:207:61: warning: variable 'init_print' set but not used [-Wunused-but-set-variable]
     Int i, nrow, nmethods, ordering, xworksize, amd_backup, init_print ;
                                                             ^~~~~~~~~~
CHOLMOD/Check/cholmod_check.c: In function 'check_dense':
CHOLMOD/Check/cholmod_check.c:961:37: warning: variable 'nz' set but not used [-Wunused-but-set-variable]
     Int i, j, d, nrow, ncol, nzmax, nz, init_print, count, xtype ;
                                     ^~
CHOLMOD/Check/cholmod_check.c: In function 'check_factor':
CHOLMOD/Check/cholmod_check.c:1508:2: warning: variable 'ps2' set but not used [-Wunused-but-set-variable]
  ps2, psxend, ssize, xsize, maxcsize, maxesize, nsrow2, jj, ii, xtype ;
  ^~~
CHOLMOD/Check/cholmod_check.c:1506:9: warning: variable 'precise' set but not used [-Wunused-but-set-variable]
  count, precise, init_print, ilast, lnz, head, tail, jprev, plast,
         ^~~~~~~
CHOLMOD/Check/cholmod_check.c:1505:38: warning: variable 'ordering' set but not used [-Wunused-but-set-variable]
     Int n, nzmax, j, p, pend, i, nz, ordering, space, is_monotonic, minor,
                                      ^~~~~~~~
CHOLMOD/Check/cholmod_check.c: In function 'cholmod_check_factor':
CHOLMOD/Check/cholmod_check.c:1507:55: warning: 'psx' may be used uninitialized in this function [-Wmaybe-uninitialized]
  jnext, examine_super, nsuper, s, k1, k2, psi, psend, psx, nsrow, nscol,
                                                       ^~~
CHOLMOD/Check/cholmod_check.c: In function 'cholmod_print_factor':
CHOLMOD/Check/cholmod_check.c:1507:55: warning: 'psx' may be used uninitialized in this function [-Wmaybe-uninitialized]
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Check/cholmod_read.c -o CHOLMOD/Check/cholmod_read.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Check/cholmod_write.c -o CHOLMOD/Check/cholmod_write.o
CHOLMOD/Check/cholmod_write.c: In function 'cholmod_write_sparse':
CHOLMOD/Check/cholmod_write.c:365:33: warning: variable 'symmetry' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, is_complex, symmetry, i, j, q, iz, p, nz, is_binary, stype,
                                 ^~~~~~~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_amd.c -o CHOLMOD/Cholesky/cholmod_amd.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_analyze.c -o CHOLMOD/Cholesky/cholmod_analyze.o
CHOLMOD/Cholesky/cholmod_analyze.c: In function 'cholmod_analyze_p2':
CHOLMOD/Cholesky/cholmod_analyze.c:422:69: warning: variable 'ncol' set but not used [-Wunused-but-set-variable]
     Int k, n, ordering, method, nmethods, status, default_strategy, ncol, uncol,
                                                                     ^~~~
CHOLMOD/Cholesky/cholmod_analyze.c:419:45: warning: variable 'CParent' set but not used [-Wunused-but-set-variable]
     Int *First, *Level, *Work4n, *Cmember, *CParent, *ColCount, *Lperm, *Parent,
                                             ^~~~~~~
CHOLMOD/Cholesky/cholmod_analyze.c:419:35: warning: variable 'Cmember' set but not used [-Wunused-but-set-variable]
     Int *First, *Level, *Work4n, *Cmember, *CParent, *ColCount, *Lperm, *Parent,
                                   ^~~~~~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_colamd.c -o CHOLMOD/Cholesky/cholmod_colamd.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_etree.c -o CHOLMOD/Cholesky/cholmod_etree.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_factorize.c -o CHOLMOD/Cholesky/cholmod_factorize.o
CHOLMOD/Cholesky/cholmod_factorize.c: In function 'cholmod_factorize_p':
CHOLMOD/Cholesky/cholmod_factorize.c:114:37: warning: variable 'n' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, stype, convert, n, nsuper, grow2, status ;
                                     ^
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_postorder.c -o CHOLMOD/Cholesky/cholmod_postorder.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_rcond.c -o CHOLMOD/Cholesky/cholmod_rcond.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_resymbol.c -o CHOLMOD/Cholesky/cholmod_resymbol.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_rowcolcounts.c -o CHOLMOD/Cholesky/cholmod_rowcolcounts.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_rowfac.c -o CHOLMOD/Cholesky/cholmod_rowfac.o
In file included from CHOLMOD/Cholesky/cholmod_rowfac.c:164:
CHOLMOD/Cholesky/t_cholmod_rowfac.c: In function 'r_cholmod_rowfac':
CHOLMOD/Cholesky/t_cholmod_rowfac.c:51:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from CHOLMOD/Cholesky/cholmod_rowfac.c:166:
CHOLMOD/Cholesky/t_cholmod_rowfac.c: In function 'c_cholmod_rowfac':
CHOLMOD/Cholesky/t_cholmod_rowfac.c:51:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from CHOLMOD/Cholesky/cholmod_rowfac.c:168:
CHOLMOD/Cholesky/t_cholmod_rowfac.c: In function 'z_cholmod_rowfac':
CHOLMOD/Cholesky/t_cholmod_rowfac.c:51:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
In file included from CHOLMOD/Cholesky/cholmod_rowfac.c:172:
CHOLMOD/Cholesky/t_cholmod_rowfac.c: In function 'r_cholmod_rowfac_mask':
CHOLMOD/Cholesky/t_cholmod_rowfac.c:51:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from CHOLMOD/Cholesky/cholmod_rowfac.c:174:
CHOLMOD/Cholesky/t_cholmod_rowfac.c: In function 'c_cholmod_rowfac_mask':
CHOLMOD/Cholesky/t_cholmod_rowfac.c:51:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:48: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                                ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:38: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                                      ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:28: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                            ^~
CHOLMOD/Cholesky/t_cholmod_rowfac.c:47:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Lx, *Lz, *Wx, *Wz, *Fx, *Fz ;
                  ^~
In file included from CHOLMOD/Cholesky/cholmod_rowfac.c:176:
CHOLMOD/Cholesky/t_cholmod_rowfac.c: In function 'z_cholmod_rowfac_mask':
CHOLMOD/Cholesky/t_cholmod_rowfac.c:51:46: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
  use_dbound, packed, stype, Fpacked, sorted, nzmax, len, parent ;
                                              ^~~~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_solve.c -o CHOLMOD/Cholesky/cholmod_solve.o
In file included from CHOLMOD/Cholesky/cholmod_solve.c:66:
CHOLMOD/Cholesky/t_cholmod_solve.c: In function 'r_ldl_dsolve':
CHOLMOD/Cholesky/t_cholmod_solve.c:64:23: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Yx, *Yz ;
                       ^~
In file included from CHOLMOD/Cholesky/cholmod_solve.c:69:
CHOLMOD/Cholesky/t_cholmod_solve.c: In function 'c_ldl_dsolve':
CHOLMOD/Cholesky/t_cholmod_solve.c:64:23: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Yx, *Yz ;
                       ^~
CHOLMOD/Cholesky/cholmod_solve.c: In function 'iperm':
CHOLMOD/Cholesky/cholmod_solve.c:337:13: warning: variable 'nk' set but not used [-Wunused-but-set-variable]
     Int k2, nk, p, k, j, nrow, ncol, d, dj, j2 ;
             ^~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Cholesky/cholmod_spsolve.c -o CHOLMOD/Cholesky/cholmod_spsolve.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_aat.c -o CHOLMOD/Core/cholmod_aat.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_add.c -o CHOLMOD/Core/cholmod_add.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_band.c -o CHOLMOD/Core/cholmod_band.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_change_factor.c -o CHOLMOD/Core/cholmod_change_factor.o
In file included from CHOLMOD/Core/cholmod_change_factor.c:116:
CHOLMOD/Core/t_cholmod_change_factor.c: In function 'r_change_simplicial_numeric':
CHOLMOD/Core/t_cholmod_change_factor.c:40:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
                  ^~
In file included from CHOLMOD/Core/cholmod_change_factor.c:118:
CHOLMOD/Core/t_cholmod_change_factor.c: In function 'c_change_simplicial_numeric':
CHOLMOD/Core/t_cholmod_change_factor.c:40:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
                  ^~
CHOLMOD/Core/cholmod_change_factor.c: In function 'simplicial_symbolic_to_super_symbolic':
CHOLMOD/Core/cholmod_change_factor.c:265:17: warning: variable 'xsize' set but not used [-Wunused-but-set-variable]
     Int nsuper, xsize, ssize ;
                 ^~~~~
CHOLMOD/Core/cholmod_change_factor.c: In function 'change_simplicial_numeric':
CHOLMOD/Core/cholmod_change_factor.c:680:15: warning: variable 'Li' set but not used [-Wunused-but-set-variable]
     Int *Lp, *Li, *Lnz ;
               ^~
CHOLMOD/Core/cholmod_change_factor.c:680:10: warning: variable 'Lp' set but not used [-Wunused-but-set-variable]
     Int *Lp, *Li, *Lnz ;
          ^~
CHOLMOD/Core/cholmod_change_factor.c:679:18: warning: variable 'Lz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
                  ^~
CHOLMOD/Core/cholmod_change_factor.c:679:13: warning: variable 'Lx' set but not used [-Wunused-but-set-variable]
     double *Lx, *Lz ;
             ^~
CHOLMOD/Core/cholmod_change_factor.c: In function 'll_super_to_simplicial_numeric':
CHOLMOD/Core/cholmod_change_factor.c:827:9: warning: variable 'n' set but not used [-Wunused-but-set-variable]
     Int n, lnz, s, nsuper, psi, psend, nsrow, nscol, k1, k2, erows ;
         ^
CHOLMOD/Core/cholmod_change_factor.c:826:21: warning: variable 'Lpx' set but not used [-Wunused-but-set-variable]
     Int *Ls, *Lpi, *Lpx, *Super, *Li ;
                     ^~~
CHOLMOD/Core/cholmod_change_factor.c:826:10: warning: variable 'Ls' set but not used [-Wunused-but-set-variable]
     Int *Ls, *Lpi, *Lpx, *Super, *Li ;
          ^~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_common.c -o CHOLMOD/Core/cholmod_common.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_complex.c -o CHOLMOD/Core/cholmod_complex.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_copy.c -o CHOLMOD/Core/cholmod_copy.o
CHOLMOD/Core/cholmod_copy.c: In function 'cholmod_copy':
CHOLMOD/Core/cholmod_copy.c:278:25: warning: variable 'lo' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, up, lo, values, diag, astype ;
                         ^~
CHOLMOD/Core/cholmod_copy.c:278:21: warning: variable 'up' set but not used [-Wunused-but-set-variable]
     Int nrow, ncol, up, lo, values, diag, astype ;
                     ^~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_dense.c -o CHOLMOD/Core/cholmod_dense.o
In file included from CHOLMOD/Core/cholmod_dense.c:48:
CHOLMOD/Core/t_cholmod_dense.c: In function 'p_cholmod_sparse_to_dense':
CHOLMOD/Core/t_cholmod_dense.c:30:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                            ^~
CHOLMOD/Core/t_cholmod_dense.c:30:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                       ^~
CHOLMOD/Core/t_cholmod_dense.c:30:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
             ^~
In file included from CHOLMOD/Core/cholmod_dense.c:50:
CHOLMOD/Core/t_cholmod_dense.c: In function 'r_cholmod_sparse_to_dense':
CHOLMOD/Core/t_cholmod_dense.c:30:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                            ^~
CHOLMOD/Core/t_cholmod_dense.c:30:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                       ^~
CHOLMOD/Core/t_cholmod_dense.c: In function 'r_cholmod_dense_to_sparse':
CHOLMOD/Core/t_cholmod_dense.c:136:28: warning: variable 'Cz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                            ^~
CHOLMOD/Core/t_cholmod_dense.c:136:23: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                       ^~
CHOLMOD/Core/t_cholmod_dense.c: In function 'r_cholmod_copy_dense2':
CHOLMOD/Core/t_cholmod_dense.c:229:28: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                            ^~
CHOLMOD/Core/t_cholmod_dense.c:229:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                  ^~
In file included from CHOLMOD/Core/cholmod_dense.c:52:
CHOLMOD/Core/t_cholmod_dense.c: In function 'c_cholmod_sparse_to_dense':
CHOLMOD/Core/t_cholmod_dense.c:30:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                            ^~
CHOLMOD/Core/t_cholmod_dense.c:30:23: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Xx, *Az, *Xz ;
                       ^~
CHOLMOD/Core/t_cholmod_dense.c: In function 'c_cholmod_dense_to_sparse':
CHOLMOD/Core/t_cholmod_dense.c:136:28: warning: variable 'Cz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                            ^~
CHOLMOD/Core/t_cholmod_dense.c:136:23: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Cx, *Xz, *Cz ;
                       ^~
CHOLMOD/Core/t_cholmod_dense.c: In function 'c_cholmod_copy_dense2':
CHOLMOD/Core/t_cholmod_dense.c:229:28: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                            ^~
CHOLMOD/Core/t_cholmod_dense.c:229:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz, *Yx, *Yz ;
                  ^~
CHOLMOD/Core/cholmod_dense.c: In function 'cholmod_eye':
CHOLMOD/Core/cholmod_dense.c:303:15: warning: variable 'nz' set but not used [-Wunused-but-set-variable]
     Int i, n, nz ;
               ^~
CHOLMOD/Core/cholmod_dense.c:302:18: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Xx, *Xz ;
                  ^~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_error.c -o CHOLMOD/Core/cholmod_error.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_factor.c -o CHOLMOD/Core/cholmod_factor.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_memory.c -o CHOLMOD/Core/cholmod_memory.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_sparse.c -o CHOLMOD/Core/cholmod_sparse.o
CHOLMOD/Core/cholmod_sparse.c: In function 'cholmod_copy_sparse':
CHOLMOD/Core/cholmod_sparse.c:488:35: warning: variable 'nzmax' set but not used [-Wunused-but-set-variable]
     Int p, pend, j, ncol, packed, nzmax, nz, xtype ;
                                   ^~~~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_transpose.c -o CHOLMOD/Core/cholmod_transpose.o
In file included from CHOLMOD/Core/cholmod_transpose.c:124:
CHOLMOD/Core/t_cholmod_transpose.c: In function 'p_cholmod_transpose_unsym':
CHOLMOD/Core/t_cholmod_transpose.c:47:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
CHOLMOD/Core/t_cholmod_transpose.c:46:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
CHOLMOD/Core/t_cholmod_transpose.c:46:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
CHOLMOD/Core/t_cholmod_transpose.c:45:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
CHOLMOD/Core/t_cholmod_transpose.c:45:23: warning: variable 'Fx' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                       ^~
CHOLMOD/Core/t_cholmod_transpose.c:45:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
CHOLMOD/Core/t_cholmod_transpose.c:45:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
             ^~
CHOLMOD/Core/t_cholmod_transpose.c: In function 'p_cholmod_transpose_sym':
CHOLMOD/Core/t_cholmod_transpose.c:143:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
CHOLMOD/Core/t_cholmod_transpose.c:142:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
CHOLMOD/Core/t_cholmod_transpose.c:142:23: warning: variable 'Fx' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                       ^~
CHOLMOD/Core/t_cholmod_transpose.c:142:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
CHOLMOD/Core/t_cholmod_transpose.c:142:13: warning: variable 'Ax' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
             ^~
In file included from CHOLMOD/Core/cholmod_transpose.c:126:
CHOLMOD/Core/t_cholmod_transpose.c: In function 'r_cholmod_transpose_unsym':
CHOLMOD/Core/t_cholmod_transpose.c:47:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
CHOLMOD/Core/t_cholmod_transpose.c:46:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
CHOLMOD/Core/t_cholmod_transpose.c:46:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
CHOLMOD/Core/t_cholmod_transpose.c:45:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
CHOLMOD/Core/t_cholmod_transpose.c:45:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
CHOLMOD/Core/t_cholmod_transpose.c: In function 'r_cholmod_transpose_sym':
CHOLMOD/Core/t_cholmod_transpose.c:143:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
CHOLMOD/Core/t_cholmod_transpose.c:142:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
CHOLMOD/Core/t_cholmod_transpose.c:142:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
In file included from CHOLMOD/Core/cholmod_transpose.c:128:
CHOLMOD/Core/t_cholmod_transpose.c: In function 'c_cholmod_transpose_unsym':
CHOLMOD/Core/t_cholmod_transpose.c:47:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
CHOLMOD/Core/t_cholmod_transpose.c:46:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
CHOLMOD/Core/t_cholmod_transpose.c:46:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
CHOLMOD/Core/t_cholmod_transpose.c:45:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
CHOLMOD/Core/t_cholmod_transpose.c:45:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
CHOLMOD/Core/t_cholmod_transpose.c: In function 'c_cholmod_transpose_sym':
CHOLMOD/Core/t_cholmod_transpose.c:143:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
CHOLMOD/Core/t_cholmod_transpose.c:142:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
CHOLMOD/Core/t_cholmod_transpose.c:142:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
In file included from CHOLMOD/Core/cholmod_transpose.c:131:
CHOLMOD/Core/t_cholmod_transpose.c: In function 'ct_cholmod_transpose_unsym':
CHOLMOD/Core/t_cholmod_transpose.c:47:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
CHOLMOD/Core/t_cholmod_transpose.c:46:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
CHOLMOD/Core/t_cholmod_transpose.c:46:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
CHOLMOD/Core/t_cholmod_transpose.c:45:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
CHOLMOD/Core/t_cholmod_transpose.c:45:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
CHOLMOD/Core/t_cholmod_transpose.c: In function 'ct_cholmod_transpose_sym':
CHOLMOD/Core/t_cholmod_transpose.c:143:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
CHOLMOD/Core/t_cholmod_transpose.c:142:28: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                            ^~
CHOLMOD/Core/t_cholmod_transpose.c:142:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Fx, *Fz ;
                  ^~
In file included from CHOLMOD/Core/cholmod_transpose.c:133:
CHOLMOD/Core/t_cholmod_transpose.c: In function 'z_cholmod_transpose_unsym':
CHOLMOD/Core/t_cholmod_transpose.c:47:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
CHOLMOD/Core/t_cholmod_transpose.c:46:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
CHOLMOD/Core/t_cholmod_transpose.c:46:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
CHOLMOD/Core/t_cholmod_transpose.c: In function 'z_cholmod_transpose_sym':
CHOLMOD/Core/t_cholmod_transpose.c:143:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
In file included from CHOLMOD/Core/cholmod_transpose.c:136:
CHOLMOD/Core/t_cholmod_transpose.c: In function 'zt_cholmod_transpose_unsym':
CHOLMOD/Core/t_cholmod_transpose.c:47:69: warning: variable 'permute' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                                     ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:56: warning: variable 'Fpacked' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                                                        ^~~~~~~
CHOLMOD/Core/t_cholmod_transpose.c:47:21: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int j, p, pend, nrow, ncol, Apacked, use_fset, fp, Fpacked, jj, permute ;
                     ^~~~
CHOLMOD/Core/t_cholmod_transpose.c:46:31: warning: variable 'Fnz' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                               ^~~
CHOLMOD/Core/t_cholmod_transpose.c:46:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fnz, *Fj, *Wi, *Iwork ;
                          ^~
CHOLMOD/Core/t_cholmod_transpose.c: In function 'zt_cholmod_transpose_sym':
CHOLMOD/Core/t_cholmod_transpose.c:143:26: warning: variable 'Fp' set but not used [-Wunused-but-set-variable]
     Int *Ap, *Anz, *Ai, *Fp, *Fj, *Wi, *Pinv, *Iwork ;
                          ^~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_triplet.c -o CHOLMOD/Core/cholmod_triplet.o
In file included from CHOLMOD/Core/cholmod_triplet.c:108:
CHOLMOD/Core/t_cholmod_triplet.c: In function 'p_cholmod_triplet_to_sparse':
CHOLMOD/Core/t_cholmod_triplet.c:31:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                            ^~
CHOLMOD/Core/t_cholmod_triplet.c:31:23: warning: variable 'Tx' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                       ^~
CHOLMOD/Core/t_cholmod_triplet.c:31:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                  ^~
CHOLMOD/Core/t_cholmod_triplet.c:31:13: warning: variable 'Rx' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
             ^~
In file included from CHOLMOD/Core/cholmod_triplet.c:110:
CHOLMOD/Core/t_cholmod_triplet.c: In function 'r_cholmod_triplet_to_sparse':
CHOLMOD/Core/t_cholmod_triplet.c:31:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                            ^~
CHOLMOD/Core/t_cholmod_triplet.c:31:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                  ^~
In file included from CHOLMOD/Core/cholmod_triplet.c:112:
CHOLMOD/Core/t_cholmod_triplet.c: In function 'c_cholmod_triplet_to_sparse':
CHOLMOD/Core/t_cholmod_triplet.c:31:28: warning: variable 'Tz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                            ^~
CHOLMOD/Core/t_cholmod_triplet.c:31:18: warning: variable 'Rz' set but not used [-Wunused-but-set-variable]
     double *Rx, *Rz, *Tx, *Tz ;
                  ^~
CHOLMOD/Core/cholmod_triplet.c: In function 'cholmod_triplet_to_sparse':
CHOLMOD/Core/cholmod_triplet.c:345:44: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
     Int i, j, p, k, stype, nrow, ncol, nz, ok ;
                                            ^~
CHOLMOD/Core/cholmod_triplet.c:344:20: warning: variable 'Ri' set but not used [-Wunused-but-set-variable]
     Int *Wj, *Rp, *Ri, *Rnz, *Ti, *Tj ;
                    ^~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Core/cholmod_version.c -o CHOLMOD/Core/cholmod_version.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/MatrixOps/cholmod_drop.c -o CHOLMOD/MatrixOps/cholmod_drop.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/MatrixOps/cholmod_horzcat.c -o CHOLMOD/MatrixOps/cholmod_horzcat.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/MatrixOps/cholmod_norm.c -o CHOLMOD/MatrixOps/cholmod_norm.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/MatrixOps/cholmod_scale.c -o CHOLMOD/MatrixOps/cholmod_scale.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/MatrixOps/cholmod_sdmult.c -o CHOLMOD/MatrixOps/cholmod_sdmult.o
In file included from CHOLMOD/MatrixOps/cholmod_sdmult.c:46:
CHOLMOD/MatrixOps/t_cholmod_sdmult.c: In function 'r_cholmod_sdmult':
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:55:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int packed, nrow, ncol, j, k, p, pend, kcol, i ;
                 ^~~~
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:52:47: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                               ^~
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:52:38: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                      ^~
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:52:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                            ^~
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:52:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                  ^~
In file included from CHOLMOD/MatrixOps/cholmod_sdmult.c:48:
CHOLMOD/MatrixOps/t_cholmod_sdmult.c: In function 'c_cholmod_sdmult':
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:55:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int packed, nrow, ncol, j, k, p, pend, kcol, i ;
                 ^~~~
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:52:47: warning: variable 'Wz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                               ^~
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:52:38: warning: variable 'Yz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                                      ^~
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:52:28: warning: variable 'Xz' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                            ^~
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:52:18: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Ax, *Az, *Xx, *Xz, *Yx, *Yz, *w, *Wz ;
                  ^~
In file included from CHOLMOD/MatrixOps/cholmod_sdmult.c:50:
CHOLMOD/MatrixOps/t_cholmod_sdmult.c: In function 'z_cholmod_sdmult':
CHOLMOD/MatrixOps/t_cholmod_sdmult.c:55:17: warning: variable 'nrow' set but not used [-Wunused-but-set-variable]
     Int packed, nrow, ncol, j, k, p, pend, kcol, i ;
                 ^~~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/MatrixOps/cholmod_ssmult.c -o CHOLMOD/MatrixOps/cholmod_ssmult.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/MatrixOps/cholmod_submatrix.c -o CHOLMOD/MatrixOps/cholmod_submatrix.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/MatrixOps/cholmod_symmetry.c -o CHOLMOD/MatrixOps/cholmod_symmetry.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/MatrixOps/cholmod_vertcat.c -o CHOLMOD/MatrixOps/cholmod_vertcat.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Modify/cholmod_rowadd.c -o CHOLMOD/Modify/cholmod_rowadd.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Modify/cholmod_rowdel.c -o CHOLMOD/Modify/cholmod_rowdel.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Modify/cholmod_updown.c -o CHOLMOD/Modify/cholmod_updown.o
CHOLMOD/Modify/cholmod_updown.c: In function 'cholmod_updown_mask':
CHOLMOD/Modify/cholmod_updown.c:410:33: warning: variable 'ps1' set but not used [-Wunused-but-set-variable]
  *Set_ps1 [32], *Set_ps2 [32], *ps1, *ps2 ;
                                 ^~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Partition/cholmod_camd.c -o CHOLMOD/Partition/cholmod_camd.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Partition/cholmod_ccolamd.c -o CHOLMOD/Partition/cholmod_ccolamd.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Partition/cholmod_csymamd.c -o CHOLMOD/Partition/cholmod_csymamd.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Partition/cholmod_metis.c -o CHOLMOD/Partition/cholmod_metis.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Partition/cholmod_nesdis.c -o CHOLMOD/Partition/cholmod_nesdis.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Supernodal/cholmod_super_numeric.c -o CHOLMOD/Supernodal/cholmod_super_numeric.o
In file included from CHOLMOD/Supernodal/cholmod_super_numeric.c:80:
CHOLMOD/Supernodal/t_cholmod_super_numeric.c: In function 'r_cholmod_super_numeric':
CHOLMOD/Supernodal/t_cholmod_super_numeric.c:142:33: warning: variable 'Fz' set but not used [-Wunused-but-set-variable]
     double *Lx, *Ax, *Fx, *Az, *Fz, *C ;
                                 ^~
CHOLMOD/Supernodal/t_cholmod_super_numeric.c:142:28: warning: variable 'Az' set but not used [-Wunused-but-set-variable]
     double *Lx, *Ax, *Fx, *Az, *Fz, *C ;
                            ^~
CHOLMOD/Supernodal/t_cholmod_super_numeric.c:141:40: warning: unused variable 'tstart' [-Wunused-variable]
     double one [2], zero [2], fjk [2], tstart ;
                                        ^~~~~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Supernodal/cholmod_super_solve.c -o CHOLMOD/Supernodal/cholmod_super_solve.o
In file included from CHOLMOD/Supernodal/cholmod_super_solve.c:29:
CHOLMOD/Supernodal/t_cholmod_super_solve.c: In function 'r_cholmod_super_lsolve':
CHOLMOD/Supernodal/t_cholmod_super_solve.c:64:10: warning: variable 'n' set but not used [-Wunused-but-set-variable]
  nsrow2, n, ps2, j, i, d, nrhs ;
          ^
CHOLMOD/Supernodal/t_cholmod_super_solve.c: In function 'r_cholmod_super_ltsolve':
CHOLMOD/Supernodal/t_cholmod_super_solve.c:272:10: warning: variable 'n' set but not used [-Wunused-but-set-variable]
  nsrow2, n, ps2, j, i, d, nrhs ;
          ^
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c CHOLMOD/Supernodal/cholmod_super_symbolic.c -o CHOLMOD/Supernodal/cholmod_super_symbolic.o
CHOLMOD/Supernodal/cholmod_super_symbolic.c: In function 'cholmod_super_symbolic2':
CHOLMOD/Supernodal/cholmod_super_symbolic.c:455:7: warning: variable 'totsize' set but not used [-Wunused-but-set-variable]
   Int totsize ;
       ^~~~~~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c COLAMD/Source/colamd.c -o COLAMD/Source/colamd.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c COLAMD/Source/colamd_global.c -o COLAMD/Source/colamd_global.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c DensityGrid.cpp -o DensityGrid.o
DensityGrid.cpp: In member function 'void drl::DensityGrid::Init()':
DensityGrid.cpp:72:24: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=]
     } catch (bad_alloc errora) {
                        ^~~~~~
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c DensityGrid_3d.cpp -o DensityGrid_3d.o
DensityGrid_3d.cpp: In member function 'void drl3d::DensityGrid::Init()':
DensityGrid_3d.cpp:72:24: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=]
     } catch (bad_alloc errora) {
                        ^~~~~~
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c NetDataTypes.cpp -o NetDataTypes.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c NetRoutines.cpp -o NetRoutines.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c SuiteSparse_config/SuiteSparse_config.c -o SuiteSparse_config/SuiteSparse_config.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c adjlist.c -o adjlist.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c arpack.c -o arpack.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c array.c -o array.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c atlas.c -o atlas.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c attributes.c -o attributes.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c basic_query.c -o basic_query.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c bfgs.c -o bfgs.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c bigint.c -o bigint.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c bignum.c -o bignum.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c bipartite.c -o bipartite.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c blas.c -o blas.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c bliss.cc -o bliss.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c bliss/bliss_heap.cc -o bliss/bliss_heap.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c bliss/defs.cc -o bliss/defs.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c bliss/graph.cc -o bliss/graph.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c bliss/orbit.cc -o bliss/orbit.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c bliss/partition.cc -o bliss/partition.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c bliss/uintseqhash.cc -o bliss/uintseqhash.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c bliss/utils.cc -o bliss/utils.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cattributes.c -o cattributes.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c centrality.c -o centrality.o
centrality.c: In function 'igraph_closeness_estimate':
centrality.c:2872:37: warning: 'actdist' may be used uninitialized in this function [-Wmaybe-uninitialized]
         if (((cutoff > 0 && actdist < cutoff) || cutoff <= 0) &&
                             ~~~~~~~~^~~~~~~~
centrality.c:2699:26: warning: 'mindist' may be used uninitialized in this function [-Wmaybe-uninitialized]
         if (((cutoff > 0 && mindist < cutoff + 1.0) || (cutoff <= 0)) &&
              ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
centrality.c:2613:19: note: 'mindist' was declared here
     igraph_real_t mindist;
                   ^~~~~~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cliquer/cliquer.c -o cliquer/cliquer.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cliquer/cliquer_graph.c -o cliquer/cliquer_graph.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cliquer/reorder.c -o cliquer/reorder.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cliques.c -o cliques.o
cliques.c: In function 'igraph_i_maximal_cliques':
cliques.c:1122:9: warning: variable 'assret' set but not used [-Wunused-but-set-variable]
     int assret;
         ^~~~~~
At top level:
cliques.c:970:12: warning: 'igraph_i_maximal_cliques_store_size_check' defined but not used [-Wunused-function]
 static int igraph_i_maximal_cliques_store_size_check(const igraph_vector_t* clique, void* data_, igraph_bool_t* cont) {
            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
cliques.c:954:12: warning: 'igraph_i_maximal_cliques_store' defined but not used [-Wunused-function]
 static int igraph_i_maximal_cliques_store(const igraph_vector_t* clique, void* data, igraph_bool_t* cont) {
            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cocitation.c -o cocitation.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cohesive_blocks.c -o cohesive_blocks.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c coloring.c -o coloring.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c community.c -o community.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c community_leiden.c -o community_leiden.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c complex.c -o complex.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c components.c -o components.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c conversion.c -o conversion.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cores.c -o cores.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_add.c -o cs/cs_add.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_amd.c -o cs/cs_amd.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_chol.c -o cs/cs_chol.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_cholsol.c -o cs/cs_cholsol.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_compress.c -o cs/cs_compress.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_counts.c -o cs/cs_counts.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_cumsum.c -o cs/cs_cumsum.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_dfs.c -o cs/cs_dfs.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_dmperm.c -o cs/cs_dmperm.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_droptol.c -o cs/cs_droptol.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_dropzeros.c -o cs/cs_dropzeros.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_dupl.c -o cs/cs_dupl.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_entry.c -o cs/cs_entry.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_ereach.c -o cs/cs_ereach.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_etree.c -o cs/cs_etree.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_fkeep.c -o cs/cs_fkeep.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_gaxpy.c -o cs/cs_gaxpy.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_happly.c -o cs/cs_happly.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_house.c -o cs/cs_house.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_ipvec.c -o cs/cs_ipvec.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_leaf.c -o cs/cs_leaf.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_load.c -o cs/cs_load.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_lsolve.c -o cs/cs_lsolve.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_ltsolve.c -o cs/cs_ltsolve.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_lu.c -o cs/cs_lu.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_lusol.c -o cs/cs_lusol.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_malloc.c -o cs/cs_malloc.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_maxtrans.c -o cs/cs_maxtrans.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_multiply.c -o cs/cs_multiply.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_norm.c -o cs/cs_norm.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_permute.c -o cs/cs_permute.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_pinv.c -o cs/cs_pinv.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_post.c -o cs/cs_post.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_print.c -o cs/cs_print.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_pvec.c -o cs/cs_pvec.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_qr.c -o cs/cs_qr.o
cs/cs_qr.c: In function 'cs_di_qr':
cs/cs_qr.c:27:21: warning: variable 'm' set but not used [-Wunused-but-set-variable]
     CS_INT i, k, p, m, n, vnz, p1, top, m2, len, col, rnz, *s, *leftmost, *Ap, *Ai,
                     ^
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_qrsol.c -o cs/cs_qrsol.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_randperm.c -o cs/cs_randperm.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_reach.c -o cs/cs_reach.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_scatter.c -o cs/cs_scatter.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_scc.c -o cs/cs_scc.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_schol.c -o cs/cs_schol.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_spsolve.c -o cs/cs_spsolve.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_sqr.c -o cs/cs_sqr.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_symperm.c -o cs/cs_symperm.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_tdfs.c -o cs/cs_tdfs.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_transpose.c -o cs/cs_transpose.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_updown.c -o cs/cs_updown.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_usolve.c -o cs/cs_usolve.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_util.c -o cs/cs_util.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c cs/cs_utsolve.c -o cs/cs_utsolve.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c decomposition.c -o decomposition.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c degree_sequence.cpp -o degree_sequence.o
degree_sequence.cpp: In function 'int igraph_i_kleitman_wang(const igraph_vector_t*, const igraph_vector_t*, igraph_vector_t*, bool)':
degree_sequence.cpp:222:33: warning: comparison of integer expressions of different signedness: 'std::vector<vbd_pair>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
         if (vertices.size() - 1 < vdp->degree.second) {
             ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c distances.c -o distances.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c dotproduct.c -o dotproduct.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c dqueue.c -o dqueue.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c drl_graph.cpp -o drl_graph.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c drl_graph_3d.cpp -o drl_graph_3d.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c drl_layout.cpp -o drl_layout.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c drl_layout_3d.cpp -o drl_layout_3d.o
"C:/RBuildTools/4.0/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include         -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -Wno-unused -pedantic -Wno-unused-variable -Wno-unused-function -march=native -mtune=native -c drl_parse.cpp -o drl_parse.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c eigen.c -o eigen.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c embedding.c -o embedding.o
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c fast_community.c -o fast_community.o
fast_community.c:261:13: warning: 'igraph_i_fastgreedy_community_list_check_heap' defined but not used [-Wunused-function]
 static void igraph_i_fastgreedy_community_list_check_heap(
             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
"C:/RBuildTools/4.0/mingw32/bin/"gcc  -I"C:/Users/jan/DOCUME~1/R/R-40~1.1/include" -DNDEBUG -I/include/libxml2 -I/include -DLIBXML_STATIC -DUSING_R -DHAVE_FMEMOPEN=0 -DHAVE_OPEN_MEMSTREAM=0 -DHAVE_RINTF -DWin32 -DHAVE_LIBXML -Wall -DPACKAGE_VERSION=\"1.2.5\" -DHAVE_FMIN=1 -DHAVE_LOG2=1 -DHAVE_SNPRINTF -Ics -I/include -DHAVE_GLPK=1 -Iplfit -Iprpack -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -I. -Iinclude -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -I/include      -DINTERNAL_ARPACK -I. -I/include -DHAVE_GFORTRAN   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -O3 -Wall -pipe -pedantic -std=gnu99 -c feedback_arc_set.c -o feedback_arc_set.o
In file included from feedback_arc_set.c:31:
igraph_glpk_support.h:36:10: fatal error: glpk.h: No such file or directory
 #include <glpk.h>
          ^~~~~~~~
compilation terminated.
make: *** [C:/Users/jan/DOCUME~1/R/R-40~1.1/etc/i386/Makeconf:222: feedback_arc_set.o] Error 1
ERROR: compilation failed for package 'igraph'
* removing 'C:/Users/jan/Documents/R/win-library/4.0/igraph'
Error: Failed to install 'igraph' from GitHub:
  (converted from warning) installation of package ‘C:/Users/jan/AppData/Local/Temp/RtmpGyfl0Y/file3eac52e61a5/igraph_1.2.5.tar.gz’ had non-zero exit status
> sessioninfo::session_info()
- Session info --------------------------------------------------------------------------------------------------------------------------------------------------------------------------
 setting  value                       
 version  R version 4.0.1 (2020-06-06)
 os       Windows 10 x64              
 system   x86_64, mingw32             
 ui       RStudio                     
 language (EN)                        
 collate  English_United States.1252  
 ctype    English_United States.1252  
 tz       Europe/Berlin               
 date     2021-01-04                  

- Packages ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
 package     * version date       lib source        
 assertthat    0.2.1   2019-03-21 [2] CRAN (R 4.0.0)
 backports     1.1.7   2020-05-13 [2] CRAN (R 4.0.0)
 broom         0.5.6   2020-04-20 [2] CRAN (R 4.0.0)
 callr         3.5.1   2020-10-13 [1] CRAN (R 4.0.3)
 cli           2.0.2   2020-02-28 [2] CRAN (R 4.0.0)
 colorspace    1.4-1   2019-03-18 [2] CRAN (R 4.0.0)
 crayon        1.3.4   2017-09-16 [2] CRAN (R 4.0.0)
 curl          4.3     2019-12-02 [2] CRAN (R 4.0.2)
 data.table    1.13.2  2020-10-19 [1] CRAN (R 4.0.3)
 dplyr         1.0.0   2020-05-29 [2] CRAN (R 4.0.0)
 ellipsis      0.3.1   2020-05-15 [2] CRAN (R 4.0.0)
 fansi         0.4.1   2020-01-08 [2] CRAN (R 4.0.0)
 generics      0.0.2   2018-11-29 [2] CRAN (R 4.0.0)
 glue          1.4.1   2020-05-13 [2] CRAN (R 4.0.0)
 lattice       0.20-41 2020-04-02 [2] CRAN (R 4.0.1)
 lifecycle     0.2.0   2020-03-06 [2] CRAN (R 4.0.0)
 magrittr      1.5     2014-11-22 [2] CRAN (R 4.0.0)
 munsell       0.5.0   2018-06-12 [2] CRAN (R 4.0.0)
 nlme          3.1-148 2020-05-24 [2] CRAN (R 4.0.1)
 pillar        1.4.4   2020-05-05 [2] CRAN (R 4.0.0)
 pkgbuild      1.1.0   2020-07-13 [1] CRAN (R 4.0.3)
 pkgconfig     2.0.3   2019-09-22 [2] CRAN (R 4.0.0)
 prettyunits   1.1.1   2020-01-24 [2] CRAN (R 4.0.0)
 processx      3.4.4   2020-09-03 [1] CRAN (R 4.0.3)
 ps            1.3.3   2020-05-08 [2] CRAN (R 4.0.0)
 purrr         0.3.4   2020-04-17 [2] CRAN (R 4.0.0)
 R6            2.4.1   2019-11-12 [2] CRAN (R 4.0.0)
 Rcpp          1.0.5   2020-07-06 [1] CRAN (R 4.0.3)
 remotes       2.2.0   2020-07-21 [1] CRAN (R 4.0.3)
 rlang         0.4.8   2020-10-08 [1] CRAN (R 4.0.3)
 rprojroot     1.3-2   2018-01-03 [2] CRAN (R 4.0.0)
 rstudioapi    0.11    2020-02-07 [2] CRAN (R 4.0.0)
 scales        1.1.1   2020-05-11 [2] CRAN (R 4.0.0)
 sessioninfo   1.1.1   2018-11-05 [2] CRAN (R 4.0.2)
 tibble        3.0.1   2020-04-20 [2] CRAN (R 4.0.0)
 tidyr         1.1.0   2020-05-20 [2] CRAN (R 4.0.0)
 tidyselect    1.1.0   2020-05-11 [2] CRAN (R 4.0.0)
 vctrs         0.3.1   2020-06-05 [2] CRAN (R 4.0.0)
 withr         2.2.0   2020-04-20 [2] CRAN (R 4.0.0)
 yaml          2.2.1   2020-02-01 [2] CRAN (R 4.0.0)

[1] C:/Users/jan/Documents/R/win-library/4.0
[2] C:/Users/jan/Documents/R/R-4.0.1/library

ntamas · 2021-01-04T17:13:31Z

I'm not that familiar with the R build system, but Makevars.win seems to claim that GLPK is available (it passes -DHAVE_GLPK=1 to the compiler), but GLPK_HOME is not set so the compiler cannot find the GLPK header file.

If GLPK is indeed available in the build environment, one needs to set GLPK_HOME to the folder that contains the include directory hosting glpk.h. If GLPK is not available, Makevars.win has to be modified such that it doesn't pass -DHAVE_GLPK=1 to the compiler.

vtraag · 2021-01-05T21:25:09Z

As @ntamas says, you need to make sure that you have GLPK installed.

I assume that you already have Rtools40 installed, in which case you can install glpk using
pacman -S mingw-w64-i686-glpk for the 32-bit version or pacman -S mingw-w64-x86_64-glpk for the 64-bit version in the RTools MinGW 32-bit or MinGW 64-bit shell respectively. Similar as for LIB_XML you need to set GLPK_HOME, this is easiest done as Sys.setenv(GLPK_HOME = "$(MINGW_PREFIX)"), which will automatically pick-up whether you use the 32-bit or 64-bit versions. After that you can run remotes::install_github('igraph/rigraph@master').

jan-glx · 2021-01-06T13:42:12Z

@vtraag, yes installation with remotes::install_github('igraph/rigraph@master') works after installing libxml2 and glpk:

(I think you forgot to replace libxml2 with glpk for the 64-bit version above. pacman -S mingw-w64-{i686,x86_64}-glpk (in any RTools MinGW shell) installs both version. )

I did not need to set GLPK_HOME but I did need to install also libxml2 and
set Sys.setenv(LIB_XML = "$(MINGW_PREFIX)") (So, perhaps you could add LIB_XML ?= $(MINGW_PREFIX) to src/Makevars.win?)

libxml2, glpk, gmp are listed as optional system requirements - shouldn't the installation process figure out if they are installed (and compile without if not)? If not, perhaps you could add the instructions to install these requirements on windows ( pacman -S mingw-w64-{i686,x86_64}-{glpk,libxml2} in the RTools mingw shell) to the README.md (perhaps along with instructions to use @master)?

vtraag · 2021-01-06T14:31:22Z

(I think you forgot to replace libxml2 with glpk for the 64-bit version above. pacman -S mingw-w64-{i686,x86_64}-glpk (in any RTools MinGW shell) installs both version. )

Thanks, I corrected this.

I did not need to set GLPK_HOME but I did need to install also libxml2 and
set Sys.setenv(LIB_XML = "$(MINGW_PREFIX)") (So, perhaps you could add LIB_XML ?= $(MINGW_PREFIX) to src/Makevars.win?)

Yes, this is correct for this case. GLPK_HOME and LIB_XML both point to the same include and lib directories, so in this case it is not necessary. I just wanted to be complete about it, in case somebody runs into a case where the two are installed in different locations. I am not sure about the build system of CRAN so it could be that it is required there. Perhaps @gaborcsardi knows more about that.

libxml2, glpk, gmp are listed as optional system requirements - shouldn't the installation process figure out if they are installed (and compile without if not)? If not, perhaps you could add the instructions to install these requirements on windows ( pacman -S mingw-w64-{i686,x86_64}-{glpk,libxml2} in the RTools mingw shell) to the README.md (perhaps along with instructions to use @master)?

Well, yes, these dependencies are optional for the C core of igraph, so technically you are correct and they could be made optional for the R interface as well. However, I think that almost everybody will install the CRAN binaries, not from source. We could make an effort to make those dependencies optional, but this would not be a high priority.

jan-glx · 2021-01-06T15:48:50Z

Thanks for the clarification!
I thought I tried to install from CRAN with it installing from source nevertheless (But just checked (again?) and igraph install just fine from CRAN (as binary) on windows without glpk installed). So I agree, making the installation process figuring out if glpk is available under windows (like it seems to be the case for linux (configure.ac)) just for windows people installing from source to not have to manually install dependencies does not seem to be worth the effort (adding the info you gave above in the readme or on https://igraph.org/r/ might be though).

vtraag · 2021-03-05T10:19:01Z

I added defaults for the LIB_XML, GLPK_HOME and LIB_GMP in cef5ea8, which should enable installing on Windows without requiring to use any environment variables. I also updated the description to make clear that these dependencies are hardcoded for Windows, and are hence not optional in that case in f8298b0. I believe this should solve this issue, so I am closing it. If any problems do appear around this particular issue, feel free to comment, so that we can re-open it.

The latest code is now automatically being pushed to the master branch, so you can retry to install it from there. The versioning is now automatically based on commits, and uses a clear development version. The version at the time of writing is 1.2.6.9100.

jan-glx · 2021-03-05T10:55:02Z

Awesome!! Works like a charm and certainly lowers the barrier for potential contributions from my side.

vtraag · 2021-03-05T12:53:23Z

Great! Contributions are always welcome!

vtraag mentioned this issue Oct 27, 2020

Add DESCRIPTION and NAMESPACE file #420

Closed

vtraag mentioned this issue Nov 21, 2020

Implement methods for multiplex graphs TomKellyGenetics/leiden#7

Closed

TomKellyGenetics mentioned this issue Nov 24, 2020

Migrate to calling igraph method TomKellyGenetics/leiden#1

Closed

lcolladotor mentioned this issue Feb 12, 2021

Compiling igraph with R 4.1 (devel) on macOS #446

Closed

vtraag closed this as completed Mar 5, 2021

vtraag changed the title ~~installation error from both cran and github~~ installation error from both cran and github, missing glpk Mar 5, 2021

russellhz mentioned this issue Apr 20, 2022

Error in building data system for the first time JGCRI/gcamdata#1177

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installation error from both cran and github, missing glpk #423

installation error from both cran and github, missing glpk #423

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installation error from both cran and github, missing glpk #423

installation error from both cran and github, missing glpk #423

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