Multiple platform build/check report for BioC 3.21 - BUILD BIN results for rqubic on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences"	4748
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences"	4459
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences"	4398
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

BUILD BIN results for rqubic on palomino7

To the developers/maintainers of the rqubic package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rqubic.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: rqubic

Version: 1.53.0

Command: rm -rf rqubic.buildbin-libdir && mkdir rqubic.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=rqubic.buildbin-libdir rqubic_1.53.0.tar.gz

StartedAt: 2024-11-28 07:41:57 -0500 (Thu, 28 Nov 2024)

EndedAt: 2024-11-28 07:42:33 -0500 (Thu, 28 Nov 2024)

EllapsedTime: 37.0 seconds

RetCode: 0

Status: OK

PackageFile: rqubic_1.53.0.zip

PackageFileSize: 436.9 KiB

Command output

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### Running command:
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###   rm -rf rqubic.buildbin-libdir && mkdir rqubic.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=rqubic.buildbin-libdir rqubic_1.53.0.tar.gz
###
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* installing *source* package 'rqubic' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 13.3.0'
gcc  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c bicluster.c -o bicluster.o
bicluster.c: In function 'seed_intersect_r':
bicluster.c:354:11: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
  354 |       if (flag=ss) (*m_cnt)++;
      |           ^~~~
gcc  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c discretize.c -o discretize.o
In file included from discretize.c:9:
rqubic.h:62:20: warning: 'MINCOL_ATT_NAME' defined but not used [-Wunused-variable]
   62 | static const char *MINCOL_ATT_NAME="minimumCol";
      |                    ^~~~~~~~~~~~~~~
rqubic.h:61:20: warning: 'EDGELIST_ATT_NAME' defined but not used [-Wunused-variable]
   61 | static const char *EDGELIST_ATT_NAME="edgelist";
      |                    ^~~~~~~~~~~~~~~~~
gcc  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c fib.c -o fib.o
In file included from fib.c:35:
rqubic.h:62:20: warning: 'MINCOL_ATT_NAME' defined but not used [-Wunused-variable]
   62 | static const char *MINCOL_ATT_NAME="minimumCol";
      |                    ^~~~~~~~~~~~~~~
rqubic.h:61:20: warning: 'EDGELIST_ATT_NAME' defined but not used [-Wunused-variable]
   61 | static const char *EDGELIST_ATT_NAME="edgelist";
      |                    ^~~~~~~~~~~~~~~~~
gcc  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c graph.c -o graph.o
In function 'compare_edges',
    inlined from 'fh_insert_fixed' at graph.c:41:9,
    inlined from 'generate_sorted_seeds' at graph.c:147:7:
graph.c:31:13: warning: array subscript 'struct Edge[0]' is partly outside array bounds of 'struct Edge[0]' [-Warray-bounds=]
   31 |   const int score_a = ((pEdge)a)->score;
      |             ^~~~~~~
graph.c: In function 'generate_sorted_seeds':
graph.c:131:9: note: object '_cur_min' of size 8
  131 |   pEdge _cur_min = &__cur_min;
      |         ^~~~~~~~
gcc  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c rqubic.c -o rqubic.o
In file included from rqubic.c:5:
rqubic.h:62:20: warning: 'MINCOL_ATT_NAME' defined but not used [-Wunused-variable]
   62 | static const char *MINCOL_ATT_NAME="minimumCol";
      |                    ^~~~~~~~~~~~~~~
rqubic.h:61:20: warning: 'EDGELIST_ATT_NAME' defined but not used [-Wunused-variable]
   61 | static const char *EDGELIST_ATT_NAME="edgelist";
      |                    ^~~~~~~~~~~~~~~~~
gcc -shared -s -static-libgcc -o rqubic.dll tmp.def bicluster.o discretize.o fib.o graph.o rqubic.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/meat/rqubic.buildbin-libdir/00LOCK-rqubic/00new/rqubic/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'rqubic' as rqubic_1.53.0.zip
* DONE (rqubic)