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This page was generated on 2024-12-24 11:42 -0500 (Tue, 24 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4754
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4472
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4426
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4381
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" 4373
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

Package 2228/2274HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
VegaMC 3.45.0  (landing page)
Sandro Morganella
Snapshot Date: 2024-12-23 13:40 -0500 (Mon, 23 Dec 2024)
git_url: https://git.bioconductor.org/packages/VegaMC
git_branch: devel
git_last_commit: 77ecd7a
git_last_commit_date: 2024-10-29 09:40:40 -0500 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    WARNINGS  


BUILD BIN results for VegaMC on palomino7

To the developers/maintainers of the VegaMC package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/VegaMC.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: VegaMC
Version: 3.45.0
Command: rm -rf VegaMC.buildbin-libdir && mkdir VegaMC.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=VegaMC.buildbin-libdir VegaMC_3.45.0.tar.gz
StartedAt: 2024-12-24 08:15:46 -0500 (Tue, 24 Dec 2024)
EndedAt: 2024-12-24 08:16:11 -0500 (Tue, 24 Dec 2024)
EllapsedTime: 25.9 seconds
RetCode: 0
Status:   OK  
PackageFile: VegaMC_3.45.0.zip
PackageFileSize: 1.708 MiB

Command output

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###
### Running command:
###
###   rm -rf VegaMC.buildbin-libdir && mkdir VegaMC.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=VegaMC.buildbin-libdir VegaMC_3.45.0.tar.gz
###
##############################################################################
##############################################################################


* installing *source* package 'VegaMC' ...
** 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 run_vegaMC.c -o run_vegaMC.o
run_vegaMC.c: In function 'run_vegaMC':
run_vegaMC.c:144:13: warning: too many arguments for format [-Wformat-extra-args]
  144 |     Rprintf("\tAberration Matrices Successfully Computed\n", num_seg_regions);
      |             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
run_vegaMC.c:149:13: warning: too many arguments for format [-Wformat-extra-args]
  149 |     Rprintf("\tStatistical Analysis Successfully Completed\n",
      |             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
run_vegaMC.c: In function 'read_params':
run_vegaMC.c:618:18: warning: unused variable 'brkt' [-Wunused-variable]
  618 |     char *elem, *brkt;
      |                  ^~~~
run_vegaMC.c: In function 'load_data':
run_vegaMC.c:564:14: warning: 'first_probe' may be used uninitialized [-Wmaybe-uninitialized]
  564 |     prev_chr = temp_probe->chromosome;
      |     ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
run_vegaMC.c:481:12: note: 'first_probe' was declared here
  481 |     probe *first_probe, *prev_probe, *temp_probe;
      |            ^~~~~~~~~~~
run_vegaMC.c:535:30: warning: 'position' may be used uninitialized [-Wmaybe-uninitialized]
  535 |         temp_probe->position = position;
      |         ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~
run_vegaMC.c:498:20: note: 'position' was declared here
  498 |         int i = 0, position, chr;
      |                    ^~~~~~~~
run_vegaMC.c:534:32: warning: 'chr' may be used uninitialized [-Wmaybe-uninitialized]
  534 |         temp_probe->chromosome = chr;
      |         ~~~~~~~~~~~~~~~~~~~~~~~^~~~~
run_vegaMC.c:498:30: note: 'chr' was declared here
  498 |         int i = 0, position, chr;
      |                              ^~~
run_vegaMC.c: In function 'call_VegaMC':
run_vegaMC.c:435:32: warning: 'prev_seg' may be used uninitialized [-Wmaybe-uninitialized]
  435 |                 prev_seg->next = tmp;
      |                 ~~~~~~~~~~~~~~~^~~~~
run_vegaMC.c:373:30: note: 'prev_seg' was declared here
  373 |     seg_element *first_seg, *prev_seg;
      |                              ^~~~~~~~
run_vegaMC.c:461:29: warning: 'first_seg' may be used uninitialized [-Wmaybe-uninitialized]
  461 |         for (i = 0; i < (tmp->num_regions); i++) {
      |                         ~~~~^~~~~~~~~~~~~~
run_vegaMC.c:373:18: note: 'first_seg' was declared here
  373 |     seg_element *first_seg, *prev_seg;
      |                  ^~~~~~~~~
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 sort_data.c -o sort_data.o
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 vegaMC.c -o vegaMC.o
vegaMC.c: In function 'heap_delete':
vegaMC.c:235:10: warning: variable 'deleted' set but not used [-Wunused-but-set-variable]
  235 |     node deleted;
      |          ^~~~~~~
vegaMC.c: In function 'init_trivial_segmentation':
vegaMC.c:592:15: warning: variable 'index' set but not used [-Wunused-but-set-variable]
  592 |     int i, j, index;
      |               ^~~~~
gcc -shared -s -static-libgcc -o VegaMC.dll tmp.def run_vegaMC.o sort_data.o vegaMC.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/VegaMC.buildbin-libdir/00LOCK-VegaMC/00new/VegaMC/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 'VegaMC' as VegaMC_3.45.0.zip
* DONE (VegaMC)