Back to Multiple platform build/check report for BioC 3.13
ABCDEFGHIJKLMNOPQRSTU[V]WXYZ

This page was generated on 2021-10-15 15:05:56 -0400 (Fri, 15 Oct 2021).

INSTALL results for VegaMC on nebbiolo1

To the developers/maintainers of the VegaMC package:
- Please 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 How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 2002/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
VegaMC 3.30.0  (landing page)
Sandro Morganella
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/VegaMC
git_branch: RELEASE_3_13
git_last_commit: 37e7f4f
git_last_commit_date: 2021-05-19 11:51:55 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: VegaMC
Version: 3.30.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL VegaMC
StartedAt: 2021-10-14 06:09:32 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 06:09:46 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 14.5 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL VegaMC
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘VegaMC’ ...
** using staged installation
** libs
gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -Wall -c run_vegaMC.c -o run_vegaMC.o
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:534:32: warning: ‘chr’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  534 |         temp_probe->chromosome = chr;
      |         ~~~~~~~~~~~~~~~~~~~~~~~^~~~~
run_vegaMC.c:535:30: warning: ‘position’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  535 |         temp_probe->position = position;
      |         ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~
run_vegaMC.c:564:14: warning: ‘first_probe’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  564 |     prev_chr = temp_probe->chromosome;
      |     ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
run_vegaMC.c: In function ‘call_VegaMC’:
run_vegaMC.c:466:38: warning: ‘first_seg’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  466 |             seg_chromosomes[j] = (tmp->chromosome) + 1;
      |                                  ~~~~^~~~~~~~~~~~~
run_vegaMC.c:435:32: warning: ‘prev_seg’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  435 |                 prev_seg->next = tmp;
      |                 ~~~~~~~~~~~~~~~^~~~~
gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -Wall -c sort_data.c -o sort_data.o
gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -Wall -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 -L/home/biocbuild/bbs-3.13-bioc/R/lib -L/usr/local/lib -o VegaMC.so run_vegaMC.o sort_data.o vegaMC.o -L/home/biocbuild/bbs-3.13-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-VegaMC/00new/VegaMC/libs
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (VegaMC)