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This page was generated on 2023-11-02 11:41:25 -0400 (Thu, 02 Nov 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4729
palomino4Windows Server 2022 Datacenterx644.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" 4463
lconwaymacOS 12.6.5 Montereyx86_644.3.1 Patched (2023-06-17 r84564) -- "Beagle Scouts" 4478
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.3.1 (2023-06-16) -- "Beagle Scouts" 4464
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 2224/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
VegaMC 3.40.0  (landing page)
Sandro Morganella
Snapshot Date: 2023-11-01 14:05:06 -0400 (Wed, 01 Nov 2023)
git_url: https://git.bioconductor.org/packages/VegaMC
git_branch: RELEASE_3_18
git_last_commit: 3f264cc
git_last_commit_date: 2023-10-24 09:49:47 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.6.5 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    WARNINGS  

INSTALL results for VegaMC on kunpeng2


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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: VegaMC
Version: 3.40.0
Command: /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL VegaMC
StartedAt: 2023-11-01 20:24:59 -0000 (Wed, 01 Nov 2023)
EndedAt: 2023-11-01 20:25:22 -0000 (Wed, 01 Nov 2023)
EllapsedTime: 22.7 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL VegaMC
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.3.1/site-library’
* installing *source* package ‘VegaMC’ ...
** using staged installation
** libs
using C compiler: ‘gcc (GCC) 10.3.1’
gcc -I"/home/biocbuild/R/R-4.3.1/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/R/R-4.3.1/include" -DNDEBUG   -I/usr/local/include    -fPIC  -g -O2  -Wall -c sort_data.c -o sort_data.o
gcc -I"/home/biocbuild/R/R-4.3.1/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/R/R-4.3.1/lib -L/usr/local/lib -o VegaMC.so run_vegaMC.o sort_data.o vegaMC.o -L/home/biocbuild/R/R-4.3.1/lib -lR
installing to /home/biocbuild/R/R-4.3.1/site-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)