Julius Muller
| Snapshot Date: 2023-11-01 14:05:06 -0400 (Wed, 01 Nov 2023) |
| git_url: https://git.bioconductor.org/packages/TransView |
| git_branch: RELEASE_3_18 |
| git_last_commit: 2a55784 |
| git_last_commit_date: 2023-10-24 09:51:41 -0400 (Tue, 24 Oct 2023) |
| Back to Multiple platform build/check report for BioC 3.18: simplified long |
|
This page was generated on 2023-11-02 11:41:23 -0400 (Thu, 02 Nov 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4729 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4463 |
| lconway | macOS 12.6.5 Monterey | x86_64 | 4.3.1 Patched (2023-06-17 r84564) -- "Beagle Scouts" | 4478 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.1 (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 2167/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| TransView 1.46.0 (landing page) Julius Muller
| nebbiolo2 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.6.5 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the TransView package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/TransView.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. |
| Package: TransView |
| Version: 1.46.0 |
| Command: /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL TransView |
| StartedAt: 2023-11-01 20:11:40 -0000 (Wed, 01 Nov 2023) |
| EndedAt: 2023-11-01 20:12:03 -0000 (Wed, 01 Nov 2023) |
| EllapsedTime: 22.6 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL TransView
###
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* installing to library ‘/home/biocbuild/R/R-4.3.1/site-library’
* installing *source* package ‘TransView’ ...
** using staged installation
** libs
using C compiler: ‘gcc (GCC) 10.3.1’
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -Wall -c R_init_TransView.c -o R_init_TransView.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -Wall -c bam_plbuf.c -o bam_plbuf.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -Wall -c bin_density.c -o bin_density.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -Wall -c construct_dc.c -o construct_dc.o
In file included from /home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include/htslib/hts.h:36,
from /home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include/htslib/sam.h:33,
from /home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include/samtools-1.7-compat.h:5,
from parse_sam.h:4,
from construct_dc.c:23:
/home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include/htslib/hts_log.h:75:1: warning: ‘Rprintf’ is an unrecognized format function type [-Wformat=]
75 | HTS_FORMAT(HTS_PRINTF_FMT, 3, 4);
| ^~~~~~~~~~
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -Wall -c parse_sam.c -o parse_sam.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -Wall -c slice_dc.c -o slice_dc.o
slice_dc.c: In function ‘slice_dc’:
slice_dc.c:179:5: warning: ‘slicep’ may be used uninitialized in this function [-Wmaybe-uninitialized]
179 | shrink(slicep,new_vecp,rebuildc,wsize,summarizep);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.1/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -Wall -c visuals.c -o visuals.o
gcc -shared -L/home/biocbuild/R/R-4.3.1/lib -L/usr/local/lib -o TransView.so R_init_TransView.o bam_plbuf.o bin_density.o construct_dc.o parse_sam.o slice_dc.o visuals.o /home/biocbuild/R/R-4.3.1/site-library/Rhtslib/usrlib/libhts.a -lcurl -L/home/biocbuild/R/R-4.3.1/lib -lR
installing to /home/biocbuild/R/R-4.3.1/site-library/00LOCK-TransView/00new/TransView/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 (TransView)