| Back to Build/check report for BioC 3.18: simplified long |
|
This page was generated on 2023-05-26 06:18:14 -0000 (Fri, 26 May 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.0 (2023-04-21) -- "Already Tomorrow" | 4254 |
| 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 | ||||
|
To the developers/maintainers of the QuasR package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/QuasR.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 1583/2197 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| QuasR 1.41.0 (landing page) Michael Stadler
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | ERROR | skipped | |||||||||
| Package: QuasR |
| Version: 1.41.0 |
| Command: /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL QuasR |
| StartedAt: 2023-05-25 19:26:54 -0000 (Thu, 25 May 2023) |
| EndedAt: 2023-05-25 19:28:22 -0000 (Thu, 25 May 2023) |
| EllapsedTime: 88.1 seconds |
| RetCode: 0 |
| Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL QuasR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.3.0/site-library’ * installing *source* package ‘QuasR’ ... ** using staged installation ** libs using C compiler: ‘gcc (GCC) 10.3.1’ using C++ compiler: ‘g++ (GCC) 10.3.1’ g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c R_init_QuasR.cpp -o R_init_QuasR.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c bam_cat.c -o bam_cat.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c bam_plbuf.c -o bam_plbuf.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c cat_bam.c -o cat_bam.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c convert_reads_id_bis_rc.c -o convert_reads_id_bis_rc.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c count_alignments.c -o count_alignments.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c count_alignments_subregions.c -o count_alignments_subregions.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c count_junctions.cpp -o count_junctions.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c export_wig.c -o export_wig.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c extract_unmapped_reads.c -o extract_unmapped_reads.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c filter_hisat2.c -o filter_hisat2.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c idxstats_bam.c -o idxstats_bam.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c merge_reorder_sam.cpp -o merge_reorder_sam.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c nucleotide_alignment_frequencies.c -o nucleotide_alignment_frequencies.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c profile_alignments.c -o profile_alignments.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c quantify_methylation.cpp -o quantify_methylation.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c remove_unmapped_from_sam.c -o remove_unmapped_from_sam.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c sam_opts.c -o sam_opts.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c sam_utils.c -o sam_utils.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c split_sam_chr.c -o split_sam_chr.o gcc -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-4.3.0/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -c utilities.c -o utilities.o g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.3.0/lib -L/usr/local/lib -o QuasR.so R_init_QuasR.o bam_cat.o bam_plbuf.o cat_bam.o convert_reads_id_bis_rc.o count_alignments.o count_alignments_subregions.o count_junctions.o export_wig.o extract_unmapped_reads.o filter_hisat2.o idxstats_bam.o merge_reorder_sam.o nucleotide_alignment_frequencies.o profile_alignments.o quantify_methylation.o remove_unmapped_from_sam.o sam_opts.o sam_utils.o split_sam_chr.o utilities.o /home/biocbuild/R/R-4.3.0/site-library/Rhtslib/usrlib/libhts.a -lcurl -L/home/biocbuild/R/R-4.3.0/lib -lR installing to /home/biocbuild/R/R-4.3.0/site-library/00LOCK-QuasR/00new/QuasR/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 (QuasR)