Paul Theodor Pyl
| Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023) |
| git_url: https://git.bioconductor.org/packages/h5vc |
| git_branch: RELEASE_3_16 |
| git_last_commit: c234c80 |
| git_last_commit_date: 2022-11-01 11:08:58 -0400 (Tue, 01 Nov 2022) |
| Back to Multiple platform build/check report for BioC 3.16: simplified long |
|
This page was generated on 2023-04-12 11:05:36 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
| 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 h5vc package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/h5vc.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 887/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| h5vc 2.32.0 (landing page) Paul Theodor Pyl
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | ERROR | |||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| Package: h5vc |
| Version: 2.32.0 |
| Command: rm -rf h5vc.buildbin-libdir && mkdir h5vc.buildbin-libdir && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL --build --library=h5vc.buildbin-libdir h5vc_2.32.0.tar.gz |
| StartedAt: 2023-04-11 08:07:23 -0400 (Tue, 11 Apr 2023) |
| EndedAt: 2023-04-11 08:07:56 -0400 (Tue, 11 Apr 2023) |
| EllapsedTime: 32.6 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: h5vc_2.32.0.zip |
| PackageFileSize: 4.834 MiB |
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### Running command:
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### rm -rf h5vc.buildbin-libdir && mkdir h5vc.buildbin-libdir && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL --build --library=h5vc.buildbin-libdir h5vc_2.32.0.tar.gz
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* installing *source* package 'h5vc' ...
** using staged installation
** libs
gcc -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rhtslib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c bam_plbuf.c -o bam_plbuf.o
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rhtslib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tallyBAM.cpp -o tallyBAM.o
tallyBAM.cpp: In function 'int pileup_func_old(uint32_t, hts_pos_t, int, const bam_pileup1_t*, void*)':
tallyBAM.cpp:47:7: warning: unused variable 'len' [-Wunused-variable]
47 | int len = nttable->end - nttable->beg;
| ^~~
tallyBAM.cpp: In function 'int pileup_func(uint32_t, hts_pos_t, int, const bam_pileup1_t*, void*)':
tallyBAM.cpp:96:7: warning: unused variable 'len' [-Wunused-variable]
96 | int len = nttable->end - nttable->beg;
| ^~~
tallyBAM.cpp: In function 'int _tallyBAM(char**, char**, int*, int*, int*, int*, int*, int*, int*, int*)':
tallyBAM.cpp:140:6: warning: unused variable 'c' [-Wunused-variable]
140 | int c = 0;
| ^
tallyBAM.cpp: At global scope:
tallyBAM.cpp:43:12: warning: 'int pileup_func_old(uint32_t, hts_pos_t, int, const bam_pileup1_t*, void*)' defined but not used [-Wunused-function]
43 | static int pileup_func_old(uint32_t tid, hts_pos_t pos, int n, const bam_pileup1_t *pl, void *data)
| ^~~~~~~~~~~~~~~
g++ -std=gnu++14 -shared -s -static-libgcc -o h5vc.dll tmp.def bam_plbuf.o tallyBAM.o F:/biocbuild/bbs-3.16-bioc/R/library/Rhtslib/usrlib/x64/libhts.a -lz -lm -lbz2 -llzma -lcurl -lidn2 -lunistring -liconv -lssl -lcrypto -lcrypt32 -lwsock32 -lwldap32 -lssh2 -lgcrypt -lgpg-error -lws2_32 -lzstd -lregex -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.16-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.16-bioc/meat/h5vc.buildbin-libdir/00LOCK-h5vc/00new/h5vc/libs/x64
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'Biostrings::pattern' by 'grid::pattern' when loading 'h5vc'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import 'Biostrings::pattern' by 'grid::pattern' when loading 'h5vc'
** testing if installed package can be loaded from final location
Warning: replacing previous import 'Biostrings::pattern' by 'grid::pattern' when loading 'h5vc'
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'h5vc' as h5vc_2.32.0.zip
* DONE (h5vc)