Mike Smith
| Snapshot Date: 2024-12-22 13:40 -0500 (Sun, 22 Dec 2024) |
| git_url: https://git.bioconductor.org/packages/rhdf5 |
| git_branch: devel |
| git_last_commit: 5bf9a52 |
| git_last_commit_date: 2024-12-09 07:42:52 -0500 (Mon, 09 Dec 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-12-23 11:42 -0500 (Mon, 23 Dec 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4372 |
| 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 1729/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| rhdf5 2.51.1 (landing page) Mike Smith
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the rhdf5 package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rhdf5.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. |
| Package: rhdf5 |
| Version: 2.51.1 |
| Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL rhdf5 |
| StartedAt: 2024-12-22 15:20:54 -0500 (Sun, 22 Dec 2024) |
| EndedAt: 2024-12-22 15:22:28 -0500 (Sun, 22 Dec 2024) |
| EllapsedTime: 93.7 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL rhdf5
###
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* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'rhdf5' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 13.3.0'
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5.c -o H5.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5A.c -o H5A.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5D.c -o H5D.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5E.c -o H5E.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5F.c -o H5F.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5G.c -o H5G.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5I.c -o H5I.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5L.c -o H5L.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5O.c -o H5O.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5P.c -o H5P.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5PL.c -o H5PL.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5R.c -o H5R.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5S.c -o H5S.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5S_extras.c -o H5S_extras.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5T.c -o H5T.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5T_extras.c -o H5T_extras.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5Z.c -o H5Z.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c H5constants.c -o H5constants.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c HandleList.cpp -o HandleList.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c HandleListWrap.c -o HandleListWrap.o
HandleListWrap.c: In function '_h5listOpenObjects':
HandleListWrap.c:151:16: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'ssize_t' {aka 'long long int'} [-Wformat=]
151 | Rprintf("%ld object(s) open\n", count);
| ~~^ ~~~~~
| | |
| long int ssize_t {aka long long int}
| %lld
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c bit64conversion.c -o bit64conversion.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c external_filters.c -o external_filters.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5dump.c -o h5dump.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5ls.c -o h5ls.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5testLock.c -o h5testLock.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5writeDataFrame.c -o h5writeDataFrame.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c printdatatype.c -o printdatatype.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c utils.c -o utils.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -D__USE_MINGW_ANSI_STDIO -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c wrap.c -o wrap.o
g++ -std=gnu++17 -shared -s -static-libgcc -o rhdf5.dll tmp.def H5.o H5A.o H5D.o H5E.o H5F.o H5G.o H5I.o H5L.o H5O.o H5P.o H5PL.o H5R.o H5S.o H5S_extras.o H5T.o H5T_extras.o H5Z.o H5constants.o HandleList.o HandleListWrap.o bit64conversion.o external_filters.o h5dump.o h5ls.o h5testLock.o h5writeDataFrame.o printdatatype.o utils.o wrap.o -LE:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/lib/x64-ucrt -lhdf5 -lcurl -lssh2 -lssl -lcrypto -lwldap32 -lws2_32 -lcrypt32 -lsz -laec -lz -lpsapi -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-rhdf5/00new/rhdf5/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rhdf5)