Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-21 11:41 -0400 (Wed, 21 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4414 |
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 922/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
hapFabia 1.47.0 (landing page) Andreas Mitterecker
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | WARNINGS | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
To the developers/maintainers of the hapFabia package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/hapFabia.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: hapFabia |
Version: 1.47.0 |
Command: rm -rf hapFabia.buildbin-libdir && mkdir hapFabia.buildbin-libdir && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=hapFabia.buildbin-libdir hapFabia_1.47.0.tar.gz |
StartedAt: 2024-08-21 07:25:14 -0400 (Wed, 21 Aug 2024) |
EndedAt: 2024-08-21 07:26:30 -0400 (Wed, 21 Aug 2024) |
EllapsedTime: 75.3 seconds |
RetCode: 0 |
Status: OK |
PackageFile: hapFabia_1.47.0.zip |
PackageFileSize: 1.725 MiB |
############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf hapFabia.buildbin-libdir && mkdir hapFabia.buildbin-libdir && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=hapFabia.buildbin-libdir hapFabia_1.47.0.tar.gz ### ############################################################################## ############################################################################## * installing *source* package 'hapFabia' ... ** using staged installation ** libs using C compiler: 'gcc.exe (GCC) 13.2.0' gcc -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c interfaceR.c -o interfaceR.o gcc -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c split_sparse_matrixB.c -o split_sparse_matrixB.o gcc -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c vcftoFABIAB.c -o vcftoFABIAB.o vcftoFABIAB.c: In function 'getdelimS': vcftoFABIAB.c:50:7: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 50 | if (ch == EOF) | ^~ vcftoFABIAB.c:54:10: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 54 | while (idx > *linebufsz - 2) { | ^~~~~ vcftoFABIAB.c: In function 'vcftoFABIAB': vcftoFABIAB.c:394:19: warning: 'strncat' output may be truncated copying 19 bytes from a string of length 1999 [-Wstringop-truncation] 394 | strncat(format[j],Iformat,19); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ vcftoFABIAB.c:382:19: warning: 'strncat' output may be truncated copying 190 bytes from a string of length 19999 [-Wstringop-truncation] 382 | strncat(info[j],Iinfo,190); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ vcftoFABIAB.c:372:19: warning: 'strncat' output may be truncated copying 19 bytes from a string of length 1999 [-Wstringop-truncation] 372 | strncat(filter[j],Ifilter,19); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ vcftoFABIAB.c:362:19: warning: 'strncat' output may be truncated copying 19 bytes from a string of length 1999 [-Wstringop-truncation] 362 | strncat(qual[j],Iqual,19); | ^~~~~~~~~~~~~~~~~~~~~~~~~ vcftoFABIAB.c:352:19: warning: 'strncat' output may be truncated copying 190 bytes from a string of length 1999999 [-Wstringop-truncation] 352 | strncat(minor[j],Iminor,190); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ vcftoFABIAB.c:342:19: warning: 'strncat' output may be truncated copying 190 bytes from a string of length 1999999 [-Wstringop-truncation] 342 | strncat(major[j],Imajor,190); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ vcftoFABIAB.c:332:19: warning: 'strncat' output may be truncated copying 49 bytes from a string of length 4999 [-Wstringop-truncation] 332 | strncat(snpName[j],IsnpName,49); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ vcftoFABIAB.c:250:21: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 250 | snpName[0] = calloc((long) 50*snps, sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from vcftoFABIAB.c:2: C:/rtools44/x86_64-w64-mingw32.static.posix/include/stdlib.h:536:17: note: in a call to allocation function 'calloc' declared here 536 | void *__cdecl calloc(size_t _NumOfElements,size_t _SizeOfElements); | ^~~~~~ vcftoFABIAB.c:258:20: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 258 | filter[0] = calloc((long) 20*snps, sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ C:/rtools44/x86_64-w64-mingw32.static.posix/include/stdlib.h:536:17: note: in a call to allocation function 'calloc' declared here 536 | void *__cdecl calloc(size_t _NumOfElements,size_t _SizeOfElements); | ^~~~~~ vcftoFABIAB.c:266:18: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 266 | qual[0] = calloc((long) 20*snps, sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ C:/rtools44/x86_64-w64-mingw32.static.posix/include/stdlib.h:536:17: note: in a call to allocation function 'calloc' declared here 536 | void *__cdecl calloc(size_t _NumOfElements,size_t _SizeOfElements); | ^~~~~~ vcftoFABIAB.c:281:20: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 281 | format[0] = calloc((long) 20*snps, sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ C:/rtools44/x86_64-w64-mingw32.static.posix/include/stdlib.h:536:17: note: in a call to allocation function 'calloc' declared here 536 | void *__cdecl calloc(size_t _NumOfElements,size_t _SizeOfElements); | ^~~~~~ gcc -shared -s -static-libgcc -o hapFabia.dll tmp.def interfaceR.o split_sparse_matrixB.o vcftoFABIAB.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR installing to F:/biocbuild/bbs-3.20-bioc/meat/hapFabia.buildbin-libdir/00LOCK-hapFabia/00new/hapFabia/libs/x64 ** R ** data ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * MD5 sums packaged installation of 'hapFabia' as hapFabia_1.47.0.zip * DONE (hapFabia)