David Henderson
| Snapshot Date: 2024-06-26 14:00 -0400 (Wed, 26 Jun 2024) |
| git_url: https://git.bioconductor.org/packages/GeneticsPed |
| git_branch: RELEASE_3_19 |
| git_last_commit: 59c71e1 |
| git_last_commit_date: 2024-04-30 10:16:44 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-06-28 17:41 -0400 (Fri, 28 Jun 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4760 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4494 |
| merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4508 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4466 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4362 |
| 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 819/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GeneticsPed 1.66.0 (landing page) David Henderson
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
|
To the developers/maintainers of the GeneticsPed package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GeneticsPed.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: GeneticsPed |
| Version: 1.66.0 |
| Command: F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL GeneticsPed |
| StartedAt: 2024-06-26 15:43:03 -0400 (Wed, 26 Jun 2024) |
| EndedAt: 2024-06-26 15:43:33 -0400 (Wed, 26 Jun 2024) |
| EllapsedTime: 30.1 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL GeneticsPed
###
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* installing to library 'F:/biocbuild/bbs-3.19-bioc/R/library'
* installing *source* package 'GeneticsPed' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 13.2.0'
using Fortran compiler: 'GNU Fortran (GCC) 13.2.0'
using C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ainverse.cc -o ainverse.o
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c eibd.cc -o eibd.o
gfortran -O2 -mfpmath=sse -msse2 -mstackrealign -c ggmatmult.f -o ggmatmult.o
gfortran -O2 -mfpmath=sse -msse2 -mstackrealign -c gpi.f -o gpi.o
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c inbreed.cc -o inbreed.o
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c inverseAdditive.cc -o inverseAdditive.o
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c meuwissen.cc -o meuwissen.o
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c pedSort.cc -o pedSort.o
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c pedtemplate.cc -o pedtemplate.o
pedtemplate.cc: In member function 'void Pedigree::ShowPed()':
pedtemplate.cc:373:15: warning: format '%d' expects argument of type 'int', but argument 2 has type '__gnu_cxx::__normal_iterator<TPed*, std::vector<TPed> >::difference_type' {aka 'long long int'} [-Wformat=]
373 | Rprintf("%d\t", p - pedigree.begin());
| ~^ ~~~~~~~~~~~~~~~~~~~~
| | |
| int __gnu_cxx::__normal_iterator<TPed*, std::vector<TPed> >::difference_type {aka long long int}
| %lld
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c register.cc -o register.o
gcc -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sargolzaei.c -o sargolzaei.o
sargolzaei.c: In function 'sargolzaei':
sargolzaei.c:52:32: warning: '*Ped[S][0]' may be used uninitialized [-Wmaybe-uninitialized]
52 | rPed[rN][0] = Link[Ped[S][0]];
| ~~~~~~^~~
sargolzaei.c:53:34: warning: '*Ped[D][1]' may be used uninitialized [-Wmaybe-uninitialized]
53 | rPed[rN++][1] = Link[Ped[D][1]];
| ~~~~~~^~~
sargolzaei.c:58:32: warning: '*Ped[D][0]' may be used uninitialized [-Wmaybe-uninitialized]
58 | rPed[rN][0] = Link[Ped[D][0]];
| ~~~~~~^~~
sargolzaei.c:59:34: warning: '*Ped[D][1]' may be used uninitialized [-Wmaybe-uninitialized]
59 | rPed[rN++][1] = Link[Ped[D][1]];
| ~~~~~~^~~
sargolzaei.c:72:20: warning: '*Ped[<unknown>][0]' may be used uninitialized [-Wmaybe-uninitialized]
72 | if(!Ped[SId[i]][0])
| ~~~~~~~~~~~^~~
sargolzaei.c:97:26: warning: '*Ped[<unknown>][0]' may be used uninitialized [-Wmaybe-uninitialized]
97 | if(S != Ped[SId[i]][0]) break;
| ~~~~~~~~~~~^~~
sargolzaei.c:98:42: warning: '*Ped[<unknown>][1]' may be used uninitialized [-Wmaybe-uninitialized]
98 | else F[SId[i]] = x[Link[Ped[SId[i]][1]]] * 0.5f;
| ~~~~~~~~~~~^~~
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sortped.cc -o sortped.o
g++ -std=gnu++17 -shared -s -static-libgcc -o GeneticsPed.dll tmp.def ainverse.o eibd.o ggmatmult.o gpi.o inbreed.o inverseAdditive.o meuwissen.o pedSort.o pedtemplate.o register.o sargolzaei.o sortped.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -lgfortran -lm -lquadmath -LF:/biocbuild/bbs-3.19-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.19-bioc/R/library/00LOCK-GeneticsPed/00new/GeneticsPed/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
* DONE (GeneticsPed)