David Henderson
| Snapshot Date: 2024-11-04 13:40 -0500 (Mon, 04 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/GeneticsPed |
| git_branch: RELEASE_3_20 |
| git_last_commit: 7af2cb6 |
| git_last_commit_date: 2024-10-29 09:27:45 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-11-05 12:08 -0500 (Tue, 05 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4503 |
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4763 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4506 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4539 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4493 |
| 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 809/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GeneticsPed 1.68.0 (landing page) David Henderson
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| nebbiolo2 | Linux (Ubuntu 24.04.1 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 | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: GeneticsPed |
| Version: 1.68.0 |
| Command: /home/biocbuild/R/R/bin/R CMD INSTALL GeneticsPed |
| StartedAt: 2024-11-04 20:36:29 -0000 (Mon, 04 Nov 2024) |
| EndedAt: 2024-11-04 20:37:06 -0000 (Mon, 04 Nov 2024) |
| EllapsedTime: 36.3 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### /home/biocbuild/R/R/bin/R CMD INSTALL GeneticsPed
###
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* installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’
* installing *source* package ‘GeneticsPed’ ...
** using staged installation
** libs
using C compiler: ‘gcc (conda-forge gcc 14.2.0-1) 14.2.0’
using Fortran compiler: ‘GNU Fortran (GCC) 10.3.1’
using C++ compiler: ‘g++ (conda-forge gcc 14.2.0-1) 14.2.0’
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -c ainverse.cc -o ainverse.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -c eibd.cc -o eibd.o
gfortran -fPIC -g -O2 -Wall -c ggmatmult.f -o ggmatmult.o
gfortran -fPIC -g -O2 -Wall -c gpi.f -o gpi.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -c inbreed.cc -o inbreed.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -c inverseAdditive.cc -o inverseAdditive.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -c meuwissen.cc -o meuwissen.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -c pedSort.cc -o pedSort.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -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 int'} [-Wformat=]
373 | Rprintf("%d\t", p - pedigree.begin());
| ~^ ~~~~~~~~~~~~~~~~~~~~
| | |
| int __gnu_cxx::__normal_iterator<TPed*, std::vector<TPed> >::difference_type {aka long int}
| %ld
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -c register.cc -o register.o
gcc -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -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]];
| ~~~~~~^~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -c sortped.cc -o sortped.o
g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.4.1/lib -L/usr/local/lib -o GeneticsPed.so ainverse.o eibd.o ggmatmult.o gpi.o inbreed.o inverseAdditive.o meuwissen.o pedSort.o pedtemplate.o register.o sargolzaei.o sortped.o -L/usr/lib/gcc/aarch64-linux-gnu/10.3.1 -lgfortran -lm -L/home/biocbuild/R/R-4.4.1/lib -lR
installing to /home/biocbuild/R/R-4.4.1/site-library/00LOCK-GeneticsPed/00new/GeneticsPed/libs
** 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
** 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 (GeneticsPed)