Nicole Ortogero
| Snapshot Date: 2024-11-12 13:40 -0500 (Tue, 12 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/GeoDiff |
| git_branch: RELEASE_3_20 |
| git_last_commit: 7713c2b |
| git_last_commit_date: 2024-10-29 11:06:14 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-11-13 12:05 -0500 (Wed, 13 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" | 4505 |
| 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" | 4538 |
| 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 835/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GeoDiff 1.12.0 (landing page) Nicole Ortogero
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the GeoDiff package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GeoDiff.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: GeoDiff |
| Version: 1.12.0 |
| Command: /home/biocbuild/R/R/bin/R CMD INSTALL GeoDiff |
| StartedAt: 2024-11-12 21:34:38 -0000 (Tue, 12 Nov 2024) |
| EndedAt: 2024-11-12 21:37:04 -0000 (Tue, 12 Nov 2024) |
| EllapsedTime: 146.2 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### /home/biocbuild/R/R/bin/R CMD INSTALL GeoDiff
###
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* installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’
* installing *source* package ‘GeoDiff’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (conda-forge gcc 14.2.0-1) 14.2.0’
using C++11
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-4.4.1/site-library/roptim/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c NBthDEOptPara.cpp -o NBthDEOptPara.o
NBthDEOptPara.cpp: In member function 'virtual double NBthDE_paranll::operator()(const arma::vec&)':
NBthDEOptPara.cpp:34:9: warning: unused variable 'm' [-Wunused-variable]
34 | int m = y.n_elem;
| ^
NBthDEOptPara.cpp: In member function 'virtual void NBthDE_paranll::Gradient(const arma::vec&, arma::vec&)':
NBthDEOptPara.cpp:85:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
85 | for(int k = 0; k < y.n_elem; k++){
| ~~^~~~~~~~~~
NBthDEOptPara.cpp:58:9: warning: unused variable 'm' [-Wunused-variable]
58 | int m = y.n_elem;
| ^
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-4.4.1/site-library/roptim/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c NBthmDEGrad.cpp -o NBthmDEGrad.o
NBthmDEGrad.cpp: In function 'arma::vec NBthmDE_grad(arma::vec&, arma::mat&, arma::mat&, arma::vec&, arma::vec&, arma::vec&, arma::vec&, arma::mat&, double, double)':
NBthmDEGrad.cpp:34:20: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
34 | for(int i = 0; i < y.n_elem; i++){
| ~~^~~~~~~~~~
NBthmDEGrad.cpp: In function 'arma::mat NBthmDE_gradM(arma::vec&, arma::mat&, arma::mat&, arma::vec&, arma::mat&, arma::vec&, arma::vec&, arma::mat&, double, double)':
NBthmDEGrad.cpp:90:24: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
90 | for(int k = 0; k < y.n_elem; k++){
| ~~^~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-4.4.1/site-library/roptim/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c NBthmDEMH.cpp -o NBthmDEMH.o
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-4.4.1/site-library/roptim/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c NBthmDEOptPara.cpp -o NBthmDEOptPara.o
NBthmDEOptPara.cpp: In member function 'virtual void NBthmDE_fparanll::Gradient(const arma::vec&, arma::vec&)':
NBthmDEOptPara.cpp:107:24: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
107 | for(int k = 0; k < y.n_elem; k++){
| ~~^~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-4.4.1/site-library/roptim/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c NBthmDEOptU.cpp -o NBthmDEOptU.o
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-4.4.1/site-library/roptim/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c PoisthNormOptPara.cpp -o PoisthNormOptPara.o
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-4.4.1/site-library/roptim/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-4.4.1/site-library/roptim/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c dnbinom_mu_vec.cpp -o dnbinom_mu_vec.o
g++ -std=gnu++11 -shared -L/home/biocbuild/R/R-4.4.1/lib -L/usr/local/lib -o GeoDiff.so NBthDEOptPara.o NBthmDEGrad.o NBthmDEMH.o NBthmDEOptPara.o NBthmDEOptU.o PoisthNormOptPara.o RcppExports.o dnbinom_mu_vec.o -fopenmp -lopenblas -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-GeoDiff/00new/GeoDiff/libs
** R
** data
** 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 (GeoDiff)