Ruonan Li
| Snapshot Date: 2024-11-19 13:40 -0500 (Tue, 19 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/DeMixT |
| git_branch: RELEASE_3_20 |
| git_last_commit: 71bb355 |
| git_last_commit_date: 2024-10-29 10:35:52 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-11-20 12:07 -0500 (Wed, 20 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4481 |
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4479 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4359 |
| 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 541/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| DeMixT 1.22.0 (landing page) Ruonan Li
| 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 DeMixT package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DeMixT.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: DeMixT |
| Version: 1.22.0 |
| Command: /home/biocbuild/R/R/bin/R CMD INSTALL DeMixT |
| StartedAt: 2024-11-19 21:13:35 -0000 (Tue, 19 Nov 2024) |
| EndedAt: 2024-11-19 21:15:06 -0000 (Tue, 19 Nov 2024) |
| EllapsedTime: 91.2 seconds |
| RetCode: 0 |
| Status: OK |
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###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD INSTALL DeMixT
###
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* installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’
* installing *source* package ‘DeMixT’ ...
** using staged installation
** libs
using C compiler: ‘gcc (conda-forge gcc 14.2.0-1) 14.2.0’
using C++ compiler: ‘g++ (conda-forge gcc 14.2.0-1) 14.2.0’
gcc -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c DeMixT.c -o DeMixT.o
DeMixT.c: In function 'Tdemix':
DeMixT.c:37:45: warning: variable 'st2_sig_2' set but not used [-Wunused-but-set-variable]
37 | double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
| ^~~~~~~~~
DeMixT.c:37:33: warning: variable 'st1_sig_2' set but not used [-Wunused-but-set-variable]
37 | double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
| ^~~~~~~~~
DeMixT.c:37:22: warning: variable 'st2_mu_2' set but not used [-Wunused-but-set-variable]
37 | double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
| ^~~~~~~~
DeMixT.c:37:11: warning: variable 'st1_mu_2' set but not used [-Wunused-but-set-variable]
37 | double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
| ^~~~~~~~
DeMixT.c: In function 'gettumor':
DeMixT.c:591:21: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
591 | double obj_old, obj_new;
| ^~~~~~~
DeMixT.c:591:12: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
591 | double obj_old, obj_new;
| ^~~~~~~
DeMixT.c: In function 'getpi':
DeMixT.c:1280:21: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
1280 | double obj_old, obj_new;
| ^~~~~~~
DeMixT.c:1280:12: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
1280 | double obj_old, obj_new;
| ^~~~~~~
DeMixT.c: In function 'getspikeinpi':
DeMixT.c:1307:25: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
1307 | double obj_old, obj_new;
| ^~~~~~~
DeMixT.c:1307:16: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
1307 | double obj_old, obj_new;
| ^~~~~~~
DeMixT.c: In function 'getpiT':
DeMixT.c:1322:21: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
1322 | double obj_old, obj_new;
| ^~~~~~~
DeMixT.c:1322:12: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
1322 | double obj_old, obj_new;
| ^~~~~~~
DeMixT.c: In function 'Tdemix':
DeMixT.c:195:11: warning: 'Tavgtmp' may be used uninitialized [-Wmaybe-uninitialized]
195 | if(Tavgtmp <= 0) Tavgtmp = exp(10*log(2.0) + p->Tsigma[j]/2.0*pow(log(2.0), 2.0));
| ^
DeMixT.c:177:12: note: 'Tavgtmp' was declared here
177 | double Tavgtmp;
| ^~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Profile_2D.cpp -o Profile_2D.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
gcc -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c init.c -o init.o
gcc -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c registerDynamicSymbol.c -o registerDynamicSymbol.o
g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.4.1/lib -L/usr/local/lib -o DeMixT.so DeMixT.o Profile_2D.o RcppExports.o init.o registerDynamicSymbol.o -fopenmp -L/home/biocbuild/R/R-4.4.1/lib -lR
installing to /home/biocbuild/R/R-4.4.1/site-library/00LOCK-DeMixT/00new/DeMixT/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import ‘ggplot2::%+%’ by ‘psych::%+%’ when loading ‘DeMixT’
Warning: replacing previous import ‘SummarizedExperiment::distance’ by ‘psych::distance’ when loading ‘DeMixT’
Warning: replacing previous import ‘ggplot2::alpha’ by ‘psych::alpha’ when loading ‘DeMixT’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import ‘ggplot2::%+%’ by ‘psych::%+%’ when loading ‘DeMixT’
Warning: replacing previous import ‘SummarizedExperiment::distance’ by ‘psych::distance’ when loading ‘DeMixT’
Warning: replacing previous import ‘ggplot2::alpha’ by ‘psych::alpha’ when loading ‘DeMixT’
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
Warning: replacing previous import ‘ggplot2::%+%’ by ‘psych::%+%’ when loading ‘DeMixT’
Warning: replacing previous import ‘SummarizedExperiment::distance’ by ‘psych::distance’ when loading ‘DeMixT’
Warning: replacing previous import ‘ggplot2::alpha’ by ‘psych::alpha’ when loading ‘DeMixT’
** testing if installed package keeps a record of temporary installation path
* DONE (DeMixT)