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 11:46 -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 537/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
DeMixT 1.21.1 (landing page) Ruonan Li
| 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 | ERROR | skipped | skipped | |||||||||
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 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: 1.21.1 |
Command: /home/biocbuild/R/R/bin/R CMD INSTALL DeMixT |
StartedAt: 2024-08-20 19:49:48 -0000 (Tue, 20 Aug 2024) |
EndedAt: 2024-08-20 19:51:11 -0000 (Tue, 20 Aug 2024) |
EllapsedTime: 82.6 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL DeMixT ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’ * installing *source* package ‘DeMixT’ ... ** using staged installation ** libs using C compiler: ‘gcc (GCC) 10.3.1’ using C++ compiler: ‘g++ (GCC) 10.3.1’ 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:1307:18: warning: variable ‘obj_new’ set but not used [-Wunused-but-set-variable] 1307 | double obj_old, obj_new; | ^~~~~~~ DeMixT.c:1307:9: 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 in this function [-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:240:8: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 240 | CD = calloc(intx ,sizeof(double *)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from DeMixT.c:8: /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ DeMixT.c:94:8: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 94 | FD = calloc(nS ,sizeof(double *)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from DeMixT.c:8: /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ 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)