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 11:40 -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 122/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
BAGS 2.45.0 (landing page) Alejandro Quiroz-Zarate
| nebbiolo2 | Linux (Ubuntu 22.04.3 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 | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the BAGS package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BAGS.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: BAGS |
Version: 2.45.0 |
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:BAGS.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings BAGS_2.45.0.tar.gz |
StartedAt: 2024-08-20 22:26:10 -0400 (Tue, 20 Aug 2024) |
EndedAt: 2024-08-20 22:27:35 -0400 (Tue, 20 Aug 2024) |
EllapsedTime: 84.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: BAGS.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:BAGS.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings BAGS_2.45.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/BAGS.Rcheck' * using R version 4.4.1 (2024-06-14 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'BAGS/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'BAGS' version '2.45.0' * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'BAGS' can be installed ... OK * used C compiler: 'gcc.exe (GCC) 13.2.0' * checking installed package size ... OK * checking package directory ... OK * checking 'build' directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking dependencies in R code ... NOTE Package in Depends field not imported from: 'Biobase' These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking contents of 'data' directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files for x64 is not available File 'F:/biocbuild/bbs-3.20-bioc/R/library/BAGS/libs/x64/BAGS.dll': Found '_exit', possibly from '_exit' (C) Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran) Compiled code should not call entry points which might terminate R nor write to stdout/stderr instead of to the console, nor use Fortran I/O nor system RNGs nor [v]sprintf. The detected symbols are linked into the code but might come from libraries and not actually be called. See 'Writing portable packages' in the 'Writing R Extensions' manual. * checking sizes of PDF files under 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed Gibbs2 20.00 1.70 21.70 MCMCDataSet 12.02 1.40 13.42 DataGeneSets 11.09 1.22 12.65 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See 'F:/biocbuild/bbs-3.20-bioc/meat/BAGS.Rcheck/00check.log' for details.
BAGS.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL BAGS ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library' * installing *source* package 'BAGS' ... ** using staged installation ** libs using C compiler: 'gcc.exe (GCC) 13.2.0' gcc -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c BAGS.c -o BAGS.o In file included from BAGS.c:8: FuncionesFast-Final.h: In function 'BetaFunCSDiff2': FuncionesFast-Final.h:145:70: warning: unused variable 'YMu1' [-Wunused-variable] 145 | double media1,media,varianza1,varianza,resultado,varaux0,varaux1,YMu1; | ^~~~ FuncionesFast-Final.h: In function 'AlfaFunCS': FuncionesFast-Final.h:166:105: warning: unused variable 'MediaDiff' [-Wunused-variable] 166 | double CSiDiff,CNoDiff,Cest,Mu,aux1,aux4,suma,zuma,cons,rznLog,rzn,prob,alea,resultado,C,A,varianza,MediaDiff; | ^~~~~~~~~ FuncionesFast-Final.h:166:94: warning: unused variable 'A' [-Wunused-variable] 166 | double CSiDiff,CNoDiff,Cest,Mu,aux1,aux4,suma,zuma,cons,rznLog,rzn,prob,alea,resultado,C,A,varianza,MediaDiff; | ^ FuncionesFast-Final.h:166:92: warning: unused variable 'C' [-Wunused-variable] 166 | double CSiDiff,CNoDiff,Cest,Mu,aux1,aux4,suma,zuma,cons,rznLog,rzn,prob,alea,resultado,C,A,varianza,MediaDiff; | ^ BAGS.c: In function 'Gibbs5': BAGS.c:25:48: warning: unused variable 'resI' [-Wunused-variable] 25 | double escala1,escala2,escala3,escala,rate,resI; | ^~~~ BAGS.c:25:43: warning: unused variable 'rate' [-Wunused-variable] 25 | double escala1,escala2,escala3,escala,rate,resI; | ^~~~ BAGS.c:25:36: warning: unused variable 'escala' [-Wunused-variable] 25 | double escala1,escala2,escala3,escala,rate,resI; | ^~~~~~ BAGS.c:25:28: warning: unused variable 'escala3' [-Wunused-variable] 25 | double escala1,escala2,escala3,escala,rate,resI; | ^~~~~~~ BAGS.c:25:20: warning: unused variable 'escala2' [-Wunused-variable] 25 | double escala1,escala2,escala3,escala,rate,resI; | ^~~~~~~ BAGS.c:25:12: warning: unused variable 'escala1' [-Wunused-variable] 25 | double escala1,escala2,escala3,escala,rate,resI; | ^~~~~~~ BAGS.c:24:12: warning: unused variable 'formaAux' [-Wunused-variable] 24 | double formaAux; | ^~~~~~~~ BAGS.c:18:80: warning: variable 'ResSgmA' set but not used [-Wunused-but-set-variable] 18 | double ResRho1,ResRho2,ResRho3,ResRho4,ResSgmA1,ResSgmA2,ResSgmA3,ResSgmA4,ResSgmA; | ^~~~~~~ BAGS.c:15:15: warning: variable 'AaPi' set but not used [-Wunused-but-set-variable] 15 | double Mm,AaPi,Ade,Ss,Rr,c0,prob,alea,forma1,forma2,shape1,shape2; | ^~~~ BAGS.c: In function 'Gibbs4': BAGS.c:342:48: warning: unused variable 'resI' [-Wunused-variable] 342 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~ BAGS.c:342:43: warning: unused variable 'rate' [-Wunused-variable] 342 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~ BAGS.c:342:36: warning: unused variable 'escala' [-Wunused-variable] 342 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~ BAGS.c:342:28: warning: unused variable 'escala3' [-Wunused-variable] 342 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~~ BAGS.c:342:20: warning: unused variable 'escala2' [-Wunused-variable] 342 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~~ BAGS.c:342:12: warning: unused variable 'escala1' [-Wunused-variable] 342 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~~ BAGS.c:341:12: warning: unused variable 'formaAux' [-Wunused-variable] 341 | double formaAux; | ^~~~~~~~ BAGS.c:335:63: warning: variable 'ResSgmA' set but not used [-Wunused-but-set-variable] 335 | double ResRho1,ResRho2,ResRho3,ResSgmA1,ResSgmA2,ResSgmA3,ResSgmA; | ^~~~~~~ BAGS.c:332:15: warning: variable 'AaPi' set but not used [-Wunused-but-set-variable] 332 | double Mm,AaPi,Ade,Ss,Rr,c0,prob,alea,forma1,forma2,shape1,shape2; | ^~~~ BAGS.c: In function 'Gibbs3': BAGS.c:593:48: warning: unused variable 'resI' [-Wunused-variable] 593 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~ BAGS.c:593:43: warning: unused variable 'rate' [-Wunused-variable] 593 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~ BAGS.c:593:36: warning: unused variable 'escala' [-Wunused-variable] 593 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~ BAGS.c:593:28: warning: unused variable 'escala3' [-Wunused-variable] 593 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~~ BAGS.c:593:20: warning: unused variable 'escala2' [-Wunused-variable] 593 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~~ BAGS.c:593:12: warning: unused variable 'escala1' [-Wunused-variable] 593 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~~ BAGS.c:592:12: warning: unused variable 'formaAux' [-Wunused-variable] 592 | double formaAux; | ^~~~~~~~ BAGS.c:586:46: warning: variable 'ResSgmA' set but not used [-Wunused-but-set-variable] 586 | double ResRho1,ResRho2,ResSgmA1,ResSgmA2,ResSgmA; | ^~~~~~~ BAGS.c:583:15: warning: variable 'AaPi' set but not used [-Wunused-but-set-variable] 583 | double Mm,AaPi,Ade,Ss,Rr,c0,prob,alea,forma1,forma2,shape1,shape2; | ^~~~ BAGS.c: In function 'Gibbs2': BAGS.c:786:48: warning: unused variable 'resI' [-Wunused-variable] 786 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~ BAGS.c:786:43: warning: unused variable 'rate' [-Wunused-variable] 786 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~ BAGS.c:786:36: warning: unused variable 'escala' [-Wunused-variable] 786 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~ BAGS.c:786:28: warning: unused variable 'escala3' [-Wunused-variable] 786 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~~ BAGS.c:786:20: warning: unused variable 'escala2' [-Wunused-variable] 786 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~~ BAGS.c:786:12: warning: unused variable 'escala1' [-Wunused-variable] 786 | double escala1,escala2,escala3,escala,rate,resI; // Aqui tengo duda | ^~~~~~~ BAGS.c:785:12: warning: unused variable 'formaAux' [-Wunused-variable] 785 | double formaAux; | ^~~~~~~~ BAGS.c:779:29: warning: variable 'ResSgmA' set but not used [-Wunused-but-set-variable] 779 | double ResRho1,ResSgmA1,ResSgmA; | ^~~~~~~ BAGS.c:776:15: warning: variable 'AaPi' set but not used [-Wunused-but-set-variable] 776 | double Mm,AaPi,Ade,Ss,Rr,c0,prob,alea,forma1,forma2,shape1,shape2; | ^~~~ gcc -shared -s -static-libgcc -o BAGS.dll tmp.def BAGS.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR installing to F:/biocbuild/bbs-3.20-bioc/R/library/00LOCK-BAGS/00new/BAGS/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 (BAGS)
BAGS.Rcheck/BAGS-Ex.timings
name | user | system | elapsed | |
AnnotationMFGO | 0.04 | 0.00 | 0.03 | |
BAGS-package | 0 | 0 | 0 | |
DataGeneSets | 11.09 | 1.22 | 12.65 | |
Gibbs2 | 20.0 | 1.7 | 21.7 | |
Gibbs3 | 0 | 0 | 0 | |
Gibbs4 | 0 | 0 | 0 | |
Gibbs5 | 0 | 0 | 0 | |
MCMCDataSet | 12.02 | 1.40 | 13.42 | |
ReadGMT | 0.00 | 0.02 | 0.02 | |