Back to Mac ARM64 build report for BioC 3.19 |
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This page was generated on 2024-05-07 11:32:43 -0400 (Tue, 07 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4461 |
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 1767/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
RiboDiPA 1.12.0 (landing page) Ji-Ping Wang
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | ||||||||
To the developers/maintainers of the RiboDiPA package: - 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: RiboDiPA |
Version: 1.12.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RiboDiPA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RiboDiPA_1.12.0.tar.gz |
StartedAt: 2024-05-07 00:21:20 -0400 (Tue, 07 May 2024) |
EndedAt: 2024-05-07 00:25:16 -0400 (Tue, 07 May 2024) |
EllapsedTime: 236.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RiboDiPA.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RiboDiPA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RiboDiPA_1.12.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/RiboDiPA.Rcheck’ * using R version 4.4.0 (2024-04-24) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.6.5 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘RiboDiPA/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘RiboDiPA’ version ‘1.12.0’ * package encoding: UTF-8 * 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 for sufficient/correct file permissions ... OK * checking whether package ‘RiboDiPA’ can be installed ... OK * used C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ * used SDK: ‘MacOSX11.3.sdk’ * 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 ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE .pMappingChr: no visible global function definition for ‘pcoverageByTranscript’ Undefined global functions or variables: pcoverageByTranscript * 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 LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed PsiteMapping 8.420 0.108 36.895 binTrack 7.396 0.025 7.429 DataBinning 1.074 0.116 51.898 data.psite 0.610 0.043 27.151 * 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: 1 NOTE See ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/RiboDiPA.Rcheck/00check.log’ for details.
RiboDiPA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL RiboDiPA ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘RiboDiPA’ ... ** using staged installation ** libs using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ using SDK: ‘MacOSX11.3.sdk’ clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c centerCPP.cpp -o centerCPP.o clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o RiboDiPA.so RcppExports.o centerCPP.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-RiboDiPA/00new/RiboDiPA/libs ** R ** data *** moving datasets to lazyload DB ** 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 (RiboDiPA)
RiboDiPA.Rcheck/RiboDiPA-Ex.timings
name | user | system | elapsed | |
DataBinning | 1.074 | 0.116 | 51.898 | |
PsiteMapping | 8.420 | 0.108 | 36.895 | |
RiboDiPA | 0 | 0 | 0 | |
binTrack | 7.396 | 0.025 | 7.429 | |
bpTrack | 0.170 | 0.003 | 0.173 | |
data.binned | 0.971 | 0.047 | 1.018 | |
data.psite | 0.610 | 0.043 | 27.151 | |
diffPatternTest | 0.914 | 0.031 | 0.951 | |
diffPatternTestExon | 1.493 | 0.028 | 1.522 | |
exonTrack | 0.023 | 0.001 | 0.025 | |
normFactor | 0.002 | 0.001 | 0.003 | |
plotTest | 0.325 | 0.005 | 0.329 | |
plotTrack | 0.497 | 0.007 | 0.505 | |
psitecal | 0 | 0 | 0 | |
result.exon | 0.022 | 0.002 | 0.025 | |
result.pst | 0.540 | 0.027 | 0.568 | |