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This page was generated on 2024-05-13 11:32:06 -0400 (Mon, 13 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4378 |
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 1047/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
IVAS 2.25.0 (landing page) Seonggyun Han
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | ||||||||
To the developers/maintainers of the IVAS 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: IVAS |
Version: 2.25.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:IVAS.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings IVAS_2.25.0.tar.gz |
StartedAt: 2024-05-12 17:30:35 -0400 (Sun, 12 May 2024) |
EndedAt: 2024-05-12 17:36:03 -0400 (Sun, 12 May 2024) |
EllapsedTime: 327.4 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: IVAS.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:IVAS.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings IVAS_2.25.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc-mac-arm64/meat/IVAS.Rcheck’ * using R version 4.4.0 Patched (2024-04-24 r86482) * 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 13.6.6 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘IVAS/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘IVAS’ version ‘2.25.0’ * 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 for sufficient/correct file permissions ... OK * checking whether package ‘IVAS’ can be installed ... WARNING Found the following significant warnings: Note: next used in wrong context: no loop is visible See ‘/Users/biocbuild/bbs-3.20-bioc-mac-arm64/meat/IVAS.Rcheck/00install.out’ for details. Information on the location(s) of code generating the ‘Note’s can be obtained by re-running with environment variable R_KEEP_PKG_SOURCE set to ‘yes’. * 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 ... 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 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 saveBplot 12.562 0.086 12.655 ASdb-class 10.629 0.138 10.818 sQTLsFinder 10.208 0.104 10.330 RatioFromFPKM 6.150 0.076 6.233 CalSigSNP 5.171 0.051 5.227 * 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 WARNING See ‘/Users/biocbuild/bbs-3.20-bioc-mac-arm64/meat/IVAS.Rcheck/00check.log’ for details.
IVAS.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL IVAS ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘IVAS’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading Note: next used in wrong context: no loop is visible ** 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 (IVAS)
IVAS.Rcheck/IVAS-Ex.timings
name | user | system | elapsed | |
ASdb-class | 10.629 | 0.138 | 10.818 | |
CalSigSNP | 5.171 | 0.051 | 5.227 | |
RatioFromFPKM | 6.150 | 0.076 | 6.233 | |
Splicingfinder | 3.708 | 0.029 | 3.738 | |
chrseparate | 0.082 | 0.002 | 0.084 | |
findAlternative | 0.521 | 0.009 | 0.530 | |
findOversnp | 0.512 | 0.012 | 0.526 | |
sQTLsFinder | 10.208 | 0.104 | 10.330 | |
sampleexp | 0.005 | 0.003 | 0.007 | |
samplesnp | 0.002 | 0.003 | 0.004 | |
samplesnplocus | 0.001 | 0.003 | 0.004 | |
saveBplot | 12.562 | 0.086 | 12.655 | |