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This page was generated on 2024-05-13 11:32:16 -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 |
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Package 2218/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
XINA 1.23.0 (landing page) Lang Ho Lee
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | NA | ||||||||
To the developers/maintainers of the XINA 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: XINA |
Version: 1.23.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:XINA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings XINA_1.23.0.tar.gz |
StartedAt: 2024-05-13 06:47:50 -0400 (Mon, 13 May 2024) |
EndedAt: 2024-05-13 06:50:02 -0400 (Mon, 13 May 2024) |
EllapsedTime: 132.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: XINA.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:XINA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings XINA_1.23.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc-mac-arm64/meat/XINA.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 ‘XINA/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘XINA’ version ‘1.23.0’ * 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 ‘XINA’ can be installed ... OK * 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed xina_clustering 30.314 0.239 30.668 plot_condition_compositions 13.549 0.070 13.777 mutate_colors 8.084 0.042 8.148 plot_clusters 7.725 0.039 7.788 get_condition_biased_comigrations 4.847 0.047 5.037 * 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: OK
XINA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL XINA ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘XINA’ ... ** using staged installation ** 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 (XINA)
XINA.Rcheck/XINA-Ex.timings
name | user | system | elapsed | |
alluvial_enriched | 2.381 | 0.047 | 2.491 | |
draw_alluvial_plot | 0.064 | 0.006 | 0.083 | |
get_comigrations_by_name | 0.046 | 0.003 | 0.049 | |
get_condition_biased_comigrations | 4.847 | 0.047 | 5.037 | |
get_unknown_ppi_nodes | 0.083 | 0.005 | 0.088 | |
load_previous_results | 0.866 | 0.024 | 0.893 | |
make_random_xina_data | 0.171 | 0.014 | 0.186 | |
mutate_colors | 8.084 | 0.042 | 8.148 | |
plot_clusters | 7.725 | 0.039 | 7.788 | |
plot_clusters_all | 1.517 | 0.022 | 1.542 | |
plot_condition_compositions | 13.549 | 0.070 | 13.777 | |
plot_enrichment_results | 0.000 | 0.000 | 0.001 | |
xina_analysis | 0.000 | 0.001 | 0.001 | |
xina_clustering | 30.314 | 0.239 | 30.668 | |
xina_enrichment | 0.000 | 0.001 | 0.001 | |
xina_plot_all | 3.394 | 0.229 | 3.650 | |
xina_plot_bycluster | 0.224 | 0.011 | 0.238 | |
xina_plot_single | 0.175 | 0.010 | 0.186 | |