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This page was generated on 2024-05-20 11:32:22 -0400 (Mon, 20 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4381 |
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 2141/2233 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
TRESS 1.11.0 (landing page) Zhenxing Guo
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | ||||||||
To the developers/maintainers of the TRESS 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: TRESS |
Version: 1.11.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:TRESS.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings TRESS_1.11.0.tar.gz |
StartedAt: 2024-05-20 05:43:21 -0400 (Mon, 20 May 2024) |
EndedAt: 2024-05-20 05:48:38 -0400 (Mon, 20 May 2024) |
EllapsedTime: 317.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: TRESS.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:TRESS.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings TRESS_1.11.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc-mac-arm64/meat/TRESS.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 ‘TRESS/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘TRESS’ version ‘1.11.0’ * 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 ‘TRESS’ can be installed ... OK * checking installed package size ... OK * checking package 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 ... NOTE checkRd: (-1) CallCandidates.Rd:61: Escaped LaTeX specials: \& checkRd: (-1) CallCandidates.Rd:63: Escaped LaTeX specials: \& checkRd: (-1) CallPeaks.multiRep.Rd:7: Escaped LaTeX specials: \& checkRd: (-1) CallPeaks.paramEsti.Rd:10: Escaped LaTeX specials: \& checkRd: (-1) CallPeaks.paramEsti.Rd:23: Escaped LaTeX specials: \& checkRd: (-1) findBumps.Rd:8: Escaped LaTeX specials: \& * 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 examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed TRESS_DMRtest 23.795 1.620 13.735 CallDMRs.paramEsti 22.805 2.460 17.041 CoefName 20.004 1.981 16.886 DMRInfer 9.471 1.051 0.286 CallPeaks.multiRep 7.159 0.878 1.889 * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/Users/biocbuild/bbs-3.20-bioc-mac-arm64/meat/TRESS.Rcheck/00check.log’ for details.
TRESS.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL TRESS ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘TRESS’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** 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 (TRESS)
TRESS.Rcheck/TRESS-Ex.timings
name | user | system | elapsed | |
CallCandidates | 1.947 | 0.129 | 2.085 | |
CallDMRs.paramEsti | 22.805 | 2.460 | 17.041 | |
CallPeaks.multiRep | 7.159 | 0.878 | 1.889 | |
CallPeaks.oneRep | 0.081 | 0.025 | 0.106 | |
CallPeaks.paramEsti | 2.654 | 0.220 | 2.889 | |
CoefName | 20.004 | 1.981 | 16.886 | |
DMRInfer | 9.471 | 1.051 | 0.286 | |
DivideBins | 0 | 0 | 0 | |
ShowOnePeak | 0.229 | 0.062 | 0.294 | |
TRESS_DMRfit | 0.000 | 0.001 | 0.001 | |
TRESS_DMRtest | 23.795 | 1.620 | 13.735 | |
TRESS_peak | 0.000 | 0.001 | 0.001 | |
filterRegions | 0.010 | 0.008 | 0.018 | |
findBumps | 0.056 | 0.050 | 0.108 | |
meRatio | 0.020 | 0.006 | 0.026 | |