Alvaro Cuadros-Inostroza
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/TargetSearch |
| Branch: RELEASE_3_11 |
| Last Commit: 37b5221 |
| Last Changed Date: 2020-04-27 14:19:20 -0400 (Mon, 27 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:59:46 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE TargetSearch PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1780/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| TargetSearch 1.44.0 Alvaro Cuadros-Inostroza
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | NA | |||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | [ OK ] | OK | |
| Package: TargetSearch |
| Version: 1.44.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:TargetSearch.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings TargetSearch_1.44.0.tar.gz |
| StartedAt: 2020-10-17 05:49:16 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 05:50:51 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 95.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: TargetSearch.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:TargetSearch.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings TargetSearch_1.44.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/TargetSearch.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘TargetSearch/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘TargetSearch’ version ‘1.44.0’
* 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 ‘TargetSearch’ 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 R 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
RIcorrect 17.67 1.427 19.282
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... 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-3.11-bioc/meat/TargetSearch.Rcheck/00check.log’
for details.
TargetSearch.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL TargetSearch ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’ * installing *source* package ‘TargetSearch’ ... ** using staged installation ** libs clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c Rinit.c -o Rinit.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c baseline.c -o baseline.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c detection.c -o detection.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c file.c -o file.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c find_peaks.c -o find_peaks.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c getLine.c -o getLine.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c hpf.c -o hpf.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c matrix.c -o matrix.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c ncdf.c -o ncdf.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c peak.c -o peak.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c utils.c -o utils.o clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o TargetSearch.so Rinit.o baseline.o detection.o file.o find_peaks.o getLine.o hpf.o matrix.o ncdf.o peak.o utils.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.0/Resources/library/00LOCK-TargetSearch/00new/TargetSearch/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ‘RICorrection.Rnw’ ‘TargetSearch.Rnw’ ** 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 (TargetSearch)
TargetSearch.Rcheck/TargetSearch-Ex.timings
| name | user | system | elapsed | |
| FAMEoutliers | 0.048 | 0.006 | 0.054 | |
| FindAllPeaks | 1.464 | 0.050 | 1.520 | |
| FindPeaks | 0.502 | 0.014 | 0.516 | |
| ImportFameSettings | 0.012 | 0.001 | 0.014 | |
| ImportLibrary | 0.037 | 0.002 | 0.039 | |
| ImportSamples | 0.019 | 0.002 | 0.020 | |
| NetCDFPeakFinding | 0.422 | 0.042 | 0.465 | |
| Profile | 1.932 | 0.042 | 1.976 | |
| ProfileCleanUp | 1.673 | 0.038 | 1.714 | |
| RIcorrect | 17.670 | 1.427 | 19.282 | |
| TSExample | 2.243 | 0.224 | 2.514 | |
| checkRimLim | 0.763 | 0.030 | 0.794 | |
| fixRI | 1.835 | 0.088 | 1.924 | |
| medianRILib | 1.016 | 0.025 | 1.041 | |
| ncdf4Convert-method | 0.14 | 0.01 | 0.15 | |
| ncdf4_convert | 0.045 | 0.004 | 0.049 | |
| ncdf4_convert_from_path | 0.000 | 0.001 | 0.000 | |
| ncdf4_data_extract | 0.000 | 0.001 | 0.001 | |
| peakFind | 0.509 | 0.017 | 0.527 | |
| plotFAME | 0.019 | 0.004 | 0.023 | |
| plotPeak | 0.402 | 0.015 | 0.417 | |
| plotPeakRI | 1.397 | 0.041 | 1.443 | |
| plotPeakSimple | 0.732 | 0.034 | 0.767 | |
| plotRIdev | 0.771 | 0.027 | 0.800 | |
| plotSpectra | 0.543 | 0.015 | 0.560 | |
| quantMatrix | 1.647 | 0.038 | 1.686 | |
| ri2rt | 0.007 | 0.000 | 0.008 | |
| riMatrix | 1.690 | 0.072 | 1.764 | |
| rt2ri | 0.006 | 0.000 | 0.007 | |
| sampleRI | 0.993 | 0.023 | 1.016 | |
| tsLib-class | 0.030 | 0.009 | 0.039 | |
| tsMSdata-class | 0.002 | 0.001 | 0.002 | |
| tsProfile-class | 0.000 | 0.000 | 0.002 | |
| tsRim-class | 0.003 | 0.001 | 0.003 | |
| tsSample-class | 0.023 | 0.004 | 0.027 | |
| tsUpdate-method | 0.000 | 0.000 | 0.001 | |
| updateRI | 1.384 | 0.096 | 1.522 | |
| writeLibText | 0.039 | 0.002 | 0.041 | |