| Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:59:20 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE ramwas PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1413/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| ramwas 1.12.0 Andrey A Shabalin
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | |||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | [ OK ] | OK |
| Package: ramwas |
| Version: 1.12.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:ramwas.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ramwas_1.12.0.tar.gz |
| StartedAt: 2020-10-17 04:20:33 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 04:26:35 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 361.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ramwas.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:ramwas.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ramwas_1.12.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/ramwas.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 ‘ramwas/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ramwas’ version ‘1.12.0’
* 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 ‘ramwas’ 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
manhattan 8.543 0.597 9.154
* 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/ramwas.Rcheck/00check.log’
for details.
ramwas.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL ramwas ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’ * installing *source* package ‘ramwas’ ... ** 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 rw_c_code.c -o rw_c_code.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 ramwas.so rw_c_code.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.0/Resources/library/00LOCK-ramwas/00new/ramwas/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (ramwas)
ramwas.Rcheck/ramwas-Ex.timings
| name | user | system | elapsed | |
| MakeBED | 0.000 | 0.001 | 0.000 | |
| QCs | 0.047 | 0.006 | 0.053 | |
| cachedRDSload | 1.314 | 0.003 | 1.318 | |
| findBestNpvs | 0.001 | 0.000 | 0.002 | |
| get | 0.001 | 0.000 | 0.001 | |
| getCpGset | 3.945 | 0.169 | 4.121 | |
| injectSNPsMAF | 0.692 | 0.011 | 0.703 | |
| insilicoFASTQ | 0.001 | 0.000 | 0.002 | |
| isAbsolutePath | 0.001 | 0.001 | 0.002 | |
| makefullpath | 0.001 | 0.001 | 0.002 | |
| manhattan | 8.543 | 0.597 | 9.154 | |
| mat2cols | 0.001 | 0.000 | 0.001 | |
| orthonormalizeCovariates | 0.009 | 0.000 | 0.009 | |
| parameterDump | 0.003 | 0.001 | 0.004 | |
| parameterPreprocess | 0.005 | 0.006 | 0.013 | |
| parametersFromFile | 0.001 | 0.001 | 0.002 | |
| pipeline | 0.002 | 0.001 | 0.002 | |
| plotCV | 2.407 | 0.038 | 2.455 | |
| plotFragmentSizeDistributionEstimate | 0.042 | 0.002 | 0.046 | |
| plotPC | 0.011 | 0.005 | 0.016 | |
| processCommandLine | 0.002 | 0.001 | 0.002 | |
| pvalue2qvalue | 0.000 | 0.001 | 0.001 | |
| qqplotFast | 1.558 | 0.223 | 1.788 | |
| ramwas0createArtificialData | 0.310 | 0.042 | 0.352 | |
| ramwasAnnotateLocations | 0.001 | 0.000 | 0.002 | |
| ramwasParameters | 0.001 | 0.000 | 0.001 | |
| rowcolSumSq | 0.001 | 0.000 | 0.002 | |
| rwDataClass-class | 0.06 | 0.00 | 0.06 | |
| subsetData | 0.000 | 0.000 | 0.001 | |
| testPhenotype | 0.025 | 0.004 | 0.029 | |