| Back to Multiple platform build/check report for BioC 3.16: simplified long |
|
This page was generated on 2023-04-12 11:06:21 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
| 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 | ||||
|
To the developers/maintainers of the ramwas package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ramwas.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1590/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ramwas 1.22.0 (landing page) Andrey A Shabalin
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| Package: ramwas |
| Version: 1.22.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ramwas.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ramwas_1.22.0.tar.gz |
| StartedAt: 2023-04-10 22:05:34 -0400 (Mon, 10 Apr 2023) |
| EndedAt: 2023-04-10 22:09:04 -0400 (Mon, 10 Apr 2023) |
| EllapsedTime: 210.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ramwas.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ramwas.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ramwas_1.22.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/ramwas.Rcheck’
* using R version 4.2.3 (2023-03-15)
* 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 ‘1.22.0’
* 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 7.502 0.48 8.009
* 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-3.16-bioc/meat/ramwas.Rcheck/00check.log’
for details.
ramwas.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL ramwas ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/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/4.2/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 | 0.001 | |
| QCs | 0.027 | 0.005 | 0.034 | |
| cachedRDSload | 1.204 | 0.004 | 1.212 | |
| findBestNpvs | 0.001 | 0.000 | 0.001 | |
| get | 0.000 | 0.000 | 0.001 | |
| getCpGset | 3.037 | 0.198 | 3.258 | |
| injectSNPsMAF | 0.752 | 0.012 | 0.765 | |
| insilicoFASTQ | 0.001 | 0.001 | 0.001 | |
| isAbsolutePath | 0.000 | 0.000 | 0.001 | |
| makefullpath | 0.000 | 0.001 | 0.001 | |
| manhattan | 7.502 | 0.480 | 8.009 | |
| mat2cols | 0.001 | 0.000 | 0.001 | |
| orthonormalizeCovariates | 0.008 | 0.001 | 0.009 | |
| parameterDump | 0.002 | 0.001 | 0.004 | |
| parameterPreprocess | 0.007 | 0.006 | 0.020 | |
| parametersFromFile | 0.001 | 0.001 | 0.002 | |
| pipeline | 0.000 | 0.001 | 0.001 | |
| plotCV | 1.898 | 0.026 | 1.929 | |
| plotFragmentSizeDistributionEstimate | 0.018 | 0.003 | 0.021 | |
| plotPC | 0.009 | 0.003 | 0.012 | |
| processCommandLine | 0.001 | 0.000 | 0.001 | |
| pvalue2qvalue | 0.001 | 0.000 | 0.001 | |
| qqplotFast | 0.576 | 0.106 | 0.686 | |
| ramwas0createArtificialData | 0.168 | 0.034 | 0.211 | |
| ramwasAnnotateLocations | 0.000 | 0.001 | 0.001 | |
| ramwasParameters | 0.000 | 0.000 | 0.001 | |
| rowcolSumSq | 0.000 | 0.000 | 0.001 | |
| rwDataClass-class | 0.030 | 0.001 | 0.032 | |
| subsetData | 0 | 0 | 0 | |
| testPhenotype | 0.015 | 0.002 | 0.017 | |