| Back to Build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-05-10 10:04:41 -0000 (Wed, 10 May 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences" | 6211 |
| 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 SELEX package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SELEX.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 1844/2194 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SELEX 1.33.0 (landing page) Harmen J. Bussemaker
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: SELEX |
| Version: 1.33.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SELEX.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings SELEX_1.33.0.tar.gz |
| StartedAt: 2023-05-10 04:23:57 -0000 (Wed, 10 May 2023) |
| EndedAt: 2023-05-10 04:26:17 -0000 (Wed, 10 May 2023) |
| EllapsedTime: 140.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SELEX.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SELEX.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings SELEX_1.33.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/SELEX.Rcheck’
* using R Under development (unstable) (2023-03-12 r83975)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘SELEX/DESCRIPTION’ ... OK
* this is package ‘SELEX’ version ‘1.33.0’
* 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 ‘SELEX’ 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 startup messages can be suppressed ... 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 Makefiles ... OK
* checking for GNU extensions in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
SELEX 21.282 2.435 8.040
selex.seqfilter 9.147 0.405 2.237
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
‘SELEX.Rnw’... OK
OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
SELEX.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL SELEX ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library’ * installing *source* package ‘SELEX’ ... ** using staged installation ** R ** 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 (SELEX)
SELEX.Rcheck/SELEX-Ex.timings
| name | user | system | elapsed | |
| SELEX | 21.282 | 2.435 | 8.040 | |
| selex.affinities | 0.820 | 0.045 | 0.427 | |
| selex.config | 0.111 | 0.003 | 0.038 | |
| selex.countSummary | 0.830 | 0.056 | 0.373 | |
| selex.counts | 1.441 | 0.028 | 0.539 | |
| selex.defineSample | 0.083 | 0.008 | 0.041 | |
| selex.exampledata | 0.060 | 0.004 | 0.030 | |
| selex.fastqPSFM | 1.028 | 0.024 | 0.369 | |
| selex.getAttributes | 0.184 | 0.004 | 0.066 | |
| selex.getRound0 | 0.486 | 0.021 | 0.130 | |
| selex.getSeqfilter | 0.124 | 0.000 | 0.034 | |
| selex.infogain | 2.091 | 0.078 | 0.533 | |
| selex.infogainSummary | 0.512 | 0.038 | 0.257 | |
| selex.jvmStatus | 0.141 | 0.001 | 0.036 | |
| selex.kmax | 1.580 | 0.302 | 0.752 | |
| selex.kmerPSFM | 0.271 | 0.037 | 0.197 | |
| selex.loadAnnotation | 0.189 | 0.004 | 0.095 | |
| selex.mm | 0.470 | 0.027 | 0.229 | |
| selex.mmProb | 0.427 | 0.009 | 0.219 | |
| selex.mmSummary | 0.419 | 0.036 | 0.243 | |
| selex.revcomp | 0.474 | 0.068 | 0.408 | |
| selex.run | 0.963 | 0.072 | 0.509 | |
| selex.sample | 0.153 | 0.007 | 0.078 | |
| selex.samplePSFM | 0.374 | 0.001 | 0.183 | |
| selex.sampleSummary | 0.145 | 0.000 | 0.072 | |
| selex.saveAnnotation | 0.078 | 0.004 | 0.040 | |
| selex.seqfilter | 9.147 | 0.405 | 2.237 | |
| selex.setwd | 0.067 | 0.000 | 0.018 | |
| selex.split | 0.534 | 0.020 | 0.157 | |
| selex.summary | 0.873 | 0.052 | 0.532 | |