BioC 3.1: CHECK report for BEAT on moscato2
This page was generated on 2015-10-09 09:30:53 -0700 (Fri, 09 Oct 2015).
BEAT 1.6.0 Kemal Akman
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015) | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/BEAT | Last Changed Rev: 102591 / Revision: 109384 | Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015) |
| zin2 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK | |  |
moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | [ OK ] | OK |  |
petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | OK | OK |  |
morelia | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | OK | OK |  |
Summary
Package: BEAT
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Version: 1.6.0
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Command: rm -rf BEAT.buildbin-libdir BEAT.Rcheck && mkdir BEAT.buildbin-libdir BEAT.Rcheck && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=BEAT.buildbin-libdir BEAT_1.6.0.tar.gz >BEAT.Rcheck\00install.out 2>&1 && cp BEAT.Rcheck\00install.out BEAT-install.out && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD check --library=BEAT.buildbin-libdir --install="check:BEAT-install.out" --force-multiarch --no-vignettes --timings BEAT_1.6.0.tar.gz
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StartedAt: 2015-10-08 23:34:38 -0700 (Thu, 08 Oct 2015)
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EndedAt: 2015-10-08 23:44:34 -0700 (Thu, 08 Oct 2015)
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EllapsedTime: 596.1 seconds
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RetCode: 0
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Status: OK
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CheckDir: BEAT.Rcheck
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Warnings: 0
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Command output
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### Running command:
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### rm -rf BEAT.buildbin-libdir BEAT.Rcheck && mkdir BEAT.buildbin-libdir BEAT.Rcheck && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=BEAT.buildbin-libdir BEAT_1.6.0.tar.gz >BEAT.Rcheck\00install.out 2>&1 && cp BEAT.Rcheck\00install.out BEAT-install.out && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD check --library=BEAT.buildbin-libdir --install="check:BEAT-install.out" --force-multiarch --no-vignettes --timings BEAT_1.6.0.tar.gz
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* using log directory 'E:/biocbld/bbs-3.1-bioc/meat/BEAT.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'BEAT/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'BEAT' version '1.6.0'
* 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 whether package 'BEAT' can be installed ... OK
* checking installed package size ... NOTE
installed size is 11.8Mb
sub-directories of 1Mb or more:
extdata 10.4Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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
* loading checks for arch 'i386'
** 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 loading without being on the library search path ... OK
* loading checks for arch 'x64'
** 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 loading without being on the library search path ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [173s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
epimutation_calls 80.12 0.14 80.28
generate_results 70.51 0.08 70.60
positions_to_regions 6.34 0.02 6.35
makeParams 6.05 0.03 6.09
** running examples for arch 'x64' ... [160s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
epimutation_calls 69.88 0.21 70.10
generate_results 69.23 0.04 69.28
makeParams 6.31 0.03 6.33
positions_to_regions 5.85 0.02 5.87
* 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: 2 NOTEs
See
'E:/biocbld/bbs-3.1-bioc/meat/BEAT.Rcheck/00check.log'
for details.
BEAT.Rcheck/00install.out:
install for i386
* installing *source* package 'BEAT' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for 'nchar' from package 'base' in package 'S4Vectors'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Creating a generic function for 'nchar' from package 'base' in package 'S4Vectors'
install for x64
* installing *source* package 'BEAT' ...
** testing if installed package can be loaded
Creating a generic function for 'nchar' from package 'base' in package 'S4Vectors'
* MD5 sums
packaged installation of 'BEAT' as BEAT_1.6.0.zip
* DONE (BEAT)
BEAT.Rcheck/examples_i386/BEAT-Ex.timings:
name | user | system | elapsed
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epimutation_calls | 80.12 | 0.14 | 80.28 |
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generate_results | 70.51 | 0.08 | 70.60 |
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makeParams | 6.05 | 0.03 | 6.09 |
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positions_to_regions | 6.34 | 0.02 | 6.35 |
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BEAT.Rcheck/examples_x64/BEAT-Ex.timings:
name | user | system | elapsed
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epimutation_calls | 69.88 | 0.21 | 70.10 |
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generate_results | 69.23 | 0.04 | 69.28 |
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makeParams | 6.31 | 0.03 | 6.33 |
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positions_to_regions | 5.85 | 0.02 | 5.87 |
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