BioC 3.3: CHECK report for pint on windows2.bioconductor.org
This page was generated on 2015-10-27 12:14:36 -0400 (Tue, 27 Oct 2015).
pint 1.21.0
Olli-Pekka Huovilainen
| Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/pint | | Last Changed Rev: 109592 / Revision: 109948 | | Last Changed Date: 2015-10-13 15:59:53 -0400 (Tue, 13 Oct 2015) |
| linux2.bioconductor.org | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK | |  |
| windows2.bioconductor.org | Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | [ OK ] | OK | |
Summary
| Package: pint
|
| Version: 1.21.0
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| Command: rm -rf pint.buildbin-libdir pint.Rcheck && mkdir pint.buildbin-libdir pint.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=pint.buildbin-libdir pint_1.21.0.tar.gz >pint.Rcheck\00install.out 2>&1 && cp pint.Rcheck\00install.out pint-install.out && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=pint.buildbin-libdir --install="check:pint-install.out" --force-multiarch --no-vignettes --timings pint_1.21.0.tar.gz
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| StartedAt: 2015-10-27 04:59:16 -0400 (Tue, 27 Oct 2015)
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| EndedAt: 2015-10-27 05:02:51 -0400 (Tue, 27 Oct 2015)
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| EllapsedTime: 214.2 seconds
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| RetCode: 0
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| Status: OK
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| CheckDir: pint.Rcheck
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| Warnings: 0
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Command output
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###
### Running command:
###
### rm -rf pint.buildbin-libdir pint.Rcheck && mkdir pint.buildbin-libdir pint.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=pint.buildbin-libdir pint_1.21.0.tar.gz >pint.Rcheck\00install.out 2>&1 && cp pint.Rcheck\00install.out pint-install.out && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=pint.buildbin-libdir --install="check:pint-install.out" --force-multiarch --no-vignettes --timings pint_1.21.0.tar.gz
###
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* using log directory 'c:/biocbld/bbs-3.3-bioc/meat/pint.Rcheck'
* using R Under development (unstable) (2015-09-22 r69418)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'pint/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'pint' version '1.21.0'
* 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 'pint' 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
* 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 ... NOTE
Packages in Depends field not imported from:
'Matrix' 'methods' 'mvtnorm'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* 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' ... [71s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
screen 30.75 0.00 30.75
ChromosomeModels-class 24.91 0.04 24.96
GeneDependencyModel-class 7.14 0.00 7.14
plot 6.90 0.02 6.91
** running examples for arch 'x64' ... [87s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
screen 36.74 0.01 36.75
ChromosomeModels-class 30.81 0.06 30.89
plot 9.03 0.00 9.05
GeneDependencyModel-class 8.14 0.02 8.16
* 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
'c:/biocbld/bbs-3.3-bioc/meat/pint.Rcheck/00check.log'
for details.
pint.Rcheck/00install.out:
install for i386
* installing *source* package 'pint' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for 'as.data.frame' from package 'base' in package 'pint'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'pint' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'pint' as pint_1.21.0.zip
* DONE (pint)
pint.Rcheck/examples_i386/pint-Ex.timings:
| name | user | system | elapsed
|
| ChromosomeModels-class | 24.91 | 0.04 | 24.96 |
|
| GeneDependencyModel-class | 7.14 | 0.00 | 7.14 |
|
| fit.byname | 0.06 | 0.00 | 0.06 |
|
| get.neighboring.probes | 0 | 0 | 0 |
|
| get.neighs | 0 | 0 | 0 |
|
| join.top.regions | 0 | 0 | 0 |
|
| order.feature.info | 0 | 0 | 0 |
|
| pint.data | 0.10 | 0.00 | 0.11 |
|
| plot | 6.90 | 0.02 | 6.91 |
|
| screen | 30.75 | 0.00 | 30.75 |
|
| summarize.region.parameters | 0 | 0 | 0 |
|
| window | 0.09 | 0.00 | 0.09 |
|
| z.effect | 0.06 | 0.00 | 0.07 |
|
pint.Rcheck/examples_x64/pint-Ex.timings:
| name | user | system | elapsed
|
| ChromosomeModels-class | 30.81 | 0.06 | 30.89 |
|
| GeneDependencyModel-class | 8.14 | 0.02 | 8.16 |
|
| fit.byname | 0.09 | 0.00 | 0.09 |
|
| get.neighboring.probes | 0 | 0 | 0 |
|
| get.neighs | 0 | 0 | 0 |
|
| join.top.regions | 0 | 0 | 0 |
|
| order.feature.info | 0 | 0 | 0 |
|
| pint.data | 0.13 | 0.00 | 0.12 |
|
| plot | 9.03 | 0.00 | 9.05 |
|
| screen | 36.74 | 0.01 | 36.75 |
|
| summarize.region.parameters | 0 | 0 | 0 |
|
| window | 0.11 | 0.00 | 0.11 |
|
| z.effect | 0.07 | 0.00 | 0.07 |
|