TCC 1.10.0
Jianqiang Sun , Tomoaki Nishiyama
| Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/TCC | | Last Changed Rev: 109589 / Revision: 116712 | | Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015) |
| zin1 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | OK | WARNINGS | |  |
| moscato1 | Windows Server 2008 R2 Standard (64-bit) / x64 | OK | OK | [ WARNINGS ] | OK | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | WARNINGS | OK | |
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### Running command:
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### rm -rf TCC.buildbin-libdir TCC.Rcheck && mkdir TCC.buildbin-libdir TCC.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=TCC.buildbin-libdir TCC_1.10.0.tar.gz >TCC.Rcheck\00install.out 2>&1 && cp TCC.Rcheck\00install.out TCC-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=TCC.buildbin-libdir --install="check:TCC-install.out" --force-multiarch --no-vignettes --timings TCC_1.10.0.tar.gz
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* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/TCC.Rcheck'
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'TCC/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'TCC' version '1.10.0'
* 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 'TCC' 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
* 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 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 ... WARNING
Undocumented S4 methods:
generic '[' and siglist 'TCC,ANY,ANY,ANY'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* 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' ... [122s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
simulateReadCounts 21.56 0.05 22.20
TCC-class 15.66 0.10 15.76
calcAUCValue 15.07 0.03 15.12
calcNormFactors 12.34 0.05 12.39
plot.TCC 12.28 0.05 12.32
plotFCPseudocolor 12.32 0.00 12.33
hypoData_mg 6.59 0.00 6.58
hypoData 6.41 0.02 6.45
** running examples for arch 'x64' ... [131s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
simulateReadCounts 23.17 0.00 23.17
TCC-class 16.38 0.05 16.43
calcNormFactors 16.00 0.00 16.01
calcAUCValue 15.49 0.00 15.49
plotFCPseudocolor 13.63 0.01 13.65
plot.TCC 13.09 0.04 13.12
hypoData_mg 5.85 0.00 5.85
hypoData 5.46 0.00 5.46
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'runTests.R' [478s]
[478s] OK
** running tests for arch 'x64' ...
Running 'runTests.R' [525s]
[526s] OK
* 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 WARNING
See
'D:/biocbld/bbs-3.2-bioc/meat/TCC.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'TCC' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for 'calcNormFactors' in package 'TCC'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'TCC' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TCC' as TCC_1.10.0.zip
* DONE (TCC)