TSCAN 1.11.2
Zhicheng Ji
| Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/TSCAN | | Last Changed Rev: 117512 / Revision: 121152 | | Last Changed Date: 2016-05-15 13:14:22 -0700 (Sun, 15 May 2016) |
| zin1 | Linux (Ubuntu 16.04 LTS) / x86_64 | NotNeeded | OK | OK | |  |
| moscato1 | Windows Server 2008 R2 Standard (64-bit) / x64 | NotNeeded | OK | [ OK ] | OK | |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | OK | OK | |
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### Running command:
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### rm -rf TSCAN.buildbin-libdir TSCAN.Rcheck && mkdir TSCAN.buildbin-libdir TSCAN.Rcheck && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=TSCAN.buildbin-libdir TSCAN_1.11.2.tar.gz >TSCAN.Rcheck\00install.out 2>&1 && cp TSCAN.Rcheck\00install.out TSCAN-install.out && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD check --library=TSCAN.buildbin-libdir --install="check:TSCAN-install.out" --force-multiarch --no-vignettes --timings TSCAN_1.11.2.tar.gz
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* using log directory 'D:/biocbld/bbs-3.4-bioc/meat/TSCAN.Rcheck'
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'TSCAN/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'TSCAN' version '1.11.2'
* 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 'TSCAN' 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
difftest : <anonymous>: no visible global function definition for
'pchisq'
difftest: no visible global function definition for 'p.adjust'
exprmclust: no visible global function definition for 'prcomp'
exprmclust : <anonymous>: no visible global function definition for
'lm'
exprmclust: no visible global function definition for 'dist'
plotmclust: no visible binding for global variable 'pca_dim_1'
plotmclust: no visible binding for global variable 'pca_dim_2'
plotmclust: no visible binding for global variable 'sample_name'
preprocess: no visible binding for global variable 'sd'
preprocess: no visible global function definition for 'hclust'
preprocess: no visible global function definition for 'dist'
preprocess: no visible global function definition for 'cutree'
preprocess: no visible global function definition for 'aggregate'
singlegeneplot: no visible global function definition for
'fitted.values'
singlegeneplot: no visible binding for global variable 'predict'
Undefined global functions or variables:
aggregate cutree dist fitted.values hclust lm p.adjust pca_dim_1
pca_dim_2 pchisq prcomp predict sample_name sd
Consider adding
importFrom("stats", "aggregate", "cutree", "dist", "fitted.values",
"hclust", "lm", "p.adjust", "pchisq", "prcomp", "predict",
"sd")
to your NAMESPACE file.
* 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' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
difftest 6.5 0.06 6.58
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
difftest 6.65 0.12 6.77
* 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
'D:/biocbld/bbs-3.4-bioc/meat/TSCAN.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'TSCAN' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'TSCAN' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TSCAN' as TSCAN_1.11.2.zip
* DONE (TSCAN)