IHW 1.1.3
Nikos Ignatiadis
| Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/IHW | | Last Changed Rev: 118504 / Revision: 121152 | | Last Changed Date: 2016-06-12 11:06:51 -0700 (Sun, 12 Jun 2016) |
| zin1 | Linux (Ubuntu 16.04 LTS) / x86_64 | OK | OK | OK | |  |
| moscato1 | Windows Server 2008 R2 Standard (64-bit) / x64 | OK | OK | [ OK ] | OK | |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### rm -rf IHW.buildbin-libdir IHW.Rcheck && mkdir IHW.buildbin-libdir IHW.Rcheck && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=IHW.buildbin-libdir IHW_1.1.3.tar.gz >IHW.Rcheck\00install.out 2>&1 && cp IHW.Rcheck\00install.out IHW-install.out && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD check --library=IHW.buildbin-libdir --install="check:IHW-install.out" --force-multiarch --no-vignettes --timings IHW_1.1.3.tar.gz
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* using log directory 'D:/biocbld/bbs-3.4-bioc/meat/IHW.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 'IHW/DESCRIPTION' ... OK
* this is package 'IHW' version '1.1.3'
* 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 'IHW' 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 ... NOTE
filter_pvals_for_optim: no visible global function definition for
'p.adjust'
groups_by_filter: no visible global function definition for 'runif'
ihw.DESeqResults: no visible global function definition for 'mcols'
ihw.DESeqResults: no visible global function definition for 'mcols<-'
ihw.DESeqResults: no visible global function definition for 'metadata'
ihw.DESeqResults: no visible global function definition for
'metadata<-'
ihw.default: no visible global function definition for 'runif'
ihw.default: no visible global function definition for 'p.adjust'
ihw_convex: no visible global function definition for 'gurobi'
ihw_internal: no visible global function definition for 'p.adjust'
ihw_milp: no visible global function definition for 'str'
ihw_milp: no visible global function definition for 'gurobi'
plot_decisionboundary: no visible binding for global variable 'stratum'
plot_decisionboundary: no visible binding for global variable
'covariate'
plot_decisionboundary: no visible binding for global variable 'pvalue'
plot_decisionboundary: no visible binding for global variable 'fold'
thresholds_ihwResult: no visible global function definition for
'na.exclude'
thresholds,ihwResult: no visible global function definition for
'na.exclude'
Undefined global functions or variables:
covariate fold gurobi mcols mcols<- metadata metadata<- na.exclude
p.adjust pvalue runif str stratum
Consider adding
importFrom("stats", "na.exclude", "p.adjust", "runif")
importFrom("utils", "str")
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 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
ihw.default 5.86 0.05 6.51
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
ihw.default 6.32 0.05 6.77
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'testthat.R'
OK
** running tests for arch 'x64' ...
Running 'testthat.R'
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 NOTE
See
'D:/biocbld/bbs-3.4-bioc/meat/IHW.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'IHW' ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'weights' from package 'stats' in package 'IHW'
Creating a generic function for 'nrow' from package 'base' in package 'IHW'
Creating a generic function for 'plot' from package 'graphics' in package 'IHW'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'IHW' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'IHW' as IHW_1.1.3.zip
* DONE (IHW)