minfi 1.17.0 Kasper Daniel Hansen
Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015) | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/minfi | 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 | OK | OK | OK | | ![UNNEEDED, same version exists in internal repository UNNEEDED, same version exists in internal repository](../120px-Blue_Light_Icon.svg.png) |
windows2.bioconductor.org | Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | [ OK ] | OK | ![UNNEEDED, same version exists in internal repository UNNEEDED, same version exists in internal repository](../120px-Blue_Light_Icon.svg.png) |
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### Running command:
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### rm -rf minfi.buildbin-libdir minfi.Rcheck && mkdir minfi.buildbin-libdir minfi.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=minfi.buildbin-libdir minfi_1.17.0.tar.gz >minfi.Rcheck\00install.out 2>&1 && cp minfi.Rcheck\00install.out minfi-install.out && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=minfi.buildbin-libdir --install="check:minfi-install.out" --force-multiarch --no-vignettes --timings minfi_1.17.0.tar.gz
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* using log directory 'c:/biocbld/bbs-3.3-bioc/meat/minfi.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 'minfi/DESCRIPTION' ... OK
* this is package 'minfi' version '1.17.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Depends: includes the non-default packages:
'BiocGenerics' 'Biobase' 'lattice' 'GenomicRanges'
'SummarizedExperiment' 'Biostrings' 'bumphunter'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
* 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 'minfi' 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 ... NOTE
Unexported objects imported by ':::' calls:
'BiocGenerics:::replaceSlots'
'SummarizedExperiment:::.valid.SummarizedExperiment0.assays_ncol'
'bumphunter:::.getEstimate'
See the note in ?`:::` about the use of this operator.
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [306s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
gaphunter 197.36 1.87 199.25
bumphunter 29.36 3.43 32.80
compartments 25.53 1.35 26.88
read.450k.exp 6.26 0.14 6.41
read.450k 5.22 0.14 5.35
** running examples for arch 'x64' ... [417s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
gaphunter 224.84 0.72 228.78
bumphunter 55.48 7.76 74.87
compartments 32.69 0.53 33.25
detectionP 14.56 0.42 15.25
read.450k.exp 7.97 0.11 8.34
read.450k 7.46 0.19 8.62
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'runTests.R' [155s]
[155s] OK
** running tests for arch 'x64' ...
Running 'runTests.R' [177s]
[178s] 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: 2 NOTEs
See
'c:/biocbld/bbs-3.3-bioc/meat/minfi.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'minfi' ...
** R
** 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 'minfi' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'minfi' as minfi_1.17.0.zip
* DONE (minfi)