Tobias Verbeke
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/a4Classif |
| Branch: RELEASE_3_7 |
| Last Commit: 3464011 |
| Last Changed Date: 2018-04-30 10:35:18 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:35:21 -0400 (Wed, 17 Oct 2018).
| Package 3/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| a4Classif 1.28.0 Tobias Verbeke
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: a4Classif |
| Version: 1.28.0 |
| Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:a4Classif.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings a4Classif_1.28.0.tar.gz |
| StartedAt: 2018-10-17 00:25:43 -0400 (Wed, 17 Oct 2018) |
| EndedAt: 2018-10-17 00:28:46 -0400 (Wed, 17 Oct 2018) |
| EllapsedTime: 183.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: a4Classif.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:a4Classif.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings a4Classif_1.28.0.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/a4Classif.Rcheck'
* using R version 3.5.1 Patched (2018-07-24 r75005)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'a4Classif/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'a4Classif' version '1.28.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Depends: includes the non-default packages:
'a4Core' 'a4Preproc' 'MLInterfaces' 'ROCR' 'pamr' 'glmnet' 'varSelRF'
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 'a4Classif' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
Package listed in more than one of Depends, Imports, Suggests, Enhances:
'a4Core'
A package should be listed in only one of these fields.
* 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
Packages in Depends field not imported from:
'MLInterfaces' 'ROCR' 'a4Preproc' 'glmnet' 'methods' 'pamr'
'varSelRF'
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 ... NOTE
.onAttach: no visible global function definition for
'packageDescription'
ROCcurve: no visible global function definition for 'exprs'
ROCcurve: no visible global function definition for 'featureData'
ROCcurve: no visible global function definition for 'featureNames'
ROCcurve: no visible global function definition for 'pData'
ROCcurve: no visible global function definition for 'prediction'
ROCcurve: no visible global function definition for 'performance'
ROCcurve: no visible global function definition for 'plot'
confusionMatrix.pamClass: no visible global function definition for
'pamr.confusion'
lassoClass: no visible global function definition for 'pData'
lassoClass: no visible global function definition for 'glmnet'
lassoClass: no visible global function definition for 'exprs'
lassoClass: no visible global function definition for 'featureData'
pamClass: no visible global function definition for 'pData'
pamClass: no visible global function definition for 'featureNames'
pamClass: no visible global function definition for 'exprs'
pamClass: no visible global function definition for 'capture.output'
pamClass: no visible global function definition for 'pamr.train'
pamClass: no visible global function definition for 'pamr.cv'
pamClass: no visible global function definition for 'featureData'
plot.pamClass: no visible binding for global variable 'var'
plot.pamClass: no visible global function definition for 'par'
plot.pamClass: no visible global function definition for 'plot'
plot.pamClass: no visible global function definition for 'lines'
plot.pamClass: no visible global function definition for 'segments'
plot.pamClass: no visible global function definition for 'axis'
plot.pamClass: no visible global function definition for 'points'
plot.rfClass: no visible global function definition for 'par'
plot.rfClass: no visible global function definition for 'plot'
plot.rfClass: no visible global function definition for 'lines'
plot.rfClass: no visible global function definition for 'segments'
plot.rfClass: no visible global function definition for 'axis'
plot.rfClass: no visible global function definition for 'points'
rfClass: no visible global function definition for 'pData'
rfClass: no visible global function definition for 'varSelRF'
rfClass: no visible global function definition for 'exprs'
rfClass: no visible global function definition for 'featureData'
rfClass: no visible global function definition for 'featureNames'
topTable,pamClass: no visible global function definition for
'capture.output'
topTable,pamClass: no visible global function definition for
'pamr.listgenes'
Undefined global functions or variables:
axis capture.output exprs featureData featureNames glmnet lines pData
packageDescription pamr.confusion pamr.cv pamr.listgenes pamr.train
par performance plot points prediction segments var varSelRF
Consider adding
importFrom("graphics", "axis", "lines", "par", "plot", "points",
"segments")
importFrom("stats", "var")
importFrom("utils", "capture.output", "packageDescription")
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 examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking PDF version of manual ... OK
* DONE
Status: 4 NOTEs
See
'C:/Users/biocbuild/bbs-3.7-bioc/meat/a4Classif.Rcheck/00check.log'
for details.
a4Classif.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/a4Classif_1.28.0.tar.gz && rm -rf a4Classif.buildbin-libdir && mkdir a4Classif.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=a4Classif.buildbin-libdir a4Classif_1.28.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL a4Classif_1.28.0.zip && rm a4Classif_1.28.0.tar.gz a4Classif_1.28.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 5322 100 5322 0 0 85448 0 --:--:-- --:--:-- --:--:-- 95035
install for i386
* installing *source* package 'a4Classif' ...
** R
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'BiocGenerics::var' by 'stats::var' when loading 'MLInterfaces'
** help
*** installing help indices
converting help for package 'a4Classif'
finding HTML links ... done
ROCcurve html
lassoClass html
pamClass html
rfClass html
** building package indices
** testing if installed package can be loaded
Warning: replacing previous import 'BiocGenerics::var' by 'stats::var' when loading 'MLInterfaces'
In R CMD INSTALL
install for x64
* installing *source* package 'a4Classif' ...
** testing if installed package can be loaded
Warning: replacing previous import 'BiocGenerics::var' by 'stats::var' when loading 'MLInterfaces'
* MD5 sums
packaged installation of 'a4Classif' as a4Classif_1.28.0.zip
* DONE (a4Classif)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'a4Classif' successfully unpacked and MD5 sums checked
In R CMD INSTALL
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a4Classif.Rcheck/examples_i386/a4Classif-Ex.timings
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a4Classif.Rcheck/examples_x64/a4Classif-Ex.timings
|