Tiago Chedraoui Silva
| Snapshot Date: 2021-01-14 09:00:13 -0500 (Thu, 14 Jan 2021) |
| URL: https://git.bioconductor.org/packages/TCGAWorkflowData |
| Branch: master |
| Last Commit: c1b3065 |
| Last Changed Date: 2020-10-27 10:22:55 -0500 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.13 experimental data |
|
This page was generated on 2021-01-14 15:59:12 -0500 (Thu, 14 Jan 2021).
| TO THE DEVELOPERS/MAINTAINERS OF THE TCGAWorkflowData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 360/385 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||
| TCGAWorkflowData 1.15.0 Tiago Chedraoui Silva
| malbec2 | Linux (Ubuntu 20.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | |||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | [ WARNINGS ] |
| Package: TCGAWorkflowData |
| Version: 1.15.0 |
| Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TCGAWorkflowData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings TCGAWorkflowData_1.15.0.tar.gz |
| StartedAt: 2021-01-14 11:44:56 -0500 (Thu, 14 Jan 2021) |
| EndedAt: 2021-01-14 11:52:25 -0500 (Thu, 14 Jan 2021) |
| EllapsedTime: 448.7 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: TCGAWorkflowData.Rcheck |
| Warnings: 1 |
##############################################################################
##############################################################################
###
### Running command:
###
### D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TCGAWorkflowData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings TCGAWorkflowData_1.15.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/TCGAWorkflowData.Rcheck'
* using R Under development (unstable) (2020-12-30 r79736)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'TCGAWorkflowData/DESCRIPTION' ... OK
* this is package 'TCGAWorkflowData' version '1.15.0'
* 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 'TCGAWorkflowData' can be installed ... OK
* checking installed package size ... NOTE
installed size is 77.5Mb
sub-directories of 1Mb or more:
data 77.3Mb
* 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 data sets:
'commonCNV'
All user-level objects in a package 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
TCGAWorkflowData 31.34 0.25 31.60
tmp.biogrid 11.52 0.04 11.56
GBMmut 10.72 0.07 10.78
LGGmut 9.44 0.09 9.54
mut 9.33 0.08 9.41
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
TCGAWorkflowData 26.14 0.38 26.52
GBMmut 9.97 0.08 10.04
tmp.biogrid 8.70 0.05 8.75
LGGmut 8.03 0.06 8.09
mut 7.88 0.14 8.02
* 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 WARNING, 1 NOTE
See
'D:/biocbuild/bbs-3.13-data-experiment/meat/TCGAWorkflowData.Rcheck/00check.log'
for details.
TCGAWorkflowData.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.13/data-experiment/src/contrib/TCGAWorkflowData_1.15.0.tar.gz && rm -rf TCGAWorkflowData.buildbin-libdir && mkdir TCGAWorkflowData.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=TCGAWorkflowData.buildbin-libdir TCGAWorkflowData_1.15.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL TCGAWorkflowData_1.15.0.zip && rm TCGAWorkflowData_1.15.0.tar.gz TCGAWorkflowData_1.15.0.zip
###
##############################################################################
##############################################################################
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 77.3M 100 77.3M 0 0 110M 0 --:--:-- --:--:-- --:--:-- 110M
install for i386
* installing *source* package 'TCGAWorkflowData' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'TCGAWorkflowData'
finding HTML links ... done
GBMmut html
REDIRECT:topic GBMmut -> GBMmut.html [ SUCCESS ]
LGGmut html
REDIRECT:topic LGGmut -> LGGmut.html [ SUCCESS ]
TCGAWorkflowData html
REDIRECT:topic TCGAWorkflowData -> TCGAWorkflowData.html [ SUCCESS ]
REDIRECT:topic TCGAWorkflowData-package -> TCGAWorkflowData.html [ SUCCESS ]
cnvMatrix html
REDIRECT:topic cnvMatrix -> cnvMatrix.html [ SUCCESS ]
exp html
REDIRECT:topic exp -> exp.html [ SUCCESS ]
exp.elmer html
REDIRECT:topic exp.elmer -> exp.elmer.html [ SUCCESS ]
gbm.exp html
REDIRECT:topic gbm.exp -> gbm.exp.html [ SUCCESS ]
gbm.samples html
REDIRECT:topic gbm.samples -> gbm.samples.html [ SUCCESS ]
genes html
REDIRECT:topic genes -> genes.html [ SUCCESS ]
genes_GR html
REDIRECT:topic genes_GR -> genes_GR.html [ SUCCESS ]
gistic.allbygene html
REDIRECT:topic gistic.allbygene -> gistic.allbygene.html [ SUCCESS ]
gistic.thresholedbygene html
REDIRECT:topic gistic.thresholedbygene -> gistic.thresholedbygene.html [ SUCCESS ]
histone.marks html
REDIRECT:topic histone.marks -> histone.marks.html [ SUCCESS ]
lgg.exp html
REDIRECT:topic lgg.exp -> lgg.exp.html [ SUCCESS ]
lgg.samples html
REDIRECT:topic lgg.samples -> lgg.samples.html [ SUCCESS ]
markersMatrix html
REDIRECT:topic markersMatrix -> markersMatrix.html [ SUCCESS ]
met html
REDIRECT:topic met -> met.html [ SUCCESS ]
met.elmer html
REDIRECT:topic met.elmer -> met.elmer.html [ SUCCESS ]
mut html
REDIRECT:topic mut -> mut.html [ SUCCESS ]
tmp.biogrid html
REDIRECT:topic tmp.biogrid -> tmp.biogrid.html [ SUCCESS ]
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'TCGAWorkflowData' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TCGAWorkflowData' as TCGAWorkflowData_1.15.0.zip
* DONE (TCGAWorkflowData)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'TCGAWorkflowData' successfully unpacked and MD5 sums checked
|
TCGAWorkflowData.Rcheck/tests_i386/testthat.Rout
R Under development (unstable) (2020-12-30 r79736) -- "Unsuffered Consequences"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(TCGAWorkflowData)
>
> test_check("TCGAWorkflowData")
== Skipped tests ===============================================================
* empty test (1)
[ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
>
> proc.time()
user system elapsed
33.56 0.50 34.04
|
TCGAWorkflowData.Rcheck/tests_x64/testthat.Rout
R Under development (unstable) (2020-12-30 r79736) -- "Unsuffered Consequences"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(TCGAWorkflowData)
>
> test_check("TCGAWorkflowData")
== Skipped tests ===============================================================
* empty test (1)
[ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
>
> proc.time()
user system elapsed
29.25 0.53 29.76
|
|
TCGAWorkflowData.Rcheck/examples_i386/TCGAWorkflowData-Ex.timings
|
TCGAWorkflowData.Rcheck/examples_x64/TCGAWorkflowData-Ex.timings
|