Benjamin Haibe-Kains
| Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021) |
| URL: https://git.bioconductor.org/packages/CoreGx |
| Branch: RELEASE_3_12 |
| Last Commit: e2021c4 |
| Last Changed Date: 2020-10-27 11:57:03 -0400 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.12 |
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This page was generated on 2021-05-06 12:30:29 -0400 (Thu, 06 May 2021).
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To the developers/maintainers of the CoreGx package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 379/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| CoreGx 1.2.0 (landing page) Benjamin Haibe-Kains
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: CoreGx |
| Version: 1.2.0 |
| Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CoreGx.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings CoreGx_1.2.0.tar.gz |
| StartedAt: 2021-05-06 01:47:17 -0400 (Thu, 06 May 2021) |
| EndedAt: 2021-05-06 01:52:28 -0400 (Thu, 06 May 2021) |
| EllapsedTime: 311.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: CoreGx.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CoreGx.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings CoreGx_1.2.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/CoreGx.Rcheck' * using R version 4.0.5 (2021-03-31) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'CoreGx/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'CoreGx' version '1.2.0' * package encoding: UTF-8 * 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 'CoreGx' 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 ... 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 contents of 'data' directory ... OK * checking data for non-ASCII characters ... NOTE Note: found 8 marked UTF-8 strings * checking data for ASCII and uncompressed saves ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... OK * 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 'C:/Users/biocbuild/bbs-3.12-bioc/meat/CoreGx.Rcheck/00check.log' for details.
CoreGx.Rcheck/00install.out
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/CoreGx_1.2.0.tar.gz && rm -rf CoreGx.buildbin-libdir && mkdir CoreGx.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CoreGx.buildbin-libdir CoreGx_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL CoreGx_1.2.0.zip && rm CoreGx_1.2.0.tar.gz CoreGx_1.2.0.zip
###
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install for i386
* installing *source* package 'CoreGx' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
Registered S3 method overwritten by 'ggplot2':
method from
print.element sets
Creating a generic function for 'colnames' from package 'base' in package 'CoreGx'
Creating a generic function for 'rownames' from package 'base' in package 'CoreGx'
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for 'colnames' from package 'base' in package 'CoreGx'
Creating a generic function for 'rownames' from package 'base' in package 'CoreGx'
** help
*** installing help indices
converting help for package 'CoreGx'
finding HTML links ... done
CoreSet-class html
CoreSet html
Create html
LongTable-class html
LongTable html
RadioSet html
amcc html
as html
as.data.frame.LongTable html
as.data.table.LongTable html
as.long.table html
assayCols html
buildLongTable html
callingWaterfall html
cash-LongTable-method html
cellInfo-set html
cellInfo html
cellNames-set html
cellNames html
checkCsetStructure html
clevelandSmall_cSet html
colIDs html
colMeta html
connectivityScore html
cosinePerm html
curation-set html
curation html
datasetType-set html
datasetType html
dateCreated-set html
dateCreated html
dot- html
dot-convertCSetMolecularProfilesToSE html
dot-distancePointLine html
dot-distancePointSegment html
dot-intersectList html
dot-symSetDiffList html
dot-unionList html
drugSensitivitySig html
fNames-set html
fNames html
featureInfo-set html
featureInfo html
getIntern html
gwc html
idCols-LongTable-method html
idCols html
is.items html
list_or_LongTable-class html
mDataNames-set html
mDataNames html
mcc html
merckLongTable html
metadata-LongTable-method html
metadata-set-LongTable-method html
molecularProfiles-set html
molecularProfiles html
molecularProfilesSlot-set html
molecularProfilesSlot html
name-set html
name html
pertNumber-set html
pertNumber html
phenoInfo-set html
phenoInfo html
reindex-LongTable-method html
reindex html
rowIDs html
rowMeta html
sensNumber-set html
sensNumber html
sensitivityInfo-set html
sensitivityInfo html
sensitivityMeasures-set html
sensitivityMeasures html
sensitivityProfiles-set html
sensitivityProfiles html
sensitivityRaw-set html
sensitivityRaw html
sensitivitySlot-set html
sensitivitySlot html
sensitivitySlotToLongTable html
show-CoreSet-method html
show-LongTable-method html
showSigAnnot html
sub-LongTable-ANY-ANY-ANY-method html
subset-LongTable-method html
subsetTo html
summarizeMolecularProfiles html
summarizeSensitivityProfiles html
updateCellId html
** 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 'CoreGx' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CoreGx' as CoreGx_1.2.0.zip
* DONE (CoreGx)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'CoreGx' successfully unpacked and MD5 sums checked
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CoreGx.Rcheck/tests_i386/testthat.Rout
R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 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(CoreGx)
>
> test_check("CoreGx")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 32 ]
>
> proc.time()
user system elapsed
8.85 0.92 9.75
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CoreGx.Rcheck/tests_x64/testthat.Rout
R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 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(CoreGx)
>
> test_check("CoreGx")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 32 ]
>
> proc.time()
user system elapsed
13.56 0.48 14.03
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CoreGx.Rcheck/examples_i386/CoreGx-Ex.timings
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CoreGx.Rcheck/examples_x64/CoreGx-Ex.timings
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