| Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:00 -0400 (Fri, 15 Oct 2021).
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To the developers/maintainers of the ChIPanalyser package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ChIPanalyser.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 290/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ChIPanalyser 1.14.0 (landing page) Patrick C.N. Martin
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: ChIPanalyser |
| Version: 1.14.0 |
| Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ChIPanalyser.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings ChIPanalyser_1.14.0.tar.gz |
| StartedAt: 2021-10-14 20:58:19 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 21:03:57 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 338.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ChIPanalyser.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ChIPanalyser.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings ChIPanalyser_1.14.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/ChIPanalyser.Rcheck' * using R version 4.1.1 (2021-08-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'ChIPanalyser/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'ChIPanalyser' version '1.14.0' * 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 'ChIPanalyser' 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 .methodSwitchGoF: no visible global function definition for 'ks' Undefined global functions or variables: ks * 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 ... OK * checking LazyData ... OK * 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 'runTests.R' OK ** running tests for arch 'x64' ... Running 'runTests.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-3.13-bioc/meat/ChIPanalyser.Rcheck/00check.log' for details.
ChIPanalyser.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/ChIPanalyser_1.14.0.tar.gz && rm -rf ChIPanalyser.buildbin-libdir && mkdir ChIPanalyser.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=ChIPanalyser.buildbin-libdir ChIPanalyser_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL ChIPanalyser_1.14.0.zip && rm ChIPanalyser_1.14.0.tar.gz ChIPanalyser_1.14.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
0 533k 0 5187 0 0 63493 0 0:00:08 --:--:-- 0:00:08 63256
100 533k 100 533k 0 0 1180k 0 --:--:-- --:--:-- --:--:-- 1181k
install for i386
* installing *source* package 'ChIPanalyser' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'drop' in package 'ChIPanalyser'
** help
*** installing help indices
converting help for package 'ChIPanalyser'
finding HTML links ... done
BPFrequency-methods html
BPFrequency html
BPFrequency_--methods html
BPFrequency_- html
ChIPScore-class html
ChIPanalyser-package html
DNASequenceLength-methods html
DNASequenceLength html
GRList-class html
PFMFormat-methods html
PFMFormat html
PFMFormat_--methods html
PFMFormat_ html
PWMThreshold-methods html
PWMThreshold html
PWMThreshold_--methods html
PWMThreshold_- html
PWMpseudocount-methods html
PWMpseudocount html
PWMpseudocount_--methods html
PWMpseudocount_- html
PositionFrequencyMatrix-methods html
PositionFrequencyMatrix html
PositionFrequencyMatrix_--methods html
PositionFrequencyMatrix_- html
PositionWeightMatrix-methods html
PositionWeightMatrix html
PositionWeightMatrix_--methods html
PositionWeightMatrix_- html
averageExpPWMScore-methods html
averageExpPWMScore html
backgroundSignal-methods html
backgroundSignal html
backgroundSignal_--methods html
backgroundSignal_- html
boundMolecules-methods html
boundMolecules html
boundMolecules_--methods html
boundMolecules_- html
chipMean-methods html
chipMean html
chipMean_--methods html
chipMean_- html
chipSd-methods html
chipSd html
chipSd_--methods html
chipSd_- html
chipSmooth-methods html
chipSmooth html
chipSmooth_--methods html
chipSmooth_- html
computeChIPProfile html
finding level-2 HTML links ... done
computeGenomeWideScores html
computeOccupancy html
computeOptimal html
computePWMScore html
data html
drop-methods html
drop html
genomicProfiles-class html
genomicProfiles html
genomicProfilesInternal-class html
initialize-methods html
lambdaPWM-methods html
lambdaPWM html
lambdaPWM_--methods html
lambdaPWM_ html
loci-class html
loci-methods html
loci html
lociWidth-methods html
lociWidth html
lociWidth_--methods html
lociWidth_ html
maxPWMScore-methods html
maxPWMScore html
maxSignal-methods html
maxSignal html
maxSignal_--methods html
maxSignal_- html
minPWMScore-methods html
minPWMScore html
naturalLog-methods html
naturalLog html
naturalLog_--methods html
naturalLog_- html
noOfSites-methods html
noOfSites html
noOfSites_--methods html
noOfSites_- html
noiseFilter-methods html
noiseFilter html
noiseFilter_--methods html
noiseFilter_ html
nos-class html
parameterOptions-class html
parameterOptions html
ploidy-methods html
ploidy html
ploidy_--methods html
ploidy_- html
plotOccupancyProfile html
plotOptimalHeatMaps html
processingChIP html
profileAccuracyEstimate html
profiles-methods html
removeBackground-methods html
removeBackground html
removeBackground_--methods html
removeBackground_- html
scores-methods html
scores html
searchSites html
show-methods html
stepSize-methods html
stepSize html
stepSize_--methods html
stepSize_- html
strandRule-methods html
strandRule html
strandRule_--methods html
strandRule_- html
whichstrand-methods html
whichstrand html
whichstrand_--methods html
whichstrand_- 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 'ChIPanalyser' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ChIPanalyser' as ChIPanalyser_1.14.0.zip
* DONE (ChIPanalyser)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'ChIPanalyser' successfully unpacked and MD5 sums checked
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ChIPanalyser.Rcheck/tests_i386/runTests.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things"
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.
> BiocGenerics:::testPackage("ChIPanalyser")
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unsplit, which.max, which.min
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
I, expand.grid, unname
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Attaching package: 'Biostrings'
The following object is masked from 'package:base':
strsplit
Attaching package: 'ChIPanalyser'
The following object is masked from 'package:IRanges':
drop
The following object is masked from 'package:base':
drop
Loading required package: BSgenome.Dmelanogaster.UCSC.dm3
RUNIT TEST PROTOCOL -- Thu Oct 14 21:03:28 2021
***********************************************
Number of test functions: 0
Number of errors: 0
Number of failures: 0
1 Test Suite :
ChIPanalyser RUnit Tests - 0 test functions, 0 errors, 0 failures
Number of test functions: 0
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
18.06 1.06 19.96
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ChIPanalyser.Rcheck/tests_x64/runTests.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things"
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.
> BiocGenerics:::testPackage("ChIPanalyser")
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unsplit, which.max, which.min
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
I, expand.grid, unname
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Attaching package: 'Biostrings'
The following object is masked from 'package:base':
strsplit
Attaching package: 'ChIPanalyser'
The following object is masked from 'package:IRanges':
drop
The following object is masked from 'package:base':
drop
Loading required package: BSgenome.Dmelanogaster.UCSC.dm3
RUNIT TEST PROTOCOL -- Thu Oct 14 21:03:46 2021
***********************************************
Number of test functions: 0
Number of errors: 0
Number of failures: 0
1 Test Suite :
ChIPanalyser RUnit Tests - 0 test functions, 0 errors, 0 failures
Number of test functions: 0
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
17.14 0.68 17.81
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ChIPanalyser.Rcheck/examples_i386/ChIPanalyser-Ex.timings
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ChIPanalyser.Rcheck/examples_x64/ChIPanalyser-Ex.timings
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