Manuela Hummel
| Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021) |
| URL: https://git.bioconductor.org/packages/TEQC |
| Branch: RELEASE_3_12 |
| Last Commit: ec0c464 |
| Last Changed Date: 2020-10-27 10:39:44 -0400 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.12 |
|
This page was generated on 2021-05-06 12:33:56 -0400 (Thu, 06 May 2021).
|
To the developers/maintainers of the TEQC package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1848/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| TEQC 4.12.0 (landing page) Manuela Hummel
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| Package: TEQC |
| Version: 4.12.0 |
| Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TEQC.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings TEQC_4.12.0.tar.gz |
| StartedAt: 2021-05-06 07:29:32 -0400 (Thu, 06 May 2021) |
| EndedAt: 2021-05-06 07:32:29 -0400 (Thu, 06 May 2021) |
| EllapsedTime: 177.3 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: TEQC.Rcheck |
| Warnings: 2 |
##############################################################################
##############################################################################
###
### Running command:
###
### C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TEQC.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings TEQC_4.12.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/TEQC.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 'TEQC/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'TEQC' version '4.12.0'
* 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 'TEQC' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/TEQCreport.Rd:17: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/TEQCreport.Rd:19: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/TEQCreport.Rd:42: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/chrom.barplot.Rd:9: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/chrom.barplot.Rd:13: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/coverage.GC.Rd:12: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/coverage.plot.Rd:12: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/coverage.target.Rd:11: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/coverage.target.Rd:13: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/coverage.targetlength.plot.Rd:13: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/duplicates.barplot.Rd:12: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/duplicates.barplot.Rd:16: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/fraction.reads.target.Rd:12: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/fraction.reads.target.Rd:16: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/fraction.target.Rd:9: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/get.baits.Rd:29: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/get.reads.Rd:43: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/get.targets.Rd:24: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/insert.size.hist.Rd:12: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/reads2pairs.Rd:12: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/reads2pairs.Rd:33: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/readsPerTarget.Rd:11: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/readsPerTarget.Rd:13: missing file link 'RangedData-class'
See 'C:/Users/biocbuild/bbs-3.12-bioc/meat/TEQC.Rcheck/00install.out' for details.
* 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
.coverage.hist: no visible global function definition for 'par'
.coverage.hist: no visible global function definition for
'boxplot.stats'
.coverage.hist: no visible global function definition for 'hist'
.coverage.hist: no visible global function definition for 'lines'
.coverage.hist: no visible global function definition for 'axis'
.coverage.hist: no visible global function definition for 'mtext'
.coverage.hist: no visible global function definition for 'legend'
Rlepairs : localAxis: no visible global function definition for 'Axis'
Rlepairs : localUpperPanel: no visible global function definition for
'text'
Rlepairs : localLowerPanel: no visible global function definition for
'points'
Rlepairs : localLowerPanel: no visible global function definition for
'abline'
Rlepairs: no visible global function definition for 'par'
Rlepairs: no visible global function definition for 'box'
Rlepairs: no visible global function definition for 'strwidth'
Rlepairs: no visible global function definition for 'text'
Rlepairs: no visible global function definition for 'mtext'
TEQCreport: no visible global function definition for 'write.table'
chrom.barplot: no visible global function definition for 'seqnames'
chrom.barplot: no visible global function definition for 'barplot'
chrom.barplot: no visible global function definition for 'text'
chrom.barplot: no visible global function definition for 'par'
chrom.barplot: no visible global function definition for 'legend'
cortext: no visible global function definition for 'text'
covBoxplot: no visible global function definition for 'par'
covBoxplot: no visible global function definition for 'points'
covBoxplot: no visible global function definition for 'legend'
covcorplot: no visible global function definition for 'pairs'
coverage.GC: no visible global function definition for 'seqnames'
coverage.GC: no visible global function definition for 'lines'
coverage.GC: no visible global function definition for 'smooth.spline'
coverage.density: no visible global function definition for 'lines'
coverage.hist: no visible global function definition for 'par'
coverage.hist: no visible global function definition for
'boxplot.stats'
coverage.hist: no visible global function definition for 'hist'
coverage.hist: no visible global function definition for 'lines'
coverage.hist: no visible global function definition for 'axis'
coverage.hist: no visible global function definition for 'mtext'
coverage.hist: no visible global function definition for 'legend'
coverage.plot: no visible global function definition for 'Rle'
coverage.plot: no visible global function definition for 'abline'
coverage.plot: no visible global function definition for 'lines'
coverage.plot: no visible global function definition for 'seqnames'
coverage.plot: no visible global function definition for 'par'
coverage.plot: no visible global function definition for 'rect'
coverage.target: no visible global function definition for 'seqnames'
coverage.target: no visible global function definition for 'Rle'
coverage.targetlength.plot: no visible global function definition for
'mcols'
coverage.targetlength.plot: no visible global function definition for
'lines'
coverage.targetlength.plot: no visible global function definition for
'smooth.spline'
coverage.uniformity: no visible global function definition for 'lines'
covplot: no visible global function definition for 'par'
covplot: no visible global function definition for 'points'
covplot: no visible global function definition for 'axis'
covplot: no visible global function definition for 'legend'
duplicates.barplot: no visible global function definition for 'barplot'
duplicates.barplot: no visible global function definition for 'legend'
duplicates.barplot: no visible global function definition for 'text'
get.baits: no visible global function definition for 'read.delim'
get.baits: no visible global function definition for 'GRanges'
get.baits: no visible global function definition for 'sortSeqlevels'
get.reads: no visible global function definition for 'count.fields'
get.reads: no visible global function definition for 'read.delim'
get.reads: no visible global function definition for 'GRanges'
get.reads: no visible global function definition for 'keepSeqlevels'
get.reads: no visible global function definition for 'seqlevelsInUse'
get.reads: no visible global function definition for 'sortSeqlevels'
get.targets: no visible global function definition for 'count.fields'
get.targets: no visible global function definition for 'read.delim'
get.targets: no visible global function definition for 'GRanges'
get.targets: no visible global function definition for 'sortSeqlevels'
htmlChromBarplot: no visible global function definition for 'jpeg'
htmlChromBarplot: no visible global function definition for 'png'
htmlChromBarplot: no visible global function definition for 'tiff'
htmlChromBarplot: no visible global function definition for 'dev.off'
htmlChromBarplot: no visible global function definition for 'pdf'
htmlCovBoxplot: no visible global function definition for 'jpeg'
htmlCovBoxplot: no visible global function definition for 'png'
htmlCovBoxplot: no visible global function definition for 'tiff'
htmlCovBoxplot: no visible global function definition for 'dev.off'
htmlCovBoxplot: no visible global function definition for 'pdf'
htmlCovCorrelationPlot: no visible global function definition for
'jpeg'
htmlCovCorrelationPlot: no visible global function definition for 'png'
htmlCovCorrelationPlot: no visible global function definition for
'tiff'
htmlCovCorrelationPlot: no visible global function definition for
'dev.off'
htmlCovCorrelationPlot: no visible global function definition for 'pdf'
htmlCovGC: no visible global function definition for 'jpeg'
htmlCovGC: no visible global function definition for 'png'
htmlCovGC: no visible global function definition for 'tiff'
htmlCovGC: no visible global function definition for 'dev.off'
htmlCovGC: no visible global function definition for 'pdf'
htmlCovTargetLength: no visible global function definition for 'jpeg'
htmlCovTargetLength: no visible global function definition for 'png'
htmlCovTargetLength: no visible global function definition for 'tiff'
htmlCovTargetLength: no visible global function definition for 'par'
htmlCovTargetLength: no visible global function definition for
'dev.off'
htmlCovTargetLength: no visible global function definition for 'pdf'
htmlCovUniformity: no visible global function definition for 'jpeg'
htmlCovUniformity: no visible global function definition for 'png'
htmlCovUniformity: no visible global function definition for 'tiff'
htmlCovUniformity: no visible global function definition for 'dev.off'
htmlCovUniformity: no visible global function definition for 'pdf'
htmlCoverageHist: no visible global function definition for 'jpeg'
htmlCoverageHist: no visible global function definition for 'png'
htmlCoverageHist: no visible global function definition for 'tiff'
htmlCoverageHist: no visible global function definition for 'dev.off'
htmlCoverageHist: no visible global function definition for
'write.table'
htmlCoverageHist: no visible global function definition for 'pdf'
htmlDuplicatesBarplot: no visible global function definition for 'jpeg'
htmlDuplicatesBarplot: no visible global function definition for 'png'
htmlDuplicatesBarplot: no visible global function definition for 'tiff'
htmlDuplicatesBarplot: no visible global function definition for
'dev.off'
htmlDuplicatesBarplot: no visible global function definition for 'pdf'
htmlInsertSizeHist: no visible global function definition for 'jpeg'
htmlInsertSizeHist: no visible global function definition for 'png'
htmlInsertSizeHist: no visible global function definition for 'tiff'
htmlInsertSizeHist: no visible global function definition for 'dev.off'
htmlInsertSizeHist: no visible global function definition for 'pdf'
htmlSensiBarplot: no visible global function definition for 'jpeg'
htmlSensiBarplot: no visible global function definition for 'png'
htmlSensiBarplot: no visible global function definition for 'tiff'
htmlSensiBarplot: no visible global function definition for 'dev.off'
htmlSensiBarplot: no visible global function definition for 'pdf'
htmlSpeciBarplot: no visible global function definition for 'jpeg'
htmlSpeciBarplot: no visible global function definition for 'png'
htmlSpeciBarplot: no visible global function definition for 'tiff'
htmlSpeciBarplot: no visible global function definition for 'dev.off'
htmlSpeciBarplot: no visible global function definition for 'pdf'
htmlUniformityPlot: no visible global function definition for 'jpeg'
htmlUniformityPlot: no visible global function definition for 'png'
htmlUniformityPlot: no visible global function definition for 'tiff'
htmlUniformityPlot: no visible global function definition for 'dev.off'
htmlUniformityPlot: no visible global function definition for 'pdf'
html_img: no visible global function definition for 'jpeg'
html_img: no visible global function definition for 'png'
html_img: no visible global function definition for 'tiff'
html_img: no visible global function definition for 'dev.off'
html_img: no visible global function definition for 'pdf'
insert.size.hist: no visible global function definition for
'boxplot.stats'
insert.size.hist: no visible global function definition for 'hist'
insert.size.hist: no visible global function definition for 'abline'
insert.size.hist: no visible global function definition for 'legend'
make.multi.report: no visible global function definition for
'packageDescription'
make.report: no visible global function definition for
'packageDescription'
make.wigfiles: no visible global function definition for 'write.table'
multiTEQCreport: no visible global function definition for 'read.table'
multiTEQCreport: no visible global function definition for
'write.table'
myreduce: no visible global function definition for 'isTRUEorFALSE'
myreduce: no visible global function definition for 'isSingleNumber'
myreduce : FUN: no visible global function definition for 'new2'
myreduce: no visible global function definition for 'new2'
myreduce: no visible global function definition for 'endoapply'
plot.i: no visible global function definition for 'points'
plot.i: no visible global function definition for 'abline'
reads2pairs: no visible global function definition for 'seqnames'
reads2pairs: no visible global function definition for 'Rle'
reads2pairs: no visible global function definition for 'GRanges'
readsPerTarget: no visible global function definition for 'queryHits'
sensiBarplot: no visible global function definition for
'colorRampPalette'
sensiBarplot: no visible global function definition for 'par'
sensiBarplot: no visible global function definition for 'barplot'
sensiBarplot: no visible global function definition for 'legend'
speciBarplot: no visible global function definition for 'par'
speciBarplot: no visible global function definition for 'barplot'
unifplot: no visible global function definition for 'par'
unifplot: no visible global function definition for 'lines'
unifplot: no visible global function definition for 'legend'
Undefined global functions or variables:
Axis GRanges Rle abline axis barplot box boxplot.stats
colorRampPalette count.fields dev.off endoapply hist isSingleNumber
isTRUEorFALSE jpeg keepSeqlevels legend lines mcols mtext new2
packageDescription pairs par pdf png points queryHits read.delim
read.table rect seqlevelsInUse seqnames smooth.spline sortSeqlevels
strwidth text tiff write.table
Consider adding
importFrom("grDevices", "boxplot.stats", "colorRampPalette", "dev.off",
"jpeg", "pdf", "png", "tiff")
importFrom("graphics", "Axis", "abline", "axis", "barplot", "box",
"hist", "legend", "lines", "mtext", "pairs", "par",
"points", "rect", "strwidth", "text")
importFrom("stats", "smooth.spline")
importFrom("utils", "count.fields", "packageDescription", "read.delim",
"read.table", "write.table")
to your NAMESPACE file.
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... WARNING
Missing link or links in documentation object 'TEQCreport.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'chrom.barplot.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'coverage.GC.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'coverage.plot.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'coverage.target.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'coverage.targetlength.plot.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'duplicates.barplot.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'fraction.reads.target.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'fraction.target.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'get.baits.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'get.reads.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'get.targets.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'insert.size.hist.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'reads2pairs.Rd':
'[IRanges:RangedData-class]{RangedData}'
Missing link or links in documentation object 'readsPerTarget.Rd':
'[IRanges:RangedData-class]{RangedData}'
See section 'Cross-references' in the 'Writing R Extensions' manual.
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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 WARNINGs, 1 NOTE
See
'C:/Users/biocbuild/bbs-3.12-bioc/meat/TEQC.Rcheck/00check.log'
for details.
TEQC.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/TEQC_4.12.0.tar.gz && rm -rf TEQC.buildbin-libdir && mkdir TEQC.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=TEQC.buildbin-libdir TEQC_4.12.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL TEQC_4.12.0.zip && rm TEQC_4.12.0.tar.gz TEQC_4.12.0.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 272k 100 272k 0 0 17.1M 0 --:--:-- --:--:-- --:--:-- 17.7M
install for i386
* installing *source* package 'TEQC' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'TEQC'
finding HTML links ... done
TEQCreport html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/TEQCreport.Rd:17: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/TEQCreport.Rd:19: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/TEQCreport.Rd:42: missing file link 'RangedData-class'
chrom.barplot html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/chrom.barplot.Rd:9: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/chrom.barplot.Rd:13: missing file link 'RangedData-class'
coverage.GC html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/coverage.GC.Rd:12: missing file link 'RangedData-class'
coverage.correlation html
coverage.density html
coverage.hist html
coverage.plot html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/coverage.plot.Rd:12: missing file link 'RangedData-class'
coverage.target html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/coverage.target.Rd:11: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/coverage.target.Rd:13: missing file link 'RangedData-class'
coverage.targetlength.plot html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/coverage.targetlength.plot.Rd:13: missing file link 'RangedData-class'
coverage.uniformity html
covered.k html
duplicates.barplot html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/duplicates.barplot.Rd:12: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/duplicates.barplot.Rd:16: missing file link 'RangedData-class'
fraction.reads.target html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/fraction.reads.target.Rd:12: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/fraction.reads.target.Rd:16: missing file link 'RangedData-class'
fraction.target html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/fraction.target.Rd:9: missing file link 'RangedData-class'
get.baits html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/get.baits.Rd:29: missing file link 'RangedData-class'
get.reads html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/get.reads.Rd:43: missing file link 'RangedData-class'
get.targets html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/get.targets.Rd:24: missing file link 'RangedData-class'
insert.size.hist html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/insert.size.hist.Rd:12: missing file link 'RangedData-class'
make.wigfiles html
multiTEQCreport html
reads2pairs html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/reads2pairs.Rd:12: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/reads2pairs.Rd:33: missing file link 'RangedData-class'
readsPerTarget html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/readsPerTarget.Rd:11: missing file link 'RangedData-class'
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp2dq7nE/R.INSTALL18e8763a290f/TEQC/man/readsPerTarget.Rd:13: missing file link 'RangedData-class'
** 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 'TEQC' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TEQC' as TEQC_4.12.0.zip
* DONE (TEQC)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'TEQC' successfully unpacked and MD5 sums checked
|
TEQC.Rcheck/examples_i386/TEQC-Ex.timings
|
TEQC.Rcheck/examples_x64/TEQC-Ex.timings
|