Michael Lawrence
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/HelloRanges |
| Branch: RELEASE_3_6 |
| Last Commit: baf0087 |
| Last Changed Date: 2017-10-30 12:41:23 -0400 (Mon, 30 Oct 2017) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:28:56 -0400 (Thu, 12 Apr 2018).
| Package 645/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| HelloRanges 1.4.0 Michael Lawrence
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | [ WARNINGS ] | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | |
| Package: HelloRanges |
| Version: 1.4.0 |
| Command: rm -rf HelloRanges.buildbin-libdir HelloRanges.Rcheck && mkdir HelloRanges.buildbin-libdir HelloRanges.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=HelloRanges.buildbin-libdir HelloRanges_1.4.0.tar.gz >HelloRanges.Rcheck\00install.out 2>&1 && cp HelloRanges.Rcheck\00install.out HelloRanges-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=HelloRanges.buildbin-libdir --install="check:HelloRanges-install.out" --force-multiarch --no-vignettes --timings HelloRanges_1.4.0.tar.gz |
| StartedAt: 2018-04-12 00:41:26 -0400 (Thu, 12 Apr 2018) |
| EndedAt: 2018-04-12 00:49:19 -0400 (Thu, 12 Apr 2018) |
| EllapsedTime: 472.7 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: HelloRanges.Rcheck |
| Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf HelloRanges.buildbin-libdir HelloRanges.Rcheck && mkdir HelloRanges.buildbin-libdir HelloRanges.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=HelloRanges.buildbin-libdir HelloRanges_1.4.0.tar.gz >HelloRanges.Rcheck\00install.out 2>&1 && cp HelloRanges.Rcheck\00install.out HelloRanges-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=HelloRanges.buildbin-libdir --install="check:HelloRanges-install.out" --force-multiarch --no-vignettes --timings HelloRanges_1.4.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/HelloRanges.Rcheck' * using R version 3.4.4 (2018-03-15) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'HelloRanges/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'HelloRanges' version '1.4.0' * checking package namespace information ... OK * checking package dependencies ... NOTE Depends: includes the non-default packages: 'BiocGenerics' 'S4Vectors' 'IRanges' 'GenomicRanges' 'Biostrings' 'BSgenome' 'GenomicFeatures' 'VariantAnnotation' 'Rsamtools' 'GenomicAlignments' 'rtracklayer' 'GenomeInfoDb' 'SummarizedExperiment' 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 'HelloRanges' can be installed ... WARNING Found the following significant warnings: Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_closest.Rd:126: missing file link 'nearest' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_closest.Rd:150: missing file link 'nearest' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_closest.Rd:150: missing file link 'precede' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_closest.Rd:151: missing file link 'follow' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_closest.Rd:151: missing file link 'nearest' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_complement.Rd:59: missing file link 'setdiff' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_complement.Rd:62: missing file link 'gaps' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_coverage.Rd:127: missing file link 'coverage' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_flank.Rd:83: missing file link 'flank' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_genomecov.Rd:112: missing file link 'coverage' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_getfasta.Rd:72: missing file link 'import' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_getfasta.Rd:76: missing file link 'readDNAStringSet' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_groupby.Rd:77: missing file link 'aggregate' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_jaccard.Rd:97: missing file link 'intersect' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_jaccard.Rd:98: missing file link 'union' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_makewindows.Rd:71: missing file link 'tile' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_makewindows.Rd:72: missing file link 'slidingWindows' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_map.Rd:123: missing file link 'findOverlaps' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_map.Rd:124: missing file link 'Hits' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_map.Rd:125: missing file link 'aggregate' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_merge.Rd:89: missing file link 'reduce' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_merge.Rd:91: missing file link 'aggregate' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_merge.Rd:111: missing file link 'reduce' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_multiinter.Rd:10: missing file link 'disjoin' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_multiinter.Rd:69: missing file link 'disjoin' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_multiinter.Rd:87: missing file link 'disjoin' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_nuc.Rd:69: missing file link 'alphabetFrequency' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_nuc.Rd:71: missing file link 'vcountPattern' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_shift.Rd:76: missing file link 'shift' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_slop.Rd:83: missing file link 'resize' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_subtract.Rd:107: missing file link 'setdiff' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_subtract.Rd:118: missing file link 'subsetByOverlaps' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_unionbedg.Rd:10: missing file link 'disjoin' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_unionbedg.Rd:85: missing file link 'disjoin' Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/pair.Rd:45: missing file link 'Pairs' See 'C:/Users/biocbuild/bbs-3.6-bioc/meat/HelloRanges.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 ** checking loading without being on the library search path ... 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 loading without being on the library search path ... OK * checking dependencies in R code ... NOTE Packages in Depends field not imported from: 'BSgenome' 'GenomicAlignments' 'GenomicFeatures' 'VariantAnnotation' These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. Unexported objects imported by ':::' calls: 'BiocGenerics:::testPackage' 'IRanges:::subgrouping' 'S4Vectors:::make_zero_col_DataFrame' See the note in ?`:::` about the use of this operator. * 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 installed files from 'inst/doc' ... 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 'HelloRanges_unit_tests.R' OK ** running tests for arch 'x64' ... Running 'HelloRanges_unit_tests.R' OK * checking for unstated dependencies in vignettes ... NOTE 'library' or 'require' call not declared from: 'TxDb.Hsapiens.UCSC.hg19.knownGene' * 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, 3 NOTEs See 'C:/Users/biocbuild/bbs-3.6-bioc/meat/HelloRanges.Rcheck/00check.log' for details.
HelloRanges.Rcheck/00install.out
install for i386
* installing *source* package 'HelloRanges' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'HelloRanges'
finding HTML links ... done
argparse html
bedtools_closest html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_closest.Rd:126: missing file link 'nearest'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_closest.Rd:150: missing file link 'nearest'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_closest.Rd:150: missing file link 'precede'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_closest.Rd:151: missing file link 'follow'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_closest.Rd:151: missing file link 'nearest'
bedtools_complement html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_complement.Rd:59: missing file link 'setdiff'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_complement.Rd:62: missing file link 'gaps'
bedtools_coverage html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_coverage.Rd:127: missing file link 'coverage'
bedtools_flank html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_flank.Rd:83: missing file link 'flank'
bedtools_genomecov html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_genomecov.Rd:112: missing file link 'coverage'
bedtools_getfasta html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_getfasta.Rd:72: missing file link 'import'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_getfasta.Rd:76: missing file link 'readDNAStringSet'
bedtools_groupby html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_groupby.Rd:77: missing file link 'aggregate'
bedtools_intersect html
bedtools_jaccard html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_jaccard.Rd:97: missing file link 'intersect'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_jaccard.Rd:98: missing file link 'union'
bedtools_makewindows html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_makewindows.Rd:71: missing file link 'tile'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_makewindows.Rd:72: missing file link 'slidingWindows'
bedtools_map html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_map.Rd:123: missing file link 'findOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_map.Rd:124: missing file link 'Hits'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_map.Rd:125: missing file link 'aggregate'
bedtools_merge html
finding level-2 HTML links ... done
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_merge.Rd:89: missing file link 'reduce'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_merge.Rd:91: missing file link 'aggregate'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_merge.Rd:111: missing file link 'reduce'
bedtools_multiinter html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_multiinter.Rd:10: missing file link 'disjoin'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_multiinter.Rd:69: missing file link 'disjoin'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_multiinter.Rd:87: missing file link 'disjoin'
bedtools_nuc html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_nuc.Rd:69: missing file link 'alphabetFrequency'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_nuc.Rd:71: missing file link 'vcountPattern'
bedtools_shift html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_shift.Rd:76: missing file link 'shift'
bedtools_slop html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_slop.Rd:83: missing file link 'resize'
bedtools_subtract html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_subtract.Rd:107: missing file link 'setdiff'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_subtract.Rd:118: missing file link 'subsetByOverlaps'
bedtools_unionbedg html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_unionbedg.Rd:10: missing file link 'disjoin'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/bedtools_unionbedg.Rd:85: missing file link 'disjoin'
distmode html
pair html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpE1uKFR/R.INSTALL21f447c875cf/HelloRanges/man/pair.Rd:45: missing file link 'Pairs'
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'HelloRanges' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'HelloRanges' as HelloRanges_1.4.0.zip
* DONE (HelloRanges)
In R CMD INSTALL
In R CMD INSTALL
|
HelloRanges.Rcheck/tests_i386/HelloRanges_unit_tests.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 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.
> require("HelloRanges") || stop("unable to load HelloRanges package")
Loading required package: HelloRanges
Loading required package: BiocGenerics
Loading required package: parallel
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, cbind, colMeans, colSums, colnames, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unsplit, which,
which.max, which.min
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Loading required package: IRanges
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
Loading required package: Biostrings
Loading required package: XVector
Attaching package: 'Biostrings'
The following object is masked from 'package:base':
strsplit
Loading required package: BSgenome
Loading required package: rtracklayer
Loading required package: GenomicFeatures
Loading required package: AnnotationDbi
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: VariantAnnotation
Loading required package: SummarizedExperiment
Loading required package: DelayedArray
Loading required package: matrixStats
Attaching package: 'matrixStats'
The following objects are masked from 'package:Biobase':
anyMissing, rowMedians
Attaching package: 'DelayedArray'
The following objects are masked from 'package:matrixStats':
colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges
The following object is masked from 'package:Biostrings':
type
The following object is masked from 'package:base':
apply
Loading required package: Rsamtools
Attaching package: 'VariantAnnotation'
The following object is masked from 'package:base':
tabulate
Loading required package: GenomicAlignments
[1] TRUE
> HelloRanges:::.test()
RUNIT TEST PROTOCOL -- Thu Apr 12 00:48:21 2018
***********************************************
Number of test functions: 17
Number of errors: 0
Number of failures: 0
1 Test Suite :
HelloRanges RUnit Tests - 17 test functions, 0 errors, 0 failures
Number of test functions: 17
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
41.06 0.65 41.87
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
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HelloRanges.Rcheck/tests_x64/HelloRanges_unit_tests.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 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.
> require("HelloRanges") || stop("unable to load HelloRanges package")
Loading required package: HelloRanges
Loading required package: BiocGenerics
Loading required package: parallel
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, cbind, colMeans, colSums, colnames, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unsplit, which,
which.max, which.min
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Loading required package: IRanges
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
Loading required package: Biostrings
Loading required package: XVector
Attaching package: 'Biostrings'
The following object is masked from 'package:base':
strsplit
Loading required package: BSgenome
Loading required package: rtracklayer
Loading required package: GenomicFeatures
Loading required package: AnnotationDbi
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: VariantAnnotation
Loading required package: SummarizedExperiment
Loading required package: DelayedArray
Loading required package: matrixStats
Attaching package: 'matrixStats'
The following objects are masked from 'package:Biobase':
anyMissing, rowMedians
Attaching package: 'DelayedArray'
The following objects are masked from 'package:matrixStats':
colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges
The following object is masked from 'package:Biostrings':
type
The following object is masked from 'package:base':
apply
Loading required package: Rsamtools
Attaching package: 'VariantAnnotation'
The following object is masked from 'package:base':
tabulate
Loading required package: GenomicAlignments
[1] TRUE
> HelloRanges:::.test()
RUNIT TEST PROTOCOL -- Thu Apr 12 00:49:14 2018
***********************************************
Number of test functions: 17
Number of errors: 0
Number of failures: 0
1 Test Suite :
HelloRanges RUnit Tests - 17 test functions, 0 errors, 0 failures
Number of test functions: 17
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
52.64 0.39 53.06
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
[samopen] SAM header is present: 1 sequences.
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HelloRanges.Rcheck/examples_i386/HelloRanges-Ex.timings
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HelloRanges.Rcheck/examples_x64/HelloRanges-Ex.timings
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