DASiR 1.6.0
Oscar Flores , Anna Mantsoki
| Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/DASiR | | Last Changed Rev: 95439 / Revision: 102249 | | Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 2014) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | NotNeeded | OK | OK | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | OK | OK |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | OK | OK |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | [ OK ] | OK |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch DASiR_1.6.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.0-bioc/meat/DASiR.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DASiR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DASiR’ version ‘1.6.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘DASiR’ can be installed ... [14s/14s] 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
* 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:
‘Biostrings’ ‘GenomicRanges’ ‘IRanges’ ‘XML’
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.getCapabilities: no visible global function definition for ‘xmlSize’
.getCapabilities: no visible global function definition for ‘xmlAttrs’
.getFeature: no visible global function definition for ‘xmlAttrs’
.getFeature: no visible global function definition for ‘xmlSApply’
.getFeature: no visible binding for global variable ‘xmlValue’
.getGroup: no visible global function definition for ‘xmlAttrs’
.getSequence: no visible global function definition for ‘xmlValue’
.getStructure: no visible global function definition for ‘xmlAttrs’
.makeSegments: no visible global function definition for ‘seqnames’
getDasDsn: no visible global function definition for ‘xmlTreeParse’
getDasDsn: no visible global function definition for ‘xmlRoot’
getDasDsn: no visible global function definition for ‘xmlSApply’
getDasDsn : <anonymous>: no visible global function definition for
‘xmlAttrs’
getDasEntries: no visible global function definition for ‘xmlTreeParse’
getDasEntries : <anonymous>: no visible global function definition for
‘htmlTreeParse’
getDasEntries: no visible global function definition for ‘xmlRoot’
getDasEntries: no visible global function definition for ‘xmlApply’
getDasEntries: no visible binding for global variable ‘xmlAttrs’
getDasEntries: no visible global function definition for ‘GRanges’
getDasEntries: no visible global function definition for ‘IRanges’
getDasEntries: no visible global function definition for
‘elementMetadata<-’
getDasFeature: no visible global function definition for ‘xmlTreeParse’
getDasFeature: no visible global function definition for ‘xmlRoot’
getDasFeature: no visible global function definition for ‘xmlSize’
getDasFeature: no visible global function definition for ‘xmlApply’
getDasSequence: no visible global function definition for
‘xmlTreeParse’
getDasSequence: no visible global function definition for ‘xmlRoot’
getDasSequence: no visible global function definition for ‘xmlApply’
getDasSource: no visible global function definition for ‘xmlTreeParse’
getDasSource: no visible global function definition for ‘xmlRoot’
getDasSource: no visible global function definition for ‘xmlSApply’
getDasSource : <anonymous>: no visible global function definition for
‘xmlAttrs’
getDasStructure: no visible global function definition for
‘xmlTreeParse’
getDasStructure: no visible global function definition for ‘xmlRoot’
getDasStructure: no visible global function definition for ‘xmlSApply’
getDasStructure: no visible binding for global variable ‘xmlAttrs’
getDasTypes: no visible global function definition for ‘xmlTreeParse’
getDasTypes: no visible global function definition for ‘xmlRoot’
getDasTypes: no visible global function definition for ‘xmlSApply’
getDasTypes : <anonymous>: no visible global function definition for
‘xmlAttrs’
plotFeatures: no visible global function definition for ‘IRanges’
plotFeatures: no visible global function definition for ‘disjointBins’
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [13s/27s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
getDasStructure 4.410 0.036 7.14
DASiR-package 1.714 0.021 10.04
* 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
NOTE: There were 2 notes.
See
‘/Users/biocbuild/bbs-3.0-bioc/meat/DASiR.Rcheck/00check.log’
for details.