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IMPORTANT NOTE: R was configured with --enable-strict-barrier on lamb1 |
Package 26/247 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
arrayQuality1.13.0Agnes PaquetLast Changed Date: 2007-04-24 11:31:42 -0700 Last Changed Rev: 24217 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | OK | |
wellington | Linux (SUSE 9.2) | i686 | OK | OK | ||
liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | [ OK ] | OK | |
pitt | Mac OS X (10.4.10) | i386 | OK | OK | OK |
Package: arrayQuality |
Version: 1.13.0 |
Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check arrayQuality_1.13.0.tar.gz |
RetCode: 0 |
Time: 70.8 seconds |
Status: OK |
CheckDir: arrayQuality.Rcheck |
Warnings: 0 |
* checking for working latex ... OK * using log directory 'E:/biocbld/bbs-2.1-bioc/meat/arrayQuality.Rcheck' * using R version 2.6.0 Under development (unstable) (2007-08-06 r42439) * checking for file 'arrayQuality/DESCRIPTION' ... OK * this is package 'arrayQuality' version '1.13.0' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'arrayQuality' can be installed ... OK * checking package directory ... OK * checking for portable file names ... OK * checking DESCRIPTION meta-information ... OK * checking top-level 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 name space can be loaded with stated dependencies ... OK * checking for unstated 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 arrayScal: no visible binding for global variable 'MmReferenceDB' getSpikeIds: no visible binding for global variable 'MEEBOset' getSpikeIndex: no visible binding for global variable 'MEEBOset' heeboQuality: no visible binding for global variable 'HEEBOset' heeboQuality: no visible binding for global variable 'HEEBOctrl' heeboQuality: no visible binding for global variable 'HEEBOtilingres' heeboQualityPlots: no visible binding for global variable 'HEEBOset' meeboQuality: no visible binding for global variable 'MEEBOset' meeboQuality: no visible binding for global variable 'MEEBOctrl' meeboQuality: no visible binding for global variable 'MEEBOtilingres' meeboQualityPlots: no visible binding for global variable 'MEEBOset' PRvQCHyb: no visible binding for global variable 'MmDEGenes' qpBEplot.linear: no visible binding for global variable 'MEEBOctrl' qpBoxplotMeebo: no visible binding for global variable 'MEEBOset' qpDotPlotsEEBO: no visible binding for global variable 'MEEBOset' qpDotPlotsMeebo: no visible binding for global variable 'MEEBOset' qpMisMatchPlot: no visible binding for global variable 'HEEBOctrl' qpTiling: no visible binding for global variable 'MEEBOtilingres' qualBoxplot: no visible binding for global variable 'MmReferenceDB' qualBoxplot: no visible binding for global variable 'HsReferenceDB' qualityScore: no visible binding for global variable 'MmReferenceDB' readAllSpikes: no visible binding for global variable 'MEEBOset' scaleRefTable: no visible binding for global variable 'MmReferenceDB' Spike.Cy5vsCy3: no visible binding for global variable 'MEEBOset' Spike.Cy5vsCy3: no visible binding for global variable 'RG' Spike.Individual.Sensitivity: no visible binding for global variable 'RG' Spike.Individual.Sensitivity: no visible binding for global variable 'MEEBOset' Spike.Individual.Sensitivity: no visible binding for global variable 'MEEBOctrl' Spike.MM.Scatter: no visible binding for global variable 'RG' Spike.MM.Scatter: no visible binding for global variable 'MEEBOset' Spike.MMplot: no visible binding for global variable 'RG' Spike.MMplot: no visible binding for global variable 'MEEBOset' Spike.Sensitivity: no visible binding for global variable 'RG' Spike.Sensitivity: no visible binding for global variable 'MEEBOset' * checking Rd files ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking data for non-ASCII characters ... OK * creating arrayQuality-Ex.R ... OK * checking examples ... OK * creating arrayQuality-manual.tex ... OK * checking arrayQuality-manual.tex ... OK
arrayQuality.Rcheck/00install.out:
installing R.css in E:/biocbld/bbs-2.1-bioc/meat/arrayQuality.Rcheck ---------- Making package arrayQuality ------------ adding build stamp to DESCRIPTION installing NAMESPACE file and metadata installing R files installing inst files installing data files installing man source files installing indices not zipping data installing help Note: unmatched right brace in 'PRv9mers' on or after line 36 Note: unmatched right brace in 'PRv9mers.Rd' on or after line 36 Note: unmatched right brace in 'scaleRefTable' on or after line 11 Note: unmatched right brace in 'scaleRefTable' on or after line 32 Note: unmatched right brace in 'scaleRefTable.Rd' on or after line 11 Note: unmatched right brace in 'scaleRefTable.Rd' on or after line 32 >>> Building/Updating help pages for package 'arrayQuality' Formats: text html latex example chm MmDEGenes text html latex chm PRv9mers text html latex example chm PRvQCHyb text html latex example chm agQuality text html latex example chm arrayQuality-internal text html latex chm globalQuality text html latex example chm gpQuality text html latex example chm gprDB text html latex chm heeboQuality text html latex example chm heeboQualityPlots text html latex example chm maQualityPlots text html latex example chm meeboQuality text html latex example chm meeboQualityPlots text html latex example chm prdata text html latex chm qualBoxplot text html latex example chm qualityScore text html latex chm readAgilent text html latex example chm readGPR text html latex example chm readSpikeTypes text html latex example chm readSpot text html latex example chm readcontrolCode text html latex chm scaleRefTable text html latex chm slideQuality text html latex example chm spotQuality text html latex example chm Microsoft HTML Help Compiler 4.74.8702 Compiling e:\biocbld\bbs-2.1-bioc\meat\arrayQuality.Rcheck\00_pkg_src\arrayQuality\chm\arrayQuality.chm Compile time: 0 minutes, 0 seconds 25 Topics 137 Local links 0 Internet links 1 Graphic Created e:\biocbld\bbs-2.1-bioc\meat\arrayQuality.Rcheck\00_pkg_src\arrayQuality\chm\arrayQuality.chm, 45,075 bytes Compression decreased file by 61,297 bytes. preparing package arrayQuality for lazy loading Loading required package: marray Loading required package: limma Loading required package: convert Loading required package: Biobase Loading required package: tools Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation(pkgname)'. Loading required package: hexbin Loading required package: grid Loading required package: lattice Loading required package: gridBase Loading required package: RColorBrewer Warning in namespaceImportFrom(self, asNamespace(ns)) : replacing previous import: summary adding MD5 sums * DONE (arrayQuality)