| Back to the "Multiple platform build/check report" | A B C D E F G H [I] J K L M N O P Q R S T U V W X Y Z |
| Package 334/671 | Hostname | OS / Arch | BUILD | CHECK | BUILD BIN | ||||
| IdMappingAnalysis 1.4.0 Alex Lisovich
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | WARNINGS | |||||
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | WARNINGS | OK | |||||
| petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | WARNINGS | OK | |||||
| pelham | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | [ WARNINGS ] | OK |
| Package: IdMappingAnalysis |
| Version: 1.4.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch IdMappingAnalysis_1.4.0.tar.gz |
| StartedAt: 2013-05-01 06:59:54 -0700 (Wed, 01 May 2013) |
| EndedAt: 2013-05-01 07:02:10 -0700 (Wed, 01 May 2013) |
| EllapsedTime: 135.3 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: IdMappingAnalysis.Rcheck |
| Warnings: 1 |
* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/IdMappingAnalysis.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'IdMappingAnalysis/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'IdMappingAnalysis' version '1.4.0'
* 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 'IdMappingAnalysis' can be installed ... [10s/12s] OK
* checking installed package size ... OK
* checking package 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 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
NB: .First.lib is obsolete and will not be used in R >= 3.0.0
* checking Rd files ... WARNING
checkRd: (3) CsvList.merge.Misc.Rd:22: \synopsis will be removed in R 3.1.0
checkRd: (3) as.list.IdMap.Rd:26: \synopsis will be removed in R 3.1.0
checkRd: (3) boxplotdataJitter.JointUniquePairs.Rd:23: \synopsis will be removed in R 3.1.0
checkRd: (3) byColNames.Subset.Rd:26: \synopsis will be removed in R 3.1.0
checkRd: (3) byColumn.Subset.Rd:26: \synopsis will be removed in R 3.1.0
checkRd: (3) byRow.Subset.Rd:26: \synopsis will be removed in R 3.1.0
checkRd: (3) byRowNames.Subset.Rd:26: \synopsis will be removed in R 3.1.0
checkRd: (3) copy.Display.Rd:22: \synopsis will be removed in R 3.1.0
checkRd: (3) create.Display.Rd:20: \synopsis will be removed in R 3.1.0
checkRd: (3) create.UniquePairs.Rd:26: \synopsis will be removed in R 3.1.0
checkRd: (3) do.apply.DataFilter.Rd:27: \synopsis will be removed in R 3.1.0
checkRd: (3) fisherTransform.DataFilter.Rd:19: \synopsis will be removed in R 3.1.0
checkRd: (3) fisherTransformInverse.DataFilter.Rd:19: \synopsis will be removed in R 3.1.0
checkRd: (3) fisherTransformJacobean.DataFilter.Rd:19: \synopsis will be removed in R 3.1.0
checkRd: (3) interleave.Misc.Rd:20: \synopsis will be removed in R 3.1.0
checkRd: (3) line.loess.Display.Rd:20: \synopsis will be removed in R 3.1.0
checkRd: (3) line.unsorted.Display.Rd:20: \synopsis will be removed in R 3.1.0
checkRd: (3) log10.DataFilter.Rd:19: \synopsis will be removed in R 3.1.0
checkRd: (3) minAvgCountConstraint.DataFilter.Rd:19: \synopsis will be removed in R 3.1.0
checkRd: (3) minCountConstraint.DataFilter.Rd:19: \synopsis will be removed in R 3.1.0
checkRd: (3) minCountGroupConstraint.DataFilter.Rd:19: \synopsis will be removed in R 3.1.0
checkRd: (3) pack.experiments.CorrData.Rd:21: \synopsis will be removed in R 3.1.0
checkRd: (3) progressMsg.Display.Rd:22: \synopsis will be removed in R 3.1.0
checkRd: (3) removeNASeries.DataFilter.Rd:19: \synopsis will be removed in R 3.1.0
checkRd: (3) swapKeys.IdMap.Rd:19: \synopsis will be removed in R 3.1.0
checkRd: (3) swapKeys.UniquePairs.Rd:19: \synopsis will be removed in R 3.1.0
checkRd: (3) textBoundingBox.Display.Rd:28: \synopsis will be removed in R 3.1.0
checkRd: (3) to.base.Misc.Rd:20: \synopsis will be removed in R 3.1.0
checkRd: (3) to.binary.logical.Misc.Rd:22: \synopsis will be removed in R 3.1.0
checkRd: (3) to.index.expr.Misc.Rd:25: \synopsis will be removed in R 3.1.0
checkRd: (3) words.Misc.Rd:22: \synopsis will be removed in R 3.1.0
checkRd: (3) zoom.pars.Display.Rd:20: \synopsis will be removed in R 3.1.0
* 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 data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [49s/50s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
getBootstrap.JointUniquePairs 10.925 0.342 11.469
Bootstrap 10.268 0.360 10.758
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK
WARNING: There was 1 warning.
NOTE: There was 1 note.
See
'/Users/biocbuild/bbs-2.12-bioc/meat/IdMappingAnalysis.Rcheck/00check.log'
for details.
IdMappingAnalysis.Rcheck/00install.out:
* installing *source* package 'IdMappingAnalysis' ... ** R ** data *** moving datasets to lazyload DB ** demo ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (IdMappingAnalysis)
IdMappingAnalysis.Rcheck/IdMappingAnalysis-Ex.timings:
| name | user | system | elapsed | |
| 000-LB-.IdMapBase | 0.720 | 0.058 | 0.793 | |
| Bootstrap | 10.268 | 0.360 | 10.758 | |
| Corr | 0.757 | 0.046 | 0.820 | |
| CorrData | 0.348 | 0.019 | 0.369 | |
| CsvList.merge.Misc | 0.010 | 0.004 | 0.014 | |
| IdMap | 0.020 | 0.006 | 0.026 | |
| IdMapBase | 0.011 | 0.004 | 0.015 | |
| IdMapCounts | 0.539 | 0.019 | 0.564 | |
| IdMapDiff | 0.907 | 0.016 | 0.936 | |
| IdMapDiffCounts | 0.532 | 0.011 | 0.570 | |
| JointIdMap | 0.223 | 0.007 | 0.230 | |
| JointUniquePairs | 0.881 | 0.026 | 0.911 | |
| Mixture | 0.359 | 0.007 | 0.395 | |
| UniquePairs | 0.018 | 0.005 | 0.023 | |
| aligned.IdMapBase | 0.036 | 0.008 | 0.044 | |
| as.IdMap.UniquePairs | 0.069 | 0.004 | 0.073 | |
| as.MultiSet.CorrData | 1.272 | 0.052 | 1.328 | |
| as.UniquePairs.IdMap | 0.031 | 0.010 | 0.042 | |
| as.data.frame.IdMapBase | 0.129 | 0.011 | 0.141 | |
| as.data.frame.JointIdMap | 0.136 | 0.007 | 0.143 | |
| as.list.IdMap | 0.036 | 0.005 | 0.040 | |
| boxplot.JointUniquePairs | 0.118 | 0.014 | 0.133 | |
| byColNames.Subset | 0.025 | 0.005 | 0.030 | |
| byColumn.Subset | 0.015 | 0.006 | 0.021 | |
| byRow.Subset | 0.021 | 0.005 | 0.026 | |
| byRowNames.Subset | 0.017 | 0.005 | 0.023 | |
| clust.Mixture | 0.012 | 0.004 | 0.016 | |
| copy.Display | 0.007 | 0.003 | 0.010 | |
| corr.boxplot.JointUniquePairs | 0.141 | 0.015 | 0.164 | |
| corr.plot.JointUniquePairs | 0.088 | 0.009 | 0.100 | |
| create.Display | 0.007 | 0.005 | 0.012 | |
| create.UniquePairs | 0.135 | 0.008 | 0.145 | |
| diffCounts.plot.JointIdMap | 0.746 | 0.017 | 0.769 | |
| dim.IdMapBase | 0.028 | 0.006 | 0.034 | |
| dimnames.IdMapBase | 0.029 | 0.005 | 0.034 | |
| do.glm.JointUniquePairs | 0.039 | 0.004 | 0.044 | |
| ecdf.plot.JointIdMap | 0.378 | 0.012 | 0.393 | |
| equals.UniquePairs | 0.057 | 0.007 | 0.063 | |
| fisherTransform.DataFilter | 0.008 | 0.004 | 0.011 | |
| fisherTransformInverse.DataFilter | 0.008 | 0.004 | 0.010 | |
| fisherTransformJacobean.DataFilter | 0.010 | 0.003 | 0.012 | |
| getBootstrap.JointUniquePairs | 10.925 | 0.342 | 11.469 | |
| getCompoundEvents.IdMapDiffCounts | 0.736 | 0.030 | 0.779 | |
| getCompoundGroups.IdMapDiffCounts | 0.600 | 0.025 | 0.644 | |
| getCorr.JointUniquePairs | 0.110 | 0.006 | 0.117 | |
| getCorrData.JointUniquePairs | 0.305 | 0.024 | 0.330 | |
| getCorrDataFrame.JointUniquePairs | 0.052 | 0.004 | 0.056 | |
| getCounts.IdMap | 0.036 | 0.004 | 0.040 | |
| getCounts.JointIdMap | 0.257 | 0.015 | 0.279 | |
| getData.Corr | 0.010 | 0.006 | 0.017 | |
| getData.Mixture | 0.015 | 0.008 | 0.024 | |
| getDiff.JointIdMap | 0.347 | 0.012 | 0.372 | |
| getExperimentSet.CorrData | 0.213 | 0.028 | 0.243 | |
| getIdMapList.JointIdMap | 0.141 | 0.012 | 0.156 | |
| getMapNames.JointIdMap | 0.123 | 0.007 | 0.131 | |
| getMapNames.JointUniquePairs | 0.010 | 0.005 | 0.016 | |
| getMatch.UniquePairs | 0.074 | 0.006 | 0.081 | |
| getMatchInfo.JointIdMap | 0.137 | 0.008 | 0.147 | |
| getMatchInfo.JointUniquePairs | 0.622 | 0.007 | 0.640 | |
| getMixture.JointUniquePairs | 0.274 | 0.008 | 0.288 | |
| getSampleNames.CorrData | 0.016 | 0.004 | 0.020 | |
| getStats.IdMapCounts | 0.451 | 0.023 | 0.512 | |
| getStats.Mixture | 0.012 | 0.006 | 0.018 | |
| getUnionIdMap.JointIdMap | 0.653 | 0.018 | 0.684 | |
| getUniquePairs.Corr | 0.015 | 0.006 | 0.021 | |
| getUniquePairs.CorrData | 0.017 | 0.008 | 0.026 | |
| getUniquePairs.JointUniquePairs | 0.015 | 0.006 | 0.021 | |
| interactive.corr.boxplot.JointUniquePairs | 0.142 | 0.021 | 0.168 | |
| interactive.corr.plot.JointUniquePairs | 0.080 | 0.020 | 0.103 | |
| interactive.mixture.boxplot.JointUniquePairs | 0.346 | 0.030 | 0.380 | |
| interactive.mixture.plot.JointUniquePairs | 0.271 | 0.019 | 0.298 | |
| interactive.plot.CorrData | 0.092 | 0.008 | 0.104 | |
| interactive.plot.JointUniquePairs | 0.010 | 0.004 | 0.014 | |
| interleave.Misc | 0.008 | 0.003 | 0.011 | |
| line.loess.Display | 0.009 | 0.005 | 0.013 | |
| line.unsorted.Display | 0.009 | 0.006 | 0.017 | |
| log10.DataFilter | 0.048 | 0.012 | 0.060 | |
| merge.IdMap | 1.013 | 0.018 | 1.052 | |
| minAvgCountConstraint.DataFilter | 0.258 | 0.024 | 0.282 | |
| minCountConstraint.DataFilter | 0.381 | 0.030 | 0.415 | |
| minCountGroupConstraint.DataFilter | 0.313 | 0.043 | 0.355 | |
| mixture.boxplot.JointUniquePairs | 0.333 | 0.014 | 0.349 | |
| mixture.plot.JointUniquePairs | 0.253 | 0.008 | 0.270 | |
| plot.Bootstrap | 0.141 | 0.007 | 0.150 | |
| plot.Corr | 0.113 | 0.012 | 0.129 | |
| plot.CorrData | 0.067 | 0.006 | 0.074 | |
| plot.IdMapCounts | 0.299 | 0.011 | 0.316 | |
| plot.IdMapDiffCounts | 0.943 | 0.018 | 0.990 | |
| plot.Mixture | 0.028 | 0.008 | 0.039 | |
| primaryIDs.IdMapBase | 0.015 | 0.009 | 0.024 | |
| primaryKey.CorrData | 0.009 | 0.006 | 0.017 | |
| primaryKey.IdMapBase | 0.011 | 0.007 | 0.019 | |
| primaryKey.Mixture | 0.009 | 0.006 | 0.016 | |
| progressMsg.Display | 0.009 | 0.005 | 0.014 | |
| removeNASeries.DataFilter | 0.269 | 0.030 | 0.299 | |
| secondaryKey.CorrData | 0.009 | 0.006 | 0.015 | |
| secondaryKey.IdMapBase | 0.011 | 0.006 | 0.017 | |
| secondaryKey.Mixture | 0.010 | 0.005 | 0.015 | |
| subsetCorr.JointUniquePairs | 0.030 | 0.006 | 0.037 | |
| subsetData.JointUniquePairs | 0.029 | 0.010 | 0.040 | |
| subsetGroups.JointUniquePairs | 0.898 | 0.023 | 0.930 | |
| summary.IdMapDiffCounts | 0.577 | 0.018 | 0.609 | |
| swapKeys.IdMap | 0.137 | 0.006 | 0.143 | |
| swapKeys.UniquePairs | 0.044 | 0.007 | 0.052 | |
| textBoundingBox.Display | 0.018 | 0.004 | 0.022 | |
| to.base.Misc | 0.004 | 0.003 | 0.007 | |
| to.binary.logical.Misc | 0.011 | 0.004 | 0.016 | |
| to.index.expr.Misc | 0.009 | 0.004 | 0.012 | |
| unique.UniquePairs | 0.102 | 0.012 | 0.116 | |
| words.Misc | 0.013 | 0.003 | 0.015 | |
| zoom.pars.Display | 0.010 | 0.004 | 0.014 | |