| 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 329/658 | Hostname | OS / Arch | BUILD | CHECK | BUILD BIN | ||||
| IdMappingAnalysis 1.3.1 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 Leopard (10.5.8) / i386 | OK | WARNINGS | OK | |||||
| pelham | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | [ WARNINGS ] | OK |
| Package: IdMappingAnalysis |
| Version: 1.3.1 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch IdMappingAnalysis_1.3.1.tar.gz |
| StartedAt: 2013-03-24 06:42:15 -0700 (Sun, 24 Mar 2013) |
| EndedAt: 2013-03-24 06:44:32 -0700 (Sun, 24 Mar 2013) |
| EllapsedTime: 137.3 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 beta (2013-03-21 r62346)
* 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 '1.3.1'
* 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 ... [11s/13s] 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 ... [51s/51s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
getBootstrap.JointUniquePairs 11.409 0.429 11.918
Bootstrap 10.546 0.347 10.967
* 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 'IdMappingAnalysis.Rnw' using 'latin-9' ** testing if installed package can be loaded * DONE (IdMappingAnalysis)
IdMappingAnalysis.Rcheck/IdMappingAnalysis-Ex.timings:
| name | user | system | elapsed | |
| 000-LB-.IdMapBase | 0.732 | 0.051 | 0.788 | |
| Bootstrap | 10.546 | 0.347 | 10.967 | |
| Corr | 0.750 | 0.038 | 0.791 | |
| CorrData | 0.299 | 0.024 | 0.324 | |
| CsvList.merge.Misc | 0.014 | 0.003 | 0.017 | |
| IdMap | 0.018 | 0.006 | 0.024 | |
| IdMapBase | 0.011 | 0.005 | 0.016 | |
| IdMapCounts | 0.609 | 0.015 | 0.625 | |
| IdMapDiff | 0.919 | 0.015 | 0.971 | |
| IdMapDiffCounts | 0.584 | 0.026 | 0.612 | |
| JointIdMap | 0.128 | 0.008 | 0.136 | |
| JointUniquePairs | 1.031 | 0.025 | 1.062 | |
| Mixture | 0.361 | 0.007 | 0.383 | |
| UniquePairs | 0.018 | 0.004 | 0.023 | |
| aligned.IdMapBase | 0.036 | 0.005 | 0.042 | |
| as.IdMap.UniquePairs | 0.072 | 0.003 | 0.075 | |
| as.MultiSet.CorrData | 1.296 | 0.057 | 1.359 | |
| as.UniquePairs.IdMap | 0.042 | 0.005 | 0.048 | |
| as.data.frame.IdMapBase | 0.247 | 0.023 | 0.269 | |
| as.data.frame.JointIdMap | 0.125 | 0.013 | 0.138 | |
| as.list.IdMap | 0.029 | 0.005 | 0.033 | |
| boxplot.JointUniquePairs | 0.107 | 0.015 | 0.123 | |
| byColNames.Subset | 0.017 | 0.008 | 0.024 | |
| byColumn.Subset | 0.017 | 0.007 | 0.023 | |
| byRow.Subset | 0.023 | 0.007 | 0.030 | |
| byRowNames.Subset | 0.027 | 0.007 | 0.034 | |
| clust.Mixture | 0.009 | 0.005 | 0.013 | |
| copy.Display | 0.013 | 0.004 | 0.017 | |
| corr.boxplot.JointUniquePairs | 0.130 | 0.008 | 0.140 | |
| corr.plot.JointUniquePairs | 0.098 | 0.011 | 0.110 | |
| create.Display | 0.009 | 0.005 | 0.014 | |
| create.UniquePairs | 0.140 | 0.007 | 0.149 | |
| diffCounts.plot.JointIdMap | 0.703 | 0.012 | 0.717 | |
| dim.IdMapBase | 0.024 | 0.008 | 0.032 | |
| dimnames.IdMapBase | 0.027 | 0.009 | 0.035 | |
| do.glm.JointUniquePairs | 0.046 | 0.010 | 0.055 | |
| ecdf.plot.JointIdMap | 0.338 | 0.012 | 0.354 | |
| equals.UniquePairs | 0.051 | 0.008 | 0.060 | |
| fisherTransform.DataFilter | 0.002 | 0.003 | 0.007 | |
| fisherTransformInverse.DataFilter | 0.008 | 0.005 | 0.013 | |
| fisherTransformJacobean.DataFilter | 0.007 | 0.005 | 0.012 | |
| getBootstrap.JointUniquePairs | 11.409 | 0.429 | 11.918 | |
| getCompoundEvents.IdMapDiffCounts | 0.595 | 0.016 | 0.613 | |
| getCompoundGroups.IdMapDiffCounts | 0.742 | 0.019 | 0.764 | |
| getCorr.JointUniquePairs | 0.090 | 0.006 | 0.097 | |
| getCorrData.JointUniquePairs | 0.345 | 0.031 | 0.444 | |
| getCorrDataFrame.JointUniquePairs | 0.055 | 0.008 | 0.063 | |
| getCounts.IdMap | 0.035 | 0.004 | 0.038 | |
| getCounts.JointIdMap | 0.278 | 0.005 | 0.284 | |
| getData.Corr | 0.012 | 0.007 | 0.018 | |
| getData.Mixture | 0.011 | 0.005 | 0.016 | |
| getDiff.JointIdMap | 0.385 | 0.015 | 0.401 | |
| getExperimentSet.CorrData | 0.333 | 0.031 | 0.365 | |
| getIdMapList.JointIdMap | 0.140 | 0.013 | 0.153 | |
| getMapNames.JointIdMap | 0.140 | 0.007 | 0.148 | |
| getMapNames.JointUniquePairs | 0.016 | 0.005 | 0.021 | |
| getMatch.UniquePairs | 0.070 | 0.007 | 0.078 | |
| getMatchInfo.JointIdMap | 0.137 | 0.011 | 0.150 | |
| getMatchInfo.JointUniquePairs | 0.646 | 0.006 | 0.694 | |
| getMixture.JointUniquePairs | 0.263 | 0.008 | 0.275 | |
| getSampleNames.CorrData | 0.011 | 0.004 | 0.015 | |
| getStats.IdMapCounts | 0.320 | 0.013 | 0.333 | |
| getStats.Mixture | 0.018 | 0.003 | 0.021 | |
| getUnionIdMap.JointIdMap | 0.696 | 0.015 | 0.715 | |
| getUniquePairs.Corr | 0.015 | 0.004 | 0.019 | |
| getUniquePairs.CorrData | 0.023 | 0.006 | 0.030 | |
| getUniquePairs.JointUniquePairs | 0.016 | 0.004 | 0.019 | |
| interactive.corr.boxplot.JointUniquePairs | 0.157 | 0.011 | 0.168 | |
| interactive.corr.plot.JointUniquePairs | 0.082 | 0.021 | 0.104 | |
| interactive.mixture.boxplot.JointUniquePairs | 0.322 | 0.031 | 0.356 | |
| interactive.mixture.plot.JointUniquePairs | 0.260 | 0.023 | 0.282 | |
| interactive.plot.CorrData | 0.083 | 0.012 | 0.097 | |
| interactive.plot.JointUniquePairs | 0.009 | 0.007 | 0.017 | |
| interleave.Misc | 0.008 | 0.005 | 0.014 | |
| line.loess.Display | 0.009 | 0.006 | 0.015 | |
| line.unsorted.Display | 0.009 | 0.006 | 0.016 | |
| log10.DataFilter | 0.044 | 0.011 | 0.056 | |
| merge.IdMap | 0.975 | 0.021 | 1.004 | |
| minAvgCountConstraint.DataFilter | 0.239 | 0.028 | 0.271 | |
| minCountConstraint.DataFilter | 0.248 | 0.029 | 0.277 | |
| minCountGroupConstraint.DataFilter | 0.323 | 0.039 | 0.362 | |
| mixture.boxplot.JointUniquePairs | 0.367 | 0.016 | 0.384 | |
| mixture.plot.JointUniquePairs | 0.254 | 0.010 | 0.266 | |
| plot.Bootstrap | 0.137 | 0.011 | 0.149 | |
| plot.Corr | 0.131 | 0.011 | 0.146 | |
| plot.CorrData | 0.084 | 0.007 | 0.093 | |
| plot.IdMapCounts | 0.307 | 0.010 | 0.320 | |
| plot.IdMapDiffCounts | 1.154 | 0.026 | 1.188 | |
| plot.Mixture | 0.036 | 0.014 | 0.051 | |
| primaryIDs.IdMapBase | 0.013 | 0.006 | 0.020 | |
| primaryKey.CorrData | 0.010 | 0.006 | 0.016 | |
| primaryKey.IdMapBase | 0.014 | 0.008 | 0.021 | |
| primaryKey.Mixture | 0.004 | 0.005 | 0.010 | |
| progressMsg.Display | 0.004 | 0.005 | 0.008 | |
| removeNASeries.DataFilter | 0.313 | 0.032 | 0.348 | |
| secondaryKey.CorrData | 0.010 | 0.008 | 0.017 | |
| secondaryKey.IdMapBase | 0.013 | 0.006 | 0.018 | |
| secondaryKey.Mixture | 0.009 | 0.004 | 0.014 | |
| subsetCorr.JointUniquePairs | 0.033 | 0.007 | 0.040 | |
| subsetData.JointUniquePairs | 0.025 | 0.011 | 0.036 | |
| subsetGroups.JointUniquePairs | 1.002 | 0.024 | 1.032 | |
| summary.IdMapDiffCounts | 0.640 | 0.012 | 0.651 | |
| swapKeys.IdMap | 0.139 | 0.010 | 0.150 | |
| swapKeys.UniquePairs | 0.043 | 0.007 | 0.051 | |
| textBoundingBox.Display | 0.012 | 0.005 | 0.017 | |
| to.base.Misc | 0.013 | 0.004 | 0.017 | |
| to.binary.logical.Misc | 0.027 | 0.004 | 0.032 | |
| to.index.expr.Misc | 0.017 | 0.004 | 0.022 | |
| unique.UniquePairs | 0.126 | 0.010 | 0.135 | |
| words.Misc | 0.012 | 0.004 | 0.015 | |
| zoom.pars.Display | 0.160 | 0.007 | 0.167 | |