Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:16 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the phemd package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/phemd.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1379/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
phemd 1.8.0 (landing page) William S Chen
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: phemd |
Version: 1.8.0 |
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:phemd.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings phemd_1.8.0.tar.gz |
StartedAt: 2021-10-15 03:19:33 -0400 (Fri, 15 Oct 2021) |
EndedAt: 2021-10-15 03:29:17 -0400 (Fri, 15 Oct 2021) |
EllapsedTime: 584.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: phemd.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:phemd.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings phemd_1.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/phemd.Rcheck' * using R version 4.1.1 (2021-08-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'phemd/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'phemd' version '1.8.0' * package encoding: UTF-8 * 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 whether package 'phemd' can be installed ... 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 * 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 * 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 dependencies in R code ... NOTE Unexported objects imported by ':::' calls: 'VGAM:::VGAM.weights.function' 'pheatmap:::find_coordinates' 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 contents of 'data' directory ... OK * checking data for non-ASCII characters ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed printClusterAssignments 9.22 0.39 9.61 getSampleCelltypeFreqs 7.96 0.19 8.14 getCellYield 7.78 0.36 8.14 compareSamples 7.61 0.36 7.97 getSampleHistsByCluster 7.65 0.14 7.79 clusterIndividualSamples 7.55 0.16 7.71 groupSamples 7.32 0.14 7.46 Phemd-methods 7.09 0.17 7.26 generateGDM 6.86 0.22 7.08 plotEmbeddings 6.71 0.25 6.97 plotCellYield 6.63 0.22 6.85 orderCellsMonocle 6.59 0.14 6.74 plotGroupedSamplesDmap 6.46 0.09 6.54 plotHeatmaps 6.08 0.14 6.22 ** running examples for arch 'x64' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed getSampleCelltypeFreqs 9.40 0.10 9.50 printClusterAssignments 8.66 0.07 8.74 plotGroupedSamplesDmap 8.47 0.21 8.69 getSampleHistsByCluster 8.44 0.06 8.50 Phemd-methods 8.39 0.02 8.41 plotCellYield 8.20 0.13 8.33 clusterIndividualSamples 8.11 0.11 8.21 compareSamples 7.91 0.11 8.07 groupSamples 7.44 0.16 7.59 generateGDM 7.37 0.18 7.57 getCellYield 7.21 0.08 7.28 plotHeatmaps 6.83 0.15 6.97 orderCellsMonocle 6.69 0.12 6.82 plotEmbeddings 6.49 0.14 6.62 * 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 Status: 1 NOTE See 'C:/Users/biocbuild/bbs-3.13-bioc/meat/phemd.Rcheck/00check.log' for details.
phemd.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/phemd_1.8.0.tar.gz && rm -rf phemd.buildbin-libdir && mkdir phemd.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=phemd.buildbin-libdir phemd_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL phemd_1.8.0.zip && rm phemd_1.8.0.tar.gz phemd_1.8.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 59 477k 59 284k 0 0 813k 0 --:--:-- --:--:-- --:--:-- 813k 100 477k 100 477k 0 0 1228k 0 --:--:-- --:--:-- --:--:-- 1227k install for i386 * installing *source* package 'phemd' ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'phemd' finding HTML links ... done GDM html Phemd-methods html Phemd html aggregateSamples html all_expn_data html all_genes html assignCellClusterNearestNode html batchIDs html bindSeuratObj html celltypeFreqs html clusterIndividualSamples html compareSamples html createDataObj html drawColnames45 html embedCells html gaussianffLocal html generateGDM html getArithmeticCentroids html getCellYield html getSampleCelltypeFreqs html getSampleHistsByCluster html getSampleSizes html groupSamples html heatmap_genes html identifyCentroids html monocleInfo html orderCellsMonocle html phateInfo html plotCellYield html plotEmbeddings html plotGroupedSamplesDmap html plotHeatmaps html plotSummaryHistograms html pooledCells html printClusterAssignments html rawExpn html removeTinySamples html retrieveRefClusters html sNames html selectFeatures html selectMarkers html selected_genes html seuratInfo html snames_data html subsampledBool html subsampledIdx html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'phemd' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'phemd' as phemd_1.8.0.zip * DONE (phemd) * installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library' package 'phemd' successfully unpacked and MD5 sums checked
phemd.Rcheck/examples_i386/phemd-Ex.timings
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phemd.Rcheck/examples_x64/phemd-Ex.timings
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