Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:57:21 -0400 (Sat, 17 Oct 2020).
TO THE DEVELOPERS/MAINTAINERS OF THE PathoStat PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1272/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
PathoStat 1.14.0 Solaiappan Manimaran
| malbec2 | Linux (Ubuntu 18.04.4 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: PathoStat |
Version: 1.14.0 |
Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:PathoStat.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings PathoStat_1.14.0.tar.gz |
StartedAt: 2020-10-17 06:45:32 -0400 (Sat, 17 Oct 2020) |
EndedAt: 2020-10-17 06:54:20 -0400 (Sat, 17 Oct 2020) |
EllapsedTime: 528.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: PathoStat.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:PathoStat.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings PathoStat_1.14.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/PathoStat.Rcheck' * using R version 4.0.3 (2020-10-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'PathoStat/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'PathoStat' version '1.14.0' * 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 'PathoStat' 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 Namespaces in Imports field not imported from: 'ComplexHeatmap' 'RColorBrewer' All declared Imports should be used. * 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 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 Bootstrap_LOOCV_LR_AUC 15.69 0.86 16.54 getSignatureFromMultipleGlmnet 11.76 0.07 11.82 ** running examples for arch 'x64' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed Bootstrap_LOOCV_LR_AUC 18.14 0.11 18.25 getSignatureFromMultipleGlmnet 12.60 0.03 12.65 * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'testthat.R' OK ** running tests for arch 'x64' ... Running 'testthat.R' OK * 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-3.11-bioc/meat/PathoStat.Rcheck/00check.log' for details.
PathoStat.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/PathoStat_1.14.0.tar.gz && rm -rf PathoStat.buildbin-libdir && mkdir PathoStat.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PathoStat.buildbin-libdir PathoStat_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL PathoStat_1.14.0.zip && rm PathoStat_1.14.0.tar.gz PathoStat_1.14.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 950k 100 950k 0 0 14.1M 0 --:--:-- --:--:-- --:--:-- 15.7M install for i386 * installing *source* package 'PathoStat' ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'PathoStat' finding HTML links ... done Bootstrap_LOOCV_LR_AUC html Chisq_Test_Pam html Fisher_Test_Pam html GET_PAM html LOOAUC_simple_multiple_noplot_one_df html LOOAUC_simple_multiple_one_df html PathoStat-class html TranslateIdToTaxLevel html Wilcox_Test_df html findRAfromCount html findTaxonMat html findTaxonomy html findTaxonomy300 html formatTaxTable html getShinyInput html getShinyInputCombat html getShinyInputOrig html getSignatureFromMultipleGlmnet html grepTid html loadPathoscopeReports html loadPstat html log2CPM html percent html phyloseq_to_edgeR html plotPCAPlotly html plotPCoAPlotly html pstat_data html readPathoscopeData html runPathoStat html savePstat html setShinyInput html setShinyInputCombat html setShinyInputOrig html summarizeTable 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 'PathoStat' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'PathoStat' as PathoStat_1.14.0.zip * DONE (PathoStat) * installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library' package 'PathoStat' successfully unpacked and MD5 sums checked
PathoStat.Rcheck/tests_i386/testthat.Rout R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: i386-w64-mingw32/i386 (32-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(PathoStat) > > test_check("PathoStat") == testthat results =========================================================== [ OK: 1 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ] > > proc.time() user system elapsed 15.09 0.85 15.93 |
PathoStat.Rcheck/tests_x64/testthat.Rout R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(PathoStat) > > test_check("PathoStat") == testthat results =========================================================== [ OK: 1 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ] > > proc.time() user system elapsed 15.03 0.62 15.65 |
PathoStat.Rcheck/examples_i386/PathoStat-Ex.timings
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PathoStat.Rcheck/examples_x64/PathoStat-Ex.timings
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