Back to Multiple platform build/check report for BioC 3.14 |
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This page was generated on 2022-04-13 12:06:34 -0400 (Wed, 13 Apr 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
To the developers/maintainers of the flowMap package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to [email protected]:packages/flowMap.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 663/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
flowMap 1.32.0 (landing page) Chiaowen Joyce Hsiao
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | |||||||||
Package: flowMap |
Version: 1.32.0 |
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:flowMap.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings flowMap_1.32.0.tar.gz |
StartedAt: 2022-04-12 19:45:16 -0400 (Tue, 12 Apr 2022) |
EndedAt: 2022-04-12 19:46:43 -0400 (Tue, 12 Apr 2022) |
EllapsedTime: 86.8 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: flowMap.Rcheck |
Warnings: 2 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:flowMap.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings flowMap_1.32.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/flowMap.Rcheck' * using R version 4.1.3 (2022-03-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'flowMap/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'flowMap' version '1.32.0' * checking package namespace information ... OK * checking package dependencies ... NOTE Depends: includes the non-default packages: 'ade4', 'doParallel', 'abind', 'reshape2', 'scales', 'Matrix' Adding so many packages to the search path is excessive and importing selectively is preferable. * 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 'flowMap' 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 ... WARNING 'library' or 'require' call not declared from: 'igraph' 'library' or 'require' call to 'Matrix' which was already attached by Depends. Please remove these calls from your code. 'library' or 'require' call to 'igraph' in package code. Please use :: or requireNamespace() instead. See section 'Suggested packages' in the 'Writing R Extensions' manual. Packages in Depends field not imported from: 'Matrix' 'abind' 'ade4' 'doParallel' 'methods' 'reshape2' 'scales' These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE getFR: no visible global function definition for 'dist' getFR: no visible global function definition for 'pnorm' getFRest: no visible global function definition for 'detectCores' getFRest: no visible global function definition for 'registerDoParallel' getFRest: no visible global function definition for '%dopar%' getFRest: no visible global function definition for 'foreach' getFRest: no visible binding for global variable 'i' getFRest: no visible global function definition for 'new' makeDistmat: no visible global function definition for 'forceSymmetric' makeFRMST: no visible global function definition for 'dist' makeFRMST: no visible global function definition for 'as.dist' makeFRMST: no visible global function definition for 'graph.adjacency' makeFRMST: no visible global function definition for 'set.edge.attribute' makeFRMST: no visible global function definition for 'E' makeFRMST: no visible global function definition for 'E<-' makeFRMST: no visible global function definition for 'V' makeFRMST: no visible global function definition for 'V<-' makeFRMST: no visible global function definition for 'pnorm' statCrossLists: no visible global function definition for 'abind' Undefined global functions or variables: %dopar% E E<- V V<- abind as.dist detectCores dist forceSymmetric foreach graph.adjacency i new pnorm registerDoParallel set.edge.attribute Consider adding importFrom("methods", "new") importFrom("stats", "as.dist", "dist", "pnorm") to your NAMESPACE file (and ensure that your DESCRIPTION Imports field contains 'methods'). * 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 ... WARNING Undocumented arguments in documentation object 'getFRest' 'ncores' Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter 'Writing R documentation files' in the 'Writing R Extensions' manual. * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... 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: 2 WARNINGs, 2 NOTEs See 'C:/Users/biocbuild/bbs-3.14-bioc/meat/flowMap.Rcheck/00check.log' for details.
flowMap.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/flowMap_1.32.0.tar.gz && rm -rf flowMap.buildbin-libdir && mkdir flowMap.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=flowMap.buildbin-libdir flowMap_1.32.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL flowMap_1.32.0.zip && rm flowMap_1.32.0.tar.gz flowMap_1.32.0.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 876k 100 876k 0 0 915k 0 --:--:-- --:--:-- --:--:-- 914k 100 876k 100 876k 0 0 914k 0 --:--:-- --:--:-- --:--:-- 914k install for i386 * installing *source* package 'flowMap' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'flowMap' finding HTML links ... done flowMap-package html frstats-class html getFR html getFRest html getFRmat html makeDistmat html statCrossLists 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 'flowMap' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'flowMap' as flowMap_1.32.0.zip * DONE (flowMap) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'flowMap' successfully unpacked and MD5 sums checked
flowMap.Rcheck/examples_i386/flowMap-Ex.timings
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flowMap.Rcheck/examples_x64/flowMap-Ex.timings
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