Back to Multiple platform build/check report for BioC 3.16: simplified long |
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This page was generated on 2023-04-12 11:06:07 -0400 (Wed, 12 Apr 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
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 fabia package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/fabia.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 653/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
fabia 2.44.0 (landing page) Andreas Mitterecker
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
Package: fabia |
Version: 2.44.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:fabia.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings fabia_2.44.0.tar.gz |
StartedAt: 2023-04-10 20:09:55 -0400 (Mon, 10 Apr 2023) |
EndedAt: 2023-04-10 20:10:40 -0400 (Mon, 10 Apr 2023) |
EllapsedTime: 45.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: fabia.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:fabia.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings fabia_2.44.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/fabia.Rcheck’ * using R version 4.2.3 (2023-03-15) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘fabia/DESCRIPTION’ ... OK * this is package ‘fabia’ version ‘2.44.0’ * 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 ‘fabia’ 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 * 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 ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE File ‘fabia/R/zzz.R’: .onLoad calls: packageStartupMessage("+----------------------------+ \n", "|............................| \n", "|............................| \n", "|..............########......| ####### # ###### ### # \n", "|..............########......| # # # # # # # # \n", "|.....####.....########......| # # # # # # # # \n", "|.....####.....########......| ##### # # ###### # # # \n", "|.....####...................| # ####### # # # ####### \n", "|.....####...........###.....| # # # # # # # # \n", "|....................###.....| # # # ###### ### # # \n", "|....................###.....| \n", "|............................| \n", "+----------------------------+ \n") packageStartupMessage("Citation: S. Hochreiter et al.,", "\n", "FABIA: Factor Analysis for Bicluster Acquisition,", "\n", "Bioinformatics 26(12):1520-1527, 2010.", "\n", "BibTex: enter 'toBibtex(citation(\"fabia\"))'", "\n\n", "Homepage: http://www.bioinf.jku.at/software/fabia/fabia.html", "\n\n", "FABIA Package Version ", version, "\n") See section ‘Good practice’ in '?.onAttach'. plot,Factorization-missing: warning in symbols(ll[isel, 1], ll[isel, 2], circle = sqs[isel], inches = FALSE, lwd = 3, add = TRUE, fg = colors[2]): partial argument match of 'circle' to 'circles' plot,Factorization-missing: warning in symbols(zz[ii, 1], zz[ii, 2], square = sqs, inches = FALSE, lwd = 3, add = TRUE, fg = colors[2 + iGroup[i]]): partial argument match of 'square' to 'squares' plot,Factorization-missing: no visible global function definition for ‘dev.new’ Undefined global functions or variables: dev.new Consider adding importFrom("grDevices", "dev.new") to your NAMESPACE file. * 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 line endings in shell scripts ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking include directives in Makefiles ... NOTE Found the following Makefile(s) with an include directive with a pathname using R_HOME: src/Makefile.win Even though not recommended, variable R_HOME may contain spaces. Makefile directives use space as a separator and there is no portable way to quote/escape the space in Make rules and directives. However, one can and should quote pathnames when passed from Makefile to the shell, and this can be done specifically when invoking Make recursively. It is therefore recommended to use the Make '-f' option to include files in directories specified using R_HOME. This option can be specified multiple times to include multiple Makefiles. Note that 'Makeconf' is included automatically into top-level makefile of a package. More information can be found in 'Writing R Extensions'. * checking compiled code ... NOTE Note: information on .o files is not available * checking sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... 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: 3 NOTEs See ‘/Users/biocbuild/bbs-3.16-bioc/meat/fabia.Rcheck/00check.log’ for details.
fabia.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL fabia ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’ * installing *source* package ‘fabia’ ... ** using staged installation ** libs clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c fabiac.c -o fabiac.o clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o fabia.so fabiac.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.2/Resources/library/00LOCK-fabia/00new/fabia/libs ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (fabia)
fabia.Rcheck/fabia-Ex.timings
name | user | system | elapsed | |
Factorization-class | 0.520 | 0.029 | 0.554 | |
estimateMode | 0.002 | 0.001 | 0.003 | |
extractBic | 0.036 | 0.003 | 0.039 | |
extractPlot | 0.112 | 0.012 | 0.126 | |
fabi | 0.069 | 0.005 | 0.075 | |
fabia | 0.039 | 0.006 | 0.045 | |
fabiaDemo | 0 | 0 | 0 | |
fabiaVersion | 0.001 | 0.001 | 0.001 | |
fabiap | 0.032 | 0.002 | 0.035 | |
fabias | 0.032 | 0.002 | 0.034 | |
fabiasp | 0.165 | 0.022 | 0.187 | |
makeFabiaData | 0.022 | 0.003 | 0.026 | |
makeFabiaDataBlocks | 0.028 | 0.011 | 0.039 | |
makeFabiaDataBlocksPos | 0.027 | 0.009 | 0.037 | |
makeFabiaDataPos | 0.028 | 0.010 | 0.038 | |
matrixImagePlot | 0.025 | 0.009 | 0.035 | |
mfsc | 0.058 | 0.011 | 0.070 | |
nmfdiv | 0.034 | 0.009 | 0.044 | |
nmfeu | 0.034 | 0.009 | 0.043 | |
nmfsc | 0.041 | 0.017 | 0.058 | |
plotBicluster | 0.073 | 0.004 | 0.078 | |
projFunc | 0.000 | 0.000 | 0.002 | |
projFuncPos | 0.001 | 0.000 | 0.001 | |
readSamplesSpfabia | 0.000 | 0.000 | 0.001 | |
samplesPerFeature | 0.001 | 0.000 | 0.000 | |
spfabia | 0.038 | 0.023 | 0.063 | |