ConsensusClusterPlus 1.38.0
Matt Wilkerson
| Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/ConsensusClusterPlus | | Last Changed Rev: 122710 / Revision: 128728 | | Last Changed Date: 2016-10-17 14:45:06 -0400 (Mon, 17 Oct 2016) |
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | |  |
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### rm -rf ConsensusClusterPlus.buildbin-libdir ConsensusClusterPlus.Rcheck && mkdir ConsensusClusterPlus.buildbin-libdir ConsensusClusterPlus.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ConsensusClusterPlus.buildbin-libdir ConsensusClusterPlus_1.38.0.tar.gz >ConsensusClusterPlus.Rcheck\00install.out 2>&1 && cp ConsensusClusterPlus.Rcheck\00install.out ConsensusClusterPlus-install.out && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=ConsensusClusterPlus.buildbin-libdir --install="check:ConsensusClusterPlus-install.out" --force-multiarch --no-vignettes --timings ConsensusClusterPlus_1.38.0.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.4-bioc/meat/ConsensusClusterPlus.Rcheck'
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ConsensusClusterPlus/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ConsensusClusterPlus' version '1.38.0'
* 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 whether package 'ConsensusClusterPlus' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
Non-standard license specification:
GPL version 2
Standardizable: TRUE
Standardized license specification:
GPL-2
* 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
Namespace in Imports field not imported from: 'ALL'
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 ... NOTE
ConsensusClusterPlus: warning in heatmap(pc, Colv = NA, Rowv = NA, symm
= FALSE, scale = "none", col = tmyPal, na.rm = TRUE, labRow = F,
labCol = F, mar = c(5, 5), main = paste("consensus matrix k=", tk,
sep = ""), ColSideCol = oc): partial argument match of 'mar' to
'margins'
ConsensusClusterPlus: warning in heatmap(pc, Colv = NA, Rowv = NA, symm
= FALSE, scale = "none", col = tmyPal, na.rm = TRUE, labRow = F,
labCol = F, mar = c(5, 5), main = paste("consensus matrix k=", tk,
sep = ""), ColSideCol = oc): partial argument match of 'ColSideCol'
to 'ColSideColors'
ConsensusClusterPlus: warning in heatmap(pc, Colv = as.dendrogram(hc),
Rowv = NA, symm = FALSE, scale = "none", col = tmyPal, na.rm = TRUE,
labRow = F, labCol = F, mar = c(5, 5), main = paste("consensus matrix
k=", tk, sep = ""), ColSideCol = colorList[[1]]): partial argument
match of 'mar' to 'margins'
ConsensusClusterPlus: warning in heatmap(pc, Colv = as.dendrogram(hc),
Rowv = NA, symm = FALSE, scale = "none", col = tmyPal, na.rm = TRUE,
labRow = F, labCol = F, mar = c(5, 5), main = paste("consensus matrix
k=", tk, sep = ""), ColSideCol = colorList[[1]]): partial argument
match of 'ColSideCol' to 'ColSideColors'
ConsensusClusterPlus: no visible global function definition for
'bitmap'
ConsensusClusterPlus: no visible global function definition for
'postscript'
calcICL: no visible global function definition for 'postscript'
calcICL: no visible global function definition for 'bitmap'
Undefined global functions or variables:
bitmap postscript
Consider adding
importFrom("grDevices", "bitmap", "postscript")
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 installed files from 'inst/doc' ... 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: 3 NOTEs
See
'C:/Users/biocbuild/bbs-3.4-bioc/meat/ConsensusClusterPlus.Rcheck/00check.log'
for details.