gage 2.20.1
Weijun Luo
| Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/gage | | Last Changed Rev: 113767 / Revision: 116712 | | Last Changed Date: 2016-02-18 13:22:33 -0800 (Thu, 18 Feb 2016) |
| zin1 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | [ ERROR ] | skipped | | |
| moscato1 | Windows Server 2008 R2 Standard (64-bit) / x64 | OK | ERROR | skipped | skipped | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | ERROR | skipped | skipped | |
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### Running command:
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### /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data gage
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* checking for file ‘gage/DESCRIPTION’ ... OK
* preparing ‘gage’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
Loading required package: gageData
Loading required package: org.Hs.eg.db
Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from ‘package:stats’:
IQR, mad, xtabs
The following objects are masked from ‘package:base’:
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, as.vector, cbind, colnames, do.call, duplicated,
eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply,
lengths, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unlist, unsplit
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: IRanges
Loading required package: S4Vectors
Loading required package: DBI
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Pathview is an open source software package distributed under GNU General
Public License version 3 (GPLv3). Details of GPLv3 is available at
http://www.gnu.org/licenses/gpl-3.0.html.
The pathview downloads and uses KEGG data. Academic users may freely use the
KEGG website at http://www.kegg.jp/ or its mirror site at GenomeNet
http://www.genome.jp/kegg/. Academic users may also freely link to the KEGG
website. Non-academic users may use the KEGG website as end users for
non-commercial purposes, but any other use requires a license agreement
(details at http://www.kegg.jp/kegg/legal.html).
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Info: Downloading xml files for hsa03013, 1/1 pathways..
Info: Downloading png files for hsa03013, 1/1 pathways..
'select()' returned 1:1 mapping between keys and columns
Info: Working in directory /tmp/RtmpD6K7B0/Rbuild206a1e4389c5/gage/vignettes
Info: Writing image file hsa03013.pathview.multi.png
Info: Downloading xml files for hsa03008, 1/1 pathways..
Info: Downloading png files for hsa03008, 1/1 pathways..
'select()' returned 1:1 mapping between keys and columns
Info: Working in directory /tmp/RtmpD6K7B0/Rbuild206a1e4389c5/gage/vignettes
Info: Writing image file hsa03008.pathview.multi.png
Info: Downloading xml files for hsa04110, 1/1 pathways..
Info: Downloading png files for hsa04110, 1/1 pathways..
'select()' returned 1:1 mapping between keys and columns
Info: Working in directory /tmp/RtmpD6K7B0/Rbuild206a1e4389c5/gage/vignettes
Info: Writing image file hsa04110.pathview.multi.png
Info: Downloading xml files for hsa04610, 1/1 pathways..
Info: Downloading png files for hsa04610, 1/1 pathways..
'select()' returned 1:1 mapping between keys and columns
Error: processing vignette 'RNA-seqWorkflow.Rnw' failed with diagnostics:
chunk 11 (label = pathview)
Error in readPNG(paste(kegg.dir, "/", pathway.name, ".png", sep = "")) :
libpng error: Read Error
Execution halted