gage 2.19.0
Weijun Luo
| Snapshot Date: 2015-08-23 16:24:14 -0700 (Sun, 23 Aug 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/gage | | Last Changed Rev: 102594 / Revision: 107696 | | Last Changed Date: 2015-04-16 13:02:44 -0700 (Thu, 16 Apr 2015) |
| zin1 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | ERROR | skipped | | |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | 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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### /Library/Frameworks/R.framework/Versions/Current/Resources/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: 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’:
anyDuplicated, append, as.data.frame, as.vector, cbind, colnames,
do.call, duplicated, eval, evalq, Filter, Find, get, grep, grepl,
intersect, is.unsorted, lapply, Map, mapply, match, mget, order,
paste, pmax, pmax.int, pmin, pmin.int, Position, rank, rbind,
Reduce, rep.int, 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: org.Hs.eg.db
Loading required package: DBI
Loading required package: KEGGgraph
Attaching package: ‘KEGGgraph’
The following object is masked from ‘package:graphics’:
plot
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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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Gene ID type for 'human' is: 'EG'
Info: Downloading xml files for hsa04110, 1/1 pathways..
Info: Downloading png files for hsa04110, 1/1 pathways..
Warning: Parsing ./hsa04110.xml file failed, please check the file!
Info: Downloading xml files for hsa00020, 1/1 pathways..
Info: Downloading png files for hsa00020, 1/1 pathways..
Warning: Parsing ./hsa00020.xml file failed, please check the file!
Warning: Parsing ./hsa04110.xml file failed, please check the file!
Warning: Parsing ./hsa00020.xml file failed, please check the file!
Warning: file stem ‘gage-heter.gage’ is not portable
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
Running 'texi2dvi' on 'gage.tex' failed.
LaTeX errors:
! Package pdftex.def Error: File `hsa00020.pathview.multi.png' not found.
See the pdftex.def package documentation for explanation.
Type H <return> for immediate help.
...
! Package pdftex.def Error: File `hsa04110.pathview.multi.pdf' not found.
See the pdftex.def package documentation for explanation.
Type H <return> for immediate help.
...
Calls: <Anonymous> -> texi2pdf -> texi2dvi
Execution halted