GGtools 4.4.0
VJ Carey
| Snapshot Date: 2012-03-31 17:01:49 -0700 (Sat, 31 Mar 2012) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_10/madman/Rpacks/GGtools | | Last Changed Rev: 64678 / Revision: 64719 | | Last Changed Date: 2012-03-30 15:05:02 -0700 (Fri, 30 Mar 2012) |
| lamb2 | Linux (openSUSE 11.4) / x86_64 | OK | OK | |
| puck5 | Linux (Ubuntu 12.04) / x86_64 | [ ERROR ] | skipped | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK |
| petty | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
* checking for file 'GGtools/DESCRIPTION' ... OK
* preparing 'GGtools':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
* creating vignettes ... ERROR
Loading required package: illuminaHumanv1.db
Loading required package: AnnotationDbi
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")'.
Attaching package: 'Biobase'
The following object(s) are masked from 'package:GGtools':
geneNames
Loading required package: org.Hs.eg.db
Loading required package: DBI
Loading required package: SNPlocs.Hsapiens.dbSNP.20110815
Warning in .local(x, y, ...) :
some SNP in rsid were not found in location db SNPlocs.Hsapiens.dbSNP.20110815
KernSmooth 2.23 loaded
Copyright M. P. Wand 1997-2009
Warning in `[.ff_array`(curff, , probeid) :
opening ff /tmp/Rtmp1lR1Oz/file42507533de57/foo_chr20.ff
Attaching package: 'SNPlocs.Hsapiens.dbSNP.20100427'
The following object(s) are masked from 'package:SNPlocs.Hsapiens.dbSNP.20110815':
.loadAlleles, .loadLoc, getSNPcount, getSNPlocs, rsid2alleles,
rsid2loc, rsidsToGRanges
NOTE: expanding gene ranges by radius 1e+06 leads to negative start positions that are reset to 1.
Warning in `[.ff_array`(x@fffile, i, j, ..., drop = drop) :
opening ff /tmp/RtmpOM0wFn/Rbuild3ae04b4c5a58/GGtools/vignettes/db2/cis_chr20.ff
Warning in `[.ff_array`(x@fffile, i, j, ..., drop = drop) :
opening ff /tmp/RtmpOM0wFn/Rbuild3ae04b4c5a58/GGtools/vignettes/db2/cis_chr20.ff
Warning in `[.ff_array`(x@fffile, i, j, ..., drop = drop) :
opening ff /tmp/RtmpOM0wFn/Rbuild3ae04b4c5a58/GGtools/vignettes/db2/cis_chr20.ff
Warning in `[.ff_array`(x@fffile, i, j, ..., drop = drop) :
opening ff /tmp/RtmpOM0wFn/Rbuild3ae04b4c5a58/GGtools/vignettes/cisScratch/all_chr20.ff
Warning in `[.ff_array`(x@fffile, i, j, ..., drop = drop) :
opening ff /tmp/RtmpOM0wFn/Rbuild3ae04b4c5a58/GGtools/vignettes/db2/cis_chr20.ff
Warning in `[.ff_array`(x@fffile, i, j, ..., drop = drop) :
opening ff /tmp/RtmpOM0wFn/Rbuild3ae04b4c5a58/GGtools/vignettes/db2/cis_chr20.ff
Warning in `[.ff_array`(x@fffile, i, j, ..., drop = drop) :
opening ff /tmp/RtmpOM0wFn/Rbuild3ae04b4c5a58/GGtools/vignettes/db2/cis_chr20.ff
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
Running 'texi2dvi' on 'GGtools_2012.tex' failed.
LaTeX errors:
! Package auto-pst-pdf Error:
"shell escape" (or "write18") is not enabled:
auto-pst-pdf will not work!
.
Calls: <Anonymous> -> texi2pdf -> texi2dvi
Execution halted