phenoTest 0.99.3
Evarist Planet
| Snapshot Date: 2011-03-17 11:16:30 -0700 (Thu, 17 Mar 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/phenoTest | | Last Changed Rev: 53247 / Revision: 53825 | | Last Changed Date: 2011-02-24 01:24:54 -0800 (Thu, 24 Feb 2011) |
| lamb1 | Linux (openSUSE 11.3) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | OK | OK |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
| petty | Mac OS X Snow Leopard (10.6.6) / i386 | [ ERROR ] | skipped | skipped |
* checking for file 'phenoTest/DESCRIPTION' ... OK
* preparing 'phenoTest':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
* creating vignettes ... ERROR
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation("pkgname")'.
Loading required package: annotate
Loading required package: AnnotationDbi
Loading required package: Heatplus
Attaching package: 'phenoTest'
The following object(s) are masked from 'package:annotate':
htmlpage
Loading required package: graph
Warning in heatmapPhenoTest(x = x, signatures = signatures, vars2test = vars2test, :
The following variables in vars2test will not be ploted because they are not of type logic: Tumor.size, lymph.node.status
Warning in heatmapPhenoTest(x = x, signatures = signatures, vars2test = vars2test, :
The following variables in vars2test will not be ploted because they are not of type logic: Tumor.size, lymph.node.status
Warning in heatmapPhenoTest(x = x, signatures = signatures, vars2test = vars2test, :
The following variables in vars2test will not be ploted because they are not of type logic: Tumor.size, lymph.node.status
Warning in heatmapPhenoTest(x = x, signatures = signatures, vars2test = vars2test, :
The following variables in vars2test will not be ploted because they are not of type logic: Tumor.size, lymph.node.status
Warning in heatmapPhenoTest(x = x, signatures = signatures, vars2test = vars2test, :
The following variables in vars2test will not be ploted because they are not of type logic: Tumor.size, lymph.node.status
Warning in heatmapPhenoTest(x = x, signatures = signatures, vars2test = vars2test, :
The following variables in vars2test will not be ploted because they are not of type logic: Tumor.size, lymph.node.status
Warning in heatmapPhenoTest(x = x, signatures = signatures, vars2test = vars2test, :
The following variables in vars2test will not be ploted because they are not of type logic: Tumor.size, lymph.node.status
Warning in heatmapPhenoTest(x = x, signatures = signatures, vars2test = vars2test, :
The following variables in vars2test will not be ploted because they are not of type logic: Tumor.size, lymph.node.status
Warning in getNes(escore, es.sim) :
No simulations with the same sign as ES where obtained. NES could not be computed!
Warning in getEsPval(escore, es.sim, pval.comp.method, pval.smooth.tail) :
No simulations with the same sign as ES where obtained. es.pval could not be computed!
Error: processing vignette 'phenoTest.Rnw' failed with diagnostics:
chunk 24 (label=gsea)
Error in density.default(nes.sim.sign, from = 0, to = max(abs(nes), nes.sim.sign) * :
need at least 2 points to select a bandwidth automatically
Execution halted