simulatorAPMS 1.25.0
Tony Chiang
| Snapshot Date: 2011-04-20 07:21:46 -0700 (Wed, 20 Apr 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/simulatorAPMS | | Last Changed Rev: 54802 / Revision: 54983 | | Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 2011) |
| wilson2 | Linux (openSUSE 11.4) / 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 |
* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/simulatorAPMS.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-04-17 r55484)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'simulatorAPMS/DESCRIPTION' ... OK
* this is package 'simulatorAPMS' version '1.25.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'simulatorAPMS' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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
* 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
prepare_Rd: APComEX.Rd:25-27: Dropping empty section \source
prepare_Rd: APComEX.Rd:28-30: Dropping empty section \references
prepare_Rd: PPIEX.Rd:22-24: Dropping empty section \source
prepare_Rd: PPIEX.Rd:25-27: Dropping empty section \references
prepare_Rd: TSNMatrix.Rd:17-19: Dropping empty section \details
prepare_Rd: compIndep.Rd:23-25: Dropping empty section \details
prepare_Rd: fullSimEX.Rd:24-26: Dropping empty section \source
prepare_Rd: fullSimEX.Rd:27-29: Dropping empty section \references
prepare_Rd: missedProtEX.Rd:18-20: Dropping empty section \source
prepare_Rd: missedProtEX.Rd:21-23: Dropping empty section \references
prepare_Rd: missedProtHMSPCI.Rd:15-17: Dropping empty section \details
prepare_Rd: missedProtHMSPCI.Rd:18-20: Dropping empty section \source
prepare_Rd: missedProtHMSPCI.Rd:21-23: Dropping empty section \references
prepare_Rd: runSimEX.Rd:20-22: Dropping empty section \source
prepare_Rd: runSimEX.Rd:23-25: Dropping empty section \references
prepare_Rd: simEX.Rd:20-22: Dropping empty section \source
prepare_Rd: simEX.Rd:23-25: Dropping empty section \references
prepare_Rd: vBaits.Rd:15-17: Dropping empty section \details
prepare_Rd: vBaits.Rd:18-20: Dropping empty section \source
prepare_Rd: vBaits.Rd:21-23: Dropping empty section \references
prepare_Rd: vBaitsEX.Rd:16-18: Dropping empty section \source
prepare_Rd: vBaitsEX.Rd:19-21: Dropping empty section \references
prepare_Rd: vDeformEX.Rd:13-15: Dropping empty section \details
prepare_Rd: vDeformEX.Rd:16-18: Dropping empty section \source
prepare_Rd: vDeformEX.Rd:19-21: Dropping empty section \references
prepare_Rd: vDeformedEX.Rd:13-15: Dropping empty section \details
prepare_Rd: vDeformedEX.Rd:16-18: Dropping empty section \source
prepare_Rd: vDeformedEX.Rd:19-21: Dropping empty section \references
prepare_Rd: vStickyEX.Rd:13-15: Dropping empty section \details
prepare_Rd: vStickyEX.Rd:16-18: Dropping empty section \source
prepare_Rd: vStickyEX.Rd:19-21: Dropping empty section \references
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK
* installing *source* package 'simulatorAPMS' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: GO.db
Loading required package: AnnotationDbi
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: DBI
Loading required package: RpsiXML
Loading required package: annotate
Loading required package: graph
Loading required package: RBGL
Loading required package: XML
Attaching package: 'XML'
The following object(s) are masked from 'package:graph':
addNode
Loading required package: hypergraph
Attaching package: 'hypergraph'
The following object(s) are masked from 'package:AnnotationDbi':
head, tail
The following object(s) are masked from 'package:utils':
head, tail
Loading required package: apComplex
Warning in fun(...) :
Rgraphviz built with Graphviz version 2.20.3.
Found installed Graphviz version 2.25.20090912.445. This _may_ cause problems.
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'simulatorAPMS.Rnw'
** testing if installed package can be loaded
*** Deprecation warning ***:
The package 'simulatorAPMS' is deprecated and will not be supported after Bioconductor release 2.4. The methods and functions will be ported over to ppiStats within the next two releases.
Warning message:
In fun(...) : Rgraphviz built with Graphviz version 2.20.3.
Found installed Graphviz version 2.25.20090912.445. This _may_ cause problems.
* DONE (simulatorAPMS)