ontoTools 1.22.0
Vince Carey
| Bioconductor Changelog | | Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/ontoTools | | Last Changed Rev: 39013 / Revision: 42512 | | Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009) |
| wilson1 | Linux (openSUSE 11.1) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | [ OK ] | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | OK | OK |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.4-bioc/meat/ontoTools.Rcheck'
* using R version 2.9.2 (2009-08-24)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ontoTools/DESCRIPTION' ... OK
* this is package 'ontoTools' version '1.22.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'ontoTools' can be installed ... 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 name space can be loaded with stated dependencies ... 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 ... OK
* checking Rd files against version 2 parser ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK
* Installing *source* package 'ontoTools' ...
** R
** data
** inst
** preparing package for lazy loading
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'openVignette()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation(pkgname)'.
Package SparseM (0.80) loaded.
To cite, see citation("SparseM")
Attaching package: 'SparseM'
The following object(s) are masked from package:stats :
model.response
The following object(s) are masked from package:base :
backsolve,
chol
Loading required package: DBI
Creating a generic for "colSums" in package "ontoTools"
(the supplied definition differs from and overrides the implicit generic in package "base": Formal arguments differ: (x, na.rm, dims), (x, na.rm, dims, ...))
Creating a generic for "rowSums" in package "ontoTools"
(the supplied definition differs from and overrides the implicit generic in package "base": Formal arguments differ: (x, na.rm, dims), (x, na.rm, dims, ...))
Creating a new generic function for "grep" in "ontoTools"
In method for function "grep": expanding the signature to include
omitted arguments in definition: invert = "missing"
** help
*** installing help indices
>>> Building/Updating help pages for package 'ontoTools'
Formats: text html latex example chm
Note: removing empty section \references in file 'A.csr.Rd'
Note: removing empty section \references in file 'A.csr.Rd'
A.csr text html latex chm
Note: removing empty section \value in file 'GDI.Rd'
Note: removing empty section \references in file 'GDI.Rd'
Note: removing empty section \value in file 'GDI.Rd'
Note: removing empty section \references in file 'GDI.Rd'
GDI text html latex example chm
LLGOMFcp text html latex chm
OOC-class text html latex example chm
Note: removing empty section \references in file 'SGDIvocab.Rd'
Note: removing empty section \references in file 'SGDIvocab.Rd'
SGDIvocab text html latex example chm
Note: removing empty section \value in file 'STMA.Rd'
Note: removing empty section \details in file 'STMA.Rd'
Note: removing empty section \references in file 'STMA.Rd'
Note: removing empty section \value in file 'STMA.Rd'
Note: removing empty section \details in file 'STMA.Rd'
Note: removing empty section \references in file 'STMA.Rd'
STMA text html latex example chm
Note: removing empty section \details in file 'accessMat.Rd'
Note: removing empty section \examples in file 'accessMat.Rd'
Note: removing empty section \details in file 'accessMat.Rd'
Note: removing empty section \examples in file 'accessMat.Rd'
accessMat text html latex chm
buildGOgraph text html latex example chm
Note: removing empty section \examples in file 'compoundGraph-class.Rd'
Note: removing empty section \examples in file 'compoundGraph-class.Rd'
compoundGraph-class text html latex chm
depthStruct text html latex example chm
gomfAmat text html latex chm
Note: removing empty section \source in file 'litOnto.Rd'
Note: removing empty section \references in file 'litOnto.Rd'
Note: removing empty section \source in file 'litOnto.Rd'
Note: removing empty section \references in file 'litOnto.Rd'
litOnto text html latex chm
namedSparse-class text html latex example chm
ontology-class text html latex example chm
Note: removing empty section \references in file 'ooMapLL2GOMFdemo.Rd'
Note: removing empty section \references in file 'ooMapLL2GOMFdemo.Rd'
ooMapLL2GOMFdemo text html latex chm
otkvEnv2namedSparse text html latex example chm
Note: removing empty section \examples in file 'rootedDAG-class.Rd'
Note: removing empty section \examples in file 'rootedDAG-class.Rd'
rootedDAG-class text html latex chm
semsim text html latex example chm
Note: removing empty section \references in file 'taggedHierNomenclature-class.Rd'
Note: removing empty section \references in file 'taggedHierNomenclature-class.Rd'
taggedHierNomenclature-class text html latex example chm
toDot-methods text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\BBS-2~1.4-B\meat\ONTOTO~1.RCH\00_PKG~1\ONTOTO~1\chm\ontoTools.chm
Compile time: 0 minutes, 0 seconds
21 Topics
180 Local links
0 Internet links
1 Graphic
Created e:\biocbld\BBS-2~1.4-B\meat\ONTOTO~1.RCH\00_PKG~1\ONTOTO~1\chm\ontoTools.chm, 43,884 bytes
Compression decreased file by 62,482 bytes.
** building package indices ...
** MD5 sums
* DONE (ontoTools)