SplicingGraphs 1.0.4 H. Pages
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013) | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/SplicingGraphs | Last Changed Rev: 77220 / Revision: 81334 | Last Changed Date: 2013-06-05 13:08:16 -0700 (Wed, 05 Jun 2013) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | WARNINGS | |
moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | [ WARNINGS ] | OK |
petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | WARNINGS | OK |
* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/SplicingGraphs.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SplicingGraphs/DESCRIPTION' ... OK
* this is package 'SplicingGraphs' version '1.0.4'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'SplicingGraphs' can be installed ... OK
* checking installed package size ... NOTE
installed size is 19.6Mb
sub-directories of 1Mb or more:
doc 15.5Mb
extdata 3.7Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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
* loading checks for arch 'i386'
** 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 namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** 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 namespace can be loaded with stated dependencies ... OK
** checking whether the namespace 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 ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
'reportReads'
Undocumented S4 methods:
generic 'reportReads' and siglist 'SplicingGraphs'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See the chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... WARNING
Objects in \usage without \alias in documentation object 'countReads-methods':
'reportReads'
Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See the chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ...
** running examples for arch 'i386' ... [262s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
plotTranscripts-methods 39.25 0.04 39.53
toy_data 20.93 0.04 20.99
countReads-methods 12.91 0.05 13.41
sgedges-methods 7.63 0.00 7.84
bubbles-methods 7.25 0.02 7.27
assignReads 6.95 0.03 7.07
sgedgesByGene-methods 5.24 0.00 5.40
rsgedgesByGene-methods 5.10 0.02 5.11
txpath-methods 5.00 0.01 5.02
** running examples for arch 'x64' ... [327s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
plotTranscripts-methods 48.17 0.11 48.37
toy_data 26.27 0.04 26.33
countReads-methods 13.29 0.03 13.32
sgedges-methods 8.64 0.02 8.68
bubbles-methods 7.77 0.01 7.79
rsgedgesByGene-methods 7.15 0.00 7.22
assignReads 6.73 0.02 6.76
SplicingGraphs-class 5.71 0.42 6.17
sgedgesByGene-methods 5.83 0.00 6.30
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386'
Running 'run_unitTests.R' [20s]
[21s] OK
** running tests for arch 'x64'
Running 'run_unitTests.R' [23s]
[23s] 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
WARNING: There were 2 warnings.
NOTE: There was 1 note.
See
'E:/biocbld/bbs-2.12-bioc/meat/SplicingGraphs.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'SplicingGraphs' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'SplicingGraphs' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SplicingGraphs' as SplicingGraphs_1.0.4.zip
* DONE (SplicingGraphs)