PREDA 1.5.0
Francesco Ferrari
| Snapshot Date: 2013-01-15 17:01:14 -0800 (Tue, 15 Jan 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/PREDA | | Last Changed Rev: 70052 / Revision: 72575 | | Last Changed Date: 2012-10-01 15:43:56 -0700 (Mon, 01 Oct 2012) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | OK | |
| lamb2 | Linux (openSUSE 11.4) / x86_64 | OK | [ OK ] | |
| 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 |
* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/PREDA.Rcheck’
* using R Under development (unstable) (2012-12-17 r61365)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PREDA/DESCRIPTION’ ... OK
* this is package ‘PREDA’ version ‘1.5.0’
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Packages which this enhances but not available for checking:
‘Rmpi’ ‘rsprng’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘PREDA’ can be installed ... OK
* checking installed package size ... OK
* 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
* 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 ... NOTE
Foreign function call with ‘PACKAGE’ argument in a different package:
.Call("mpi_finalize", ..., PACKAGE = "Rmpi")
See the chapter ‘System and foreign language interfaces’ of the
‘Writing R Extensions’ manual.
* checking R code for possible problems ... NOTE
genomePlot_improved: warning in axis(1, seq(from = 0, to = max(len), by
= (10 * scale.positions)), label = as.integer(((seq(from = 0, to =
max(len), by = (10 * scale.positions))/scale.positions)))): partial
argument match of 'label' to 'labels'
PREDA_main : .Last: no visible global function definition for
‘mpi.comm.size’
PREDA_main : .Last: no visible global function definition for
‘mpi.close.Rslaves’
PREDA_main: no visible global function definition for
‘mpi.spawn.Rslaves’
PREDA_main: no visible global function definition for
‘mpi.bcast.Robj2slave’
PREDA_main: no visible global function definition for ‘mpi.remote.exec’
PREDA_main: no visible global function definition for ‘init.sprng’
PREDA_main: no visible global function definition for ‘mpi.comm.size’
PREDA_main: no visible global function definition for ‘mpi.comm.rank’
PREDA_main : Listen_on_slaves: no visible global function definition
for ‘mpi.recv.Robj’
PREDA_main : Listen_on_slaves: no visible global function definition
for ‘mpi.any.tag’
PREDA_main : Listen_on_slaves: no visible global function definition
for ‘mpi.get.sourcetag’
PREDA_main : Listen_on_slaves: no visible global function definition
for ‘mpi.send.Robj’
PREDA_main: no visible global function definition for ‘mpi.isend.Robj’
PREDA_main: no visible global function definition for ‘mpi.bcast.cmd’
PREDA_main: no visible global function definition for ‘mpi.recv.Robj’
PREDA_main: no visible global function definition for ‘mpi.any.source’
PREDA_main: no visible global function definition for ‘mpi.any.tag’
PREDA_main: no visible global function definition for
‘mpi.get.sourcetag’
PREDA_main: no visible global function definition for ‘free.sprng’
PREDA_main: no visible global function definition for
‘mpi.close.Rslaves’
PREDA_main_permRows: no visible global function definition for
‘mpi.spawn.Rslaves’
PREDA_main_permRows: no visible global function definition for
‘mpi.bcast.Robj2slave’
PREDA_main_permRows: no visible global function definition for
‘mpi.remote.exec’
PREDA_main_permRows: no visible global function definition for
‘init.sprng’
PREDA_main_permRows: no visible global function definition for
‘mpi.comm.size’
PREDA_main_permRows: no visible global function definition for
‘mpi.comm.rank’
PREDA_main_permRows : Listen_on_slaves: no visible global function
definition for ‘mpi.recv.Robj’
PREDA_main_permRows : Listen_on_slaves: no visible global function
definition for ‘mpi.any.tag’
PREDA_main_permRows : Listen_on_slaves: no visible global function
definition for ‘mpi.get.sourcetag’
PREDA_main_permRows : Listen_on_slaves: no visible global function
definition for ‘mpi.send.Robj’
PREDA_main_permRows: no visible global function definition for
‘mpi.isend.Robj’
PREDA_main_permRows: no visible global function definition for
‘mpi.bcast.cmd’
PREDA_main_permRows: no visible global function definition for
‘mpi.recv.Robj’
PREDA_main_permRows: no visible global function definition for
‘mpi.any.source’
PREDA_main_permRows: no visible global function definition for
‘mpi.any.tag’
PREDA_main_permRows: no visible global function definition for
‘mpi.get.sourcetag’
PREDA_main_permRows: no visible global function definition for
‘free.sprng’
PREDA_main_permRows: no visible global function definition for
‘mpi.close.Rslaves’
PREDA_main_permSamples: no visible global function definition for
‘mpi.spawn.Rslaves’
PREDA_main_permSamples: no visible global function definition for
‘mpi.bcast.Robj2slave’
PREDA_main_permSamples: no visible global function definition for
‘mpi.remote.exec’
PREDA_main_permSamples: no visible global function definition for
‘init.sprng’
PREDA_main_permSamples: no visible global function definition for
‘mpi.comm.size’
PREDA_main_permSamples: no visible global function definition for
‘mpi.comm.rank’
PREDA_main_permSamples : Listen_on_slaves: no visible global function
definition for ‘mpi.recv.Robj’
PREDA_main_permSamples : Listen_on_slaves: no visible global function
definition for ‘mpi.any.tag’
PREDA_main_permSamples : Listen_on_slaves: no visible global function
definition for ‘mpi.get.sourcetag’
PREDA_main_permSamples : Listen_on_slaves: no visible global function
definition for ‘mpi.send.Robj’
PREDA_main_permSamples: no visible global function definition for
‘mpi.isend.Robj’
PREDA_main_permSamples: no visible global function definition for
‘mpi.bcast.cmd’
PREDA_main_permSamples: no visible global function definition for
‘mpi.recv.Robj’
PREDA_main_permSamples: no visible global function definition for
‘mpi.any.source’
PREDA_main_permSamples: no visible global function definition for
‘mpi.any.tag’
PREDA_main_permSamples: no visible global function definition for
‘mpi.get.sourcetag’
PREDA_main_permSamples: no visible global function definition for
‘free.sprng’
PREDA_main_permSamples: no visible global function definition for
‘mpi.close.Rslaves’
* checking Rd files ... OK
* 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 installed files from ‘inst/doc’ ... NOTE
The following directories should probably not be installed:
‘images’
Consider the use of a .Rinstignore file: see ‘Writing R Extensions’,
or move the vignette sources from ‘inst/doc’ to ‘vignettes’.
* 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
NOTE: There were 4 notes.
See
‘/loc/home/biocbuild/bbs-2.12-bioc/meat/PREDA.Rcheck/00check.log’
for details.
* installing *source* package ‘PREDA’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
‘PREDAclasses.Rnw’ using ‘latin1’
‘PREDAtutorial.Rnw’ using ‘latin1’
** testing if installed package can be loaded
* DONE (PREDA)