iFlow 2.11.1
Kyongryun Lee
| Snapshot Date: 2013-03-23 17:02:20 -0700 (Sat, 23 Mar 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/iFlow | | Last Changed Rev: 72508 / Revision: 74756 | | Last Changed Date: 2013-01-14 11:47:36 -0800 (Mon, 14 Jan 2013) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | WARNINGS | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | N O T S U P P O R T E D |
| petty | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | OK |
| pelham | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | [ ERROR ] | OK |
* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/iFlow.Rcheck'
* using R version 3.0.0 beta (2013-03-21 r62346)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'iFlow/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'iFlow' version '2.11.1'
* 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 ... NOTE
Found the following hidden files and directories:
.BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'iFlow' can be installed ... [32s/35s] WARNING
Found the following significant warnings:
Warning: Failed to load RGtk2 dynamic library, attempting to install it.
Warning: Failed to load RGtk2 dynamic library, attempting to install it.
See '/Users/biocbuild/bbs-2.12-bioc/meat/iFlow.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
installed size is 6.1Mb
sub-directories of 1Mb or more:
doc 5.8Mb
* 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 ... ERROR
Loading required package: flowCore
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following object is masked from 'package:stats':
xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, as.data.frame,
cbind, colnames, duplicated, eval, get, intersect, lapply, mapply,
match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
rbind, rep.int, rownames, sapply, setdiff, sort, table, tapply,
union, unique, unlist
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: rrcov
Loading required package: robustbase
Loading required package: pcaPP
Loading required package: mvtnorm
Scalable Robust Estimators with High Breakdown Point (version 1.3-02)
Attaching package: 'flowCore'
The following object is masked from 'package:stats':
filter
The following object is masked from 'package:base':
ls
Loading required package: flowViz
Loading required package: lattice
KernSmooth 2.23 loaded
Copyright M. P. Wand 1997-2009
Loading required package: flowStats
Loading required package: fda
Loading required package: splines
Loading required package: zoo
Attaching package: 'zoo'
The following object is masked from 'package:base':
as.Date, as.Date.numeric
Loading required package: Matrix
Loading required package: RCurl
Loading required package: bitops
Attaching package: 'fda'
The following object is masked from 'package:graphics':
matplot
Loading required package: mvoutlier
Loading required package: compositions
Loading required package: rgl
Loading required package: tensorA
Attaching package: 'tensorA'
The following object is masked from 'package:Matrix':
norm
The following object is masked from 'package:base':
norm
Loading required package: energy
Loading required package: boot
Attaching package: 'boot'
The following object is masked from 'package:fda':
melanoma
The following object is masked from 'package:lattice':
melanoma
The following object is masked from 'package:robustbase':
salinity
Loading required package: MASS
Welcome to compositions, a package for compositional data analysis.
Find an intro with "? compositions"
Attaching package: 'compositions'
The following object is masked from 'package:flowCore':
normalize
The following object is masked from 'package:stats':
cor, cov, dist, var
The following object is masked from 'package:base':
%*%, scale, scale.default
Loading required package: robCompositions
Loading required package: car
Loading required package: nnet
Attaching package: 'car'
The following object is masked from 'package:boot':
logit
Attaching package: 'robCompositions'
The following object is masked from 'package:compositions':
alr, clr, ilr
Loading required package: sgeostat
Loading required package: cluster
Loading required package: flowWorkspace
Loading required package: Rcpp
Loading required package: Cairo
Loading required package: RBGL
Loading required package: graph
Loading required package: XML
Attaching package: 'XML'
The following object is masked from 'package:graph':
addNode
Loading required package: IDPmisc
Loading required package: grid
Loading required package: tools
Attaching package: 'tools'
The following object is masked from 'package:XML':
toHTML
Loading required package: hexbin
Loading required package: gridExtra
Loading required package: Rgraphviz
Attaching package: 'Rgraphviz'
The following object is masked from 'package:car':
sp
Loading required package: ncdfFlow
Attaching package: 'flowWorkspace'
The following object is masked from 'package:ncdfFlow':
getIndices
The following object is masked from 'package:RCurl':
clone
The following object is masked from 'package:rrcov':
getData
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so, 6): Symbol not found: _pixman_image_composite32
Referenced from: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so
Expected in: flat namespace
in /Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so
In addition: Warning messages:
1: In rgl.init(initValue) : RGL: GLX extension missing on server
2: In fun(libname, pkgname) : error in rgl_init
3: replacing previous import 'plot' when loading 'graphics'
Please install GTK+ from http://r.research.att.com/libs/GTK_2.18.5-X11.pkg
If the package still does not load, please ensure that GTK+ is installed and that it is on your PATH environment variable
IN ANY CASE, RESTART R BEFORE TRYING TO LOAD THE PACKAGE AGAIN
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so, 6): Symbol not found: _pixman_image_composite32
Referenced from: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
Expected in: flat namespace
in /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
In addition: Warning message:
Failed to load RGtk2 dynamic library, attempting to install it.
Please install GTK+ from http://r.research.att.com/libs/GTK_2.18.5-X11.pkg
If the package still does not load, please ensure that GTK+ is installed and that it is on your PATH environment variable
IN ANY CASE, RESTART R BEFORE TRYING TO LOAD THE PACKAGE AGAIN
Warning message:
In fun(libname, pkgname) :
Failed to load cairoDevice, attempting to install itError in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so, 6): Symbol not found: _pixman_image_composite32
Referenced from: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
Expected in: flat namespace
in /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
It looks like this package has a loading problem: see the messages for
details.
* installing *source* package 'iFlow' ...
** R
** inst
** preparing package for lazy loading
Warning in rgl.init(initValue) : RGL: GLX extension missing on server
Warning in fun(libname, pkgname) : error in rgl_init
Warning: replacing previous import 'plot' when loading 'graphics'
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so, 6): Symbol not found: _pixman_image_composite32
Referenced from: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so
Expected in: flat namespace
in /Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so
Warning: Failed to load RGtk2 dynamic library, attempting to install it.
Please install GTK+ from http://r.research.att.com/libs/GTK_2.18.5-X11.pkg
If the package still does not load, please ensure that GTK+ is installed and that it is on your PATH environment variable
IN ANY CASE, RESTART R BEFORE TRYING TO LOAD THE PACKAGE AGAIN
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so, 6): Symbol not found: _pixman_image_composite32
Referenced from: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
Expected in: flat namespace
in /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
Warning in fun(libname, pkgname) :
Failed to load cairoDevice, attempting to install itError in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so, 6): Symbol not found: _pixman_image_composite32
Referenced from: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
Expected in: flat namespace
in /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
Please install GTK+ from http://r.research.att.com/libs/GTK_2.18.5-X11.pkg
If the package still does not load, please ensure that GTK+ is installed and that it is on your PATH environment variable
IN ANY CASE, RESTART R BEFORE TRYING TO LOAD THE PACKAGE AGAIN
** help
*** installing help indices
** building package indices
** installing vignettes
'iflow.Rnw'
** testing if installed package can be loaded
Warning in rgl.init(initValue) : RGL: GLX extension missing on server
Warning in fun(libname, pkgname) : error in rgl_init
Warning: replacing previous import 'plot' when loading 'graphics'
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so, 6): Symbol not found: _pixman_image_composite32
Referenced from: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so
Expected in: flat namespace
in /Library/Frameworks/R.framework/Versions/3.0/Resources/library/RGtk2/libs/RGtk2.so
Warning: Failed to load RGtk2 dynamic library, attempting to install it.
Please install GTK+ from http://r.research.att.com/libs/GTK_2.18.5-X11.pkg
If the package still does not load, please ensure that GTK+ is installed and that it is on your PATH environment variable
IN ANY CASE, RESTART R BEFORE TRYING TO LOAD THE PACKAGE AGAIN
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so, 6): Symbol not found: _pixman_image_composite32
Referenced from: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
Expected in: flat namespace
in /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
Warning in fun(libname, pkgname) :
Failed to load cairoDevice, attempting to install itError in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so, 6): Symbol not found: _pixman_image_composite32
Referenced from: /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
Expected in: flat namespace
in /Library/Frameworks/R.framework/Versions/3.0/Resources/library/cairoDevice/libs/cairoDevice.so
Please install GTK+ from http://r.research.att.com/libs/GTK_2.18.5-X11.pkg
If the package still does not load, please ensure that GTK+ is installed and that it is on your PATH environment variable
IN ANY CASE, RESTART R BEFORE TRYING TO LOAD THE PACKAGE AGAIN
* DONE (iFlow)