Rgraphviz 1.18.1
Li Long
| Snapshot Date: 2008-10-16 00:10:09 -0700 (Thu, 16 Oct 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_2/madman/Rpacks/Rgraphviz | | Last Changed Rev: 32020 / Revision: 34573 | | Last Changed Date: 2008-05-29 16:04:59 -0700 (Thu, 29 May 2008) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | OK | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | OK | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | [ ERROR ] | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | OK | OK |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.2-bioc/meat/Rgraphviz.Rcheck'
* using R version 2.7.2 (2008-08-25)
* using session charset: ISO8859-1
* checking for file 'Rgraphviz/DESCRIPTION' ... OK
* this is package 'Rgraphviz' version '1.18.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Rgraphviz' 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 cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating Rgraphviz-Ex.R ... OK
* checking examples ... ERROR
Running examples in 'Rgraphviz-Ex.R' failed.
The error most likely occurred in:
> ### * agwrite
>
> flush(stderr()); flush(stdout())
>
> ### Name: agwrite
> ### Title: A function to write a Ragraph object to a file
> ### Aliases: agwrite agread
> ### Keywords: graphs
>
> ### ** Examples
>
> V <- letters[1:10]
> M <- 1:4
> g1 <- randomGraph(V, M, .2)
> z <- agopen(g1,"foo",layout=FALSE)
>
installing R.css in E:/biocbld/bbs-2.2-bioc/meat/Rgraphviz.Rcheck
---------- Making package Rgraphviz ------------
GRAPHVIZ_INSTALL_DIR=C:\/Graphviz2.16
GRAPHVIZ_INSTALL_MAJOR=2
GRAPHVIZ_INSTALL_MINOR=16
adding build stamp to DESCRIPTION
installing NAMESPACE file and metadata
making DLL ...
making LL_funcs.d from LL_funcs.c
making Rgraphviz.d from Rgraphviz.c
making RgraphvizInit.d from RgraphvizInit.c
making agopen.d from agopen.c
making agread.d from agread.c
making agwrite.d from agwrite.c
making bezier.d from bezier.c
making buildEdgeList.d from buildEdgeList.c
making buildNodeList.d from buildNodeList.c
making doLayout.d from doLayout.c
making graphvizVersion.d from graphvizVersion.c
making init.d from init.c
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c LL_funcs.c -o LL_funcs.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from LL_funcs.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from LL_funcs.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c Rgraphviz.c -o Rgraphviz.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from Rgraphviz.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from Rgraphviz.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
Rgraphviz.c:18: warning: C99 inline functions are not supported; using GNU89
Rgraphviz.c:18: warning: to disable this warning use -fgnu89-inline or the gnu_inline function attribute
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c RgraphvizInit.c -o RgraphvizInit.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from RgraphvizInit.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from RgraphvizInit.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c agopen.c -o agopen.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from agopen.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from agopen.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c agread.c -o agread.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from agread.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from agread.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c agwrite.c -o agwrite.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from agwrite.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from agwrite.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c bezier.c -o bezier.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from bezier.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from bezier.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c buildEdgeList.c -o buildEdgeList.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from buildEdgeList.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from buildEdgeList.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c buildNodeList.c -o buildNodeList.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from buildNodeList.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from buildNodeList.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c doLayout.c -o doLayout.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from doLayout.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from doLayout.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c graphvizVersion.c -o graphvizVersion.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from graphvizVersion.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from graphvizVersion.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
gcc -std=gnu99 -IC:/Graphviz2.16/include -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=16 -DWin32 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c init.c -o init.o
In file included from C:/Graphviz2.16/include/gvc.h:20,
from common.h:31,
from init.c:1:
C:/Graphviz2.16/include/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:5,
from init.c:1:
e:/biocbld/bbs-2.2-bioc/R/include/Rdefines.h:150:1: warning: this is the location of the previous definition
windres --preprocessor="gcc -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.2-bioc/R/include -i Rgraphviz_res.rc -o Rgraphviz_res.o
gcc -std=gnu99 -shared -s -o Rgraphviz.dll Rgraphviz.def LL_funcs.o Rgraphviz.o RgraphvizInit.o agopen.o agread.o agwrite.o bezier.o buildEdgeList.o buildNodeList.o doLayout.o graphvizVersion.o init.o Rgraphviz_res.o -Le:/biocbld/bbs-2.2-bioc/R/bin -LC:/Graphviz2.16/bin -lgvc -lgraph -lcdt -lR
... DLL made
installing DLL
installing R files
installing inst files
preparing package Rgraphviz for lazy loading
Loading required package: graph
Loading required package: grid
Creating a new generic function for "head" in "Rgraphviz"
Creating a new generic function for "tail" in "Rgraphviz"
Creating a new generic function for "lines" in "Rgraphviz"
Creating a new generic function for "plot" in "Rgraphviz"
installing man source files
installing indices
installing help
Note: removing empty section \examples
Note: removing empty section \examples
Note: removing empty section \seealso
Note: removing empty section \seealso
Note: removing empty section \seealso
Note: removing empty section \seealso
Note: removing empty section \seealso
Note: removing empty section \seealso
Note: removing empty section \seealso
Note: removing empty section \seealso
>>> Building/Updating help pages for package 'Rgraphviz'
Formats: text html latex example chm
AgEdge-class text html latex example chm
AgNode-class text html latex example chm
AgTextLabel-class text html latex example chm
BezierCurve-class text html latex example chm
GraphvizAttributes text html latex chm
GraphvizLayouts text html latex example chm
Ragraph-class text html latex example chm
agopen text html latex example chm
agopenSimple text html latex example chm
agwrite text html latex example chm
boundingBox-class text html latex example chm
buildNodeList text html latex example chm
clusterData-methods text html latex example chm
getDefaultAttrs text html latex example chm
graphData-methods text html latex chm
graphDataDefaults-methods text html latex chm
graphLayout text html latex example chm
graphvizVersion text html latex example chm
layoutGraph text html latex example chm
makeNodeAttrs text html latex example chm
pEdge-class text html latex example chm
pNode-class text html latex example chm
pieGlyph text html latex example chm
plot-methods text html latex example chm
removedEdges text html latex example chm
renderGraph text html latex example chm
toDot-methods text html latex example chm
toFile text html latex example chm
xyPoint-class text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\bbs-2.2-bioc\meat\Rgraphviz.Rcheck\00_pkg_src\Rgraphviz\chm\Rgraphviz.chm
Compile time: 0 minutes, 1 second
30 Topics
281 Local links
5 Internet links
1 Graphic
Created e:\biocbld\bbs-2.2-bioc\meat\Rgraphviz.Rcheck\00_pkg_src\Rgraphviz\chm\Rgraphviz.chm, 79,502 bytes
Compression decreased file by 118,816 bytes.
adding MD5 sums
* DONE (Rgraphviz)