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CHECK results for Rgraphviz on riesling1

This page was generated on 2021-06-16 12:05:13 -0400 (Wed, 16 Jun 2021).

Package 1531/1993HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rgraphviz 2.37.0  (landing page)
Kasper Daniel Hansen
Snapshot Date: 2021-06-15 14:50:06 -0400 (Tue, 15 Jun 2021)
URL: https://git.bioconductor.org/packages/Rgraphviz
Branch: master
Last Commit: b01ad95
Last Changed Date: 2021-05-19 11:33:11 -0400 (Wed, 19 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    ERROR  
riesling1Windows Server 2019 Standard / x64  OK    OK    ERROR    OK  
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    ERROR    OK  
To the developers/maintainers of the Rgraphviz package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Rgraphviz.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

Summary

Package: Rgraphviz
Version: 2.37.0
Command: D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Rgraphviz.install-out.txt --library=D:\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings Rgraphviz_2.37.0.tar.gz
StartedAt: 2021-06-16 01:35:34 -0400 (Wed, 16 Jun 2021)
EndedAt: 2021-06-16 01:38:09 -0400 (Wed, 16 Jun 2021)
EllapsedTime: 155.5 seconds
RetCode: 1
Status:   ERROR   
CheckDir: Rgraphviz.Rcheck
Warnings: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Rgraphviz.install-out.txt --library=D:\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings Rgraphviz_2.37.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbuild/bbs-3.14-bioc/meat/Rgraphviz.Rcheck'
* using R version 4.1.0 (2021-05-18)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Rgraphviz/DESCRIPTION' ... OK
* this is package 'Rgraphviz' version '2.37.0'
* 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 'Rgraphviz' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' 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 dependencies in R code ... NOTE
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  '.graphviz_build_version'
* 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 ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in shell scripts ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'D:/biocbuild/bbs-3.14-bioc/R/library/Rgraphviz/libs/i386/Rgraphviz.dll':
  Found '_exit', possibly from '_exit' (C)
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
  Found 'printf', possibly from 'printf' (C)
  Found 'putchar', possibly from 'putchar' (C)
  Found 'puts', possibly from 'printf' (C), 'puts' (C)
  Found 'rand', possibly from 'rand' (C)
  Found 'srand', possibly from 'srand' (C)
File 'D:/biocbuild/bbs-3.14-bioc/R/library/Rgraphviz/libs/x64/Rgraphviz.dll':
  Found '_exit', possibly from '_exit' (C)
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
  Found 'printf', possibly from 'printf' (C)
  Found 'putchar', possibly from 'putchar' (C)
  Found 'puts', possibly from 'printf' (C), 'puts' (C)
  Found 'rand', possibly from 'rand' (C)
  Found 'srand', possibly from 'srand' (C)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... ERROR
Running examples in 'Rgraphviz-Ex.R' failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: agopenSimple
> ### Title: A function to obtain a Ragraph object
> ### Aliases: agopenSimple
> ### Keywords: graphs
> 
> ### ** Examples
> 
> set.seed(123)
> V <- letters[1:10]
> M <- 1:4
> g1 <- randomGraph(V, M, .2)
> z <- agopenSimple(g1,name="foo")
> if(graphvizVersion() >= "2.10") {
+   ## This example will only run with Graphviz >= 2.10
+   plot(z, "twopi")
+ }
 ----------- FAILURE REPORT -------------- 
 --- failure: the condition has length > 1 ---
 --- srcref --- 
: 
 --- package (from environment) --- 
package:Rgraphviz
 --- call from context --- 
NULL
 --- call from argument --- 
if (graphvizVersion() >= "2.10") {
    plot(z, "twopi")
}
 --- R stacktrace ---

 --- value of length: 3 type: logical ---
installed_version     build_version  bundled_graphviz 
             TRUE              TRUE              TRUE 
 --- function from context --- 
 --- function search by body ---
 ----------- END OF FAILURE REPORT -------------- 
Error in if (graphvizVersion() >= "2.10") { : 
  the condition has length > 1
Execution halted
** running examples for arch 'x64' ... ERROR
Running examples in 'Rgraphviz-Ex.R' failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: agopenSimple
> ### Title: A function to obtain a Ragraph object
> ### Aliases: agopenSimple
> ### Keywords: graphs
> 
> ### ** Examples
> 
> set.seed(123)
> V <- letters[1:10]
> M <- 1:4
> g1 <- randomGraph(V, M, .2)
> z <- agopenSimple(g1,name="foo")
> if(graphvizVersion() >= "2.10") {
+   ## This example will only run with Graphviz >= 2.10
+   plot(z, "twopi")
+ }
 ----------- FAILURE REPORT -------------- 
 --- failure: the condition has length > 1 ---
 --- srcref --- 
: 
 --- package (from environment) --- 
package:Rgraphviz
 --- call from context --- 
NULL
 --- call from argument --- 
if (graphvizVersion() >= "2.10") {
    plot(z, "twopi")
}
 --- R stacktrace ---

 --- value of length: 3 type: logical ---
installed_version     build_version  bundled_graphviz 
             TRUE              TRUE              TRUE 
 --- function from context --- 
 --- function search by body ---
 ----------- END OF FAILURE REPORT -------------- 
Error in if (graphvizVersion() >= "2.10") { : 
  the condition has length > 1
Execution halted
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'runTests.R'
 OK
** running tests for arch 'x64' ...
  Running 'runTests.R'
 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 ERRORs, 2 NOTEs
See
  'D:/biocbuild/bbs-3.14-bioc/meat/Rgraphviz.Rcheck/00check.log'
for details.


Installation output

Rgraphviz.Rcheck/00install.out

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##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/Rgraphviz_2.37.0.tar.gz && rm -rf Rgraphviz.buildbin-libdir && mkdir Rgraphviz.buildbin-libdir && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Rgraphviz.buildbin-libdir Rgraphviz_2.37.0.tar.gz && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL Rgraphviz_2.37.0.zip && rm Rgraphviz_2.37.0.tar.gz Rgraphviz_2.37.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
 84 6785k   84 5716k    0     0  8119k      0 --:--:-- --:--:-- --:--:-- 8119k
100 6785k  100 6785k    0     0  8471k      0 --:--:-- --:--:-- --:--:-- 8471k

install for i386

* installing *source* package 'Rgraphviz' ...
** using staged installation

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c LL_funcs.c -o LL_funcs.o
LL_funcs.c: In function 'Rgraphviz_agopenSimple':
LL_funcs.c:430:29: warning: variable 'curNode' set but not used [-Wunused-but-set-variable]
     Agnode_t *head, *tail, *curNode;
                             ^~~~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c Rgraphviz.c -o Rgraphviz.o
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c RgraphvizInit.c -o RgraphvizInit.o
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c agopen.c -o agopen.o
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c agread.c -o agread.o
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c agwrite.c -o agwrite.o
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c bezier.c -o bezier.o
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c buildEdgeList.c -o buildEdgeList.o
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c buildNodeList.c -o buildNodeList.o
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c doLayout.c -o doLayout.o
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c graphvizVersion.c -o graphvizVersion.o
"C:/rtools40/mingw32/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/i386/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c init.c -o init.o
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o Rgraphviz.dll tmp.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 libwin/i386/lib/libxdot.a libwin/i386/lib/libgvplugin_dot_layout.a libwin/i386/lib/libgvplugin_neato_layout.a libwin/i386/lib/libgvplugin_core.a libwin/i386/lib/libgvc.a libwin/i386/lib/libpathplan.a libwin/i386/lib/libgraph.a libwin/i386/lib/libcdt.a -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.14-bioc/R/bin/i386 -lR
sed "s!@GRAPHVIZ_VERSION@!"2.28.0"!" ../R/graphviz_build_version.R.in |\
  sed "s!@GRAPHVIZ_BUNDLED@!TRUE!" > ../R/graphviz_build_version.R
installing to D:/biocbuild/bbs-3.14-bioc/meat/Rgraphviz.buildbin-libdir/00LOCK-Rgraphviz/00new/Rgraphviz/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'Rgraphviz'
    finding HTML links ... done
    AgEdge-class                            html  
REDIRECT:topic	 AgEdge<- -> AgEdge-class.html [ FAIL ]
    AgNode-class                            html  
REDIRECT:topic	 AgNode<- -> AgNode-class.html [ FAIL ]
    AgTextLabel-class                       html  
    BezierCurve-class                       html  
    GraphvizAttributes                      html  
    GraphvizLayouts                         html  
    Ragraph-class                           html  
REDIRECT:topic	 graphDataDefaults<-,Ragraph,vector,vector-method -> Ragraph-class.html [ FAIL ]
REDIRECT:topic	 graphData<-,Ragraph,vector,vector-method -> Ragraph-class.html [ FAIL ]
REDIRECT:topic	 clusterData<-,Ragraph,numeric,vector,vector-method -> Ragraph-class.html [ FAIL ]
REDIRECT:topic	 edgeDataDefaults<-,Ragraph,vector,vector-method -> Ragraph-class.html [ FAIL ]
REDIRECT:topic	 edgeData<-,Ragraph,vector,vector,vector,vector-method -> Ragraph-class.html [ FAIL ]
REDIRECT:topic	 nodeDataDefaults<-,Ragraph,vector,vector-method -> Ragraph-class.html [ FAIL ]
REDIRECT:topic	 nodeData<-,Ragraph,vector,vector,vector-method -> Ragraph-class.html [ FAIL ]
REDIRECT:topic	 AgEdge<-,Ragraph-method -> Ragraph-class.html [ FAIL ]
REDIRECT:topic	 AgNode<-,Ragraph-method -> Ragraph-class.html [ FAIL ]
    agopen                                  html  
    agopenSimple                            html  
    agwrite                                 html  
    boundingBox-class                       html  
    buildNodeList                           html  
    clusterData-methods                     html  
REDIRECT:topic	 clusterData<--methods -> clusterData-methods.html [ FAIL ]
REDIRECT:topic	 clusterData<- -> clusterData-methods.html [ FAIL ]
    getDefaultAttrs                         html  
    graphData-methods                       html  
REDIRECT:topic	 graphData<--methods -> graphData-methods.html [ FAIL ]
REDIRECT:topic	 graphData<- -> graphData-methods.html [ FAIL ]
    graphDataDefaults-methods               html  
REDIRECT:topic	 graphDataDefaults<--methods -> graphDataDefaults-methods.html [ FAIL ]
REDIRECT:topic	 graphDataDefaults<- -> graphDataDefaults-methods.html [ FAIL ]
    graphLayout                             html  
    graphvizCapabilities                    html  
    graphvizVersion                         html  
    layoutGraph                             html  
    makeNodeAttrs                           html  
    pEdge-class                             html  
    pNode-class                             html  
    pieGlyph                                html  
    plot-methods                            html  
    removedEdges                            html  
    renderGraph                             html  
    toDot-methods                           html  
    toFile                                  html  
    xyPoint-class                           html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'Rgraphviz' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c LL_funcs.c -o LL_funcs.o
LL_funcs.c: In function 'Rgraphviz_agopenSimple':
LL_funcs.c:430:29: warning: variable 'curNode' set but not used [-Wunused-but-set-variable]
     Agnode_t *head, *tail, *curNode;
                             ^~~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c Rgraphviz.c -o Rgraphviz.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c RgraphvizInit.c -o RgraphvizInit.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c agopen.c -o agopen.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c agread.c -o agread.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c agwrite.c -o agwrite.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c bezier.c -o bezier.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c buildEdgeList.c -o buildEdgeList.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c buildNodeList.c -o buildNodeList.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c doLayout.c -o doLayout.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c graphvizVersion.c -o graphvizVersion.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"  -Ilibwin/x64/include/graphviz -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC   -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c init.c -o init.o
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o Rgraphviz.dll tmp.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 libwin/x64/lib/libxdot.a libwin/x64/lib/libgvplugin_dot_layout.a libwin/x64/lib/libgvplugin_neato_layout.a libwin/x64/lib/libgvplugin_core.a libwin/x64/lib/libgvc.a libwin/x64/lib/libpathplan.a libwin/x64/lib/libgraph.a libwin/x64/lib/libcdt.a -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.14-bioc/R/bin/x64 -lR
sed "s!@GRAPHVIZ_VERSION@!"2.28.0"!" ../R/graphviz_build_version.R.in |\
  sed "s!@GRAPHVIZ_BUNDLED@!TRUE!" > ../R/graphviz_build_version.R
installing to D:/biocbuild/bbs-3.14-bioc/meat/Rgraphviz.buildbin-libdir/Rgraphviz/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Rgraphviz' as Rgraphviz_2.37.0.zip
* DONE (Rgraphviz)
* installing to library 'D:/biocbuild/bbs-3.14-bioc/R/library'
package 'Rgraphviz' successfully unpacked and MD5 sums checked

Tests output

Rgraphviz.Rcheck/tests_i386/runTests.Rout


R version 4.1.0 (2021-05-18) -- "Camp Pontanezen"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> require("Rgraphviz") || stop("unable to load Rgraphviz")
Loading required package: Rgraphviz
Loading required package: graph
Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: grid
[1] TRUE
> BiocGenerics:::testPackage("Rgraphviz")
plotting different layout types
   dot  .... done
   circo  .... done
   fdp  .... done
   neato  .... done
   osage  .... done
   twopi  .... done
using toFile with various device types
   canon . done
   cmap . done
   cmapx . done
   cmapx_np . done
   dot . done
   eps . done
   fig . done
   gv . done
   imap . done
   imap_np . done
   ismap . done
   plain . done
   plain-ext . done
   ps . done
   ps2 . done
   svg . done
   tk . done
   vml . done
   xdot . done


RUNIT TEST PROTOCOL -- Wed Jun 16 01:36:11 2021 
*********************************************** 
Number of test functions: 4 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
Rgraphviz RUnit Tests - 4 test functions, 0 errors, 0 failures
Number of test functions: 4 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
   0.87    0.09    1.03 

Rgraphviz.Rcheck/tests_x64/runTests.Rout


R version 4.1.0 (2021-05-18) -- "Camp Pontanezen"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> require("Rgraphviz") || stop("unable to load Rgraphviz")
Loading required package: Rgraphviz
Loading required package: graph
Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: grid
[1] TRUE
> BiocGenerics:::testPackage("Rgraphviz")
plotting different layout types
   dot  .... done
   circo  .... done
   fdp  .... done
   neato  .... done
   osage  .... done
   twopi  .... done
using toFile with various device types
   canon . done
   cmap . done
   cmapx . done
   cmapx_np . done
   dot . done
   eps . done
   fig . done
   gv . done
   imap . done
   imap_np . done
   ismap . done
   plain . done
   plain-ext . done
   ps . done
   ps2 . done
   svg . done
   tk . done
   vml . done
   xdot . done


RUNIT TEST PROTOCOL -- Wed Jun 16 01:36:12 2021 
*********************************************** 
Number of test functions: 4 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
Rgraphviz RUnit Tests - 4 test functions, 0 errors, 0 failures
Number of test functions: 4 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
   0.93    0.07    1.04 

Example timings

Rgraphviz.Rcheck/examples_i386/Rgraphviz-Ex.timings

nameusersystemelapsed
AgEdge-class0.020.000.02
AgNode-class0.010.000.01
AgTextLabel-class0.020.000.02
BezierCurve-class000
GraphvizLayouts000
Ragraph-class0.020.000.01
agopen0.010.000.02

Rgraphviz.Rcheck/examples_x64/Rgraphviz-Ex.timings

nameusersystemelapsed
AgEdge-class0.030.000.03
AgNode-class000
AgTextLabel-class000
BezierCurve-class000
GraphvizLayouts0.010.000.01
Ragraph-class0.020.000.02
agopen000