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BioC 3.1: INSTALL report for rsbml on moscato2

This page was generated on 2015-10-09 09:28:06 -0700 (Fri, 09 Oct 2015).

Package 853/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
rsbml 2.26.0
Michael Lawrence
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/rsbml
Last Changed Rev: 102591 / Revision: 109384
Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: rsbml
Version: 2.26.0
Command: C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.1/bioc/src/contrib/rsbml_2.26.0.tar.gz && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch rsbml_2.26.0.tar.gz && rm rsbml_2.26.0.tar.gz
StartedAt: 2015-10-08 18:25:33 -0700 (Thu, 08 Oct 2015)
EndedAt: 2015-10-08 18:29:54 -0700 (Thu, 08 Oct 2015)
EllapsedTime: 261.0 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.1/bioc/src/contrib/rsbml_2.26.0.tar.gz && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch rsbml_2.26.0.tar.gz && rm rsbml_2.26.0.tar.gz
###
##############################################################################
##############################################################################




install for i386

* installing to library 'E:/biocbld/bbs-3.1-bioc/R/library'
* installing *source* package 'rsbml' ...

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


** libs
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/i386/include -IC:/libsbml/i386/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c StringMap.c -o StringMap.o
In file included from C:/libsbml/i386/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/i386/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/i386/include/sbml/common/common.h:32,
                 from StringMap.c:52:
C:/libsbml/i386/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/i386/include/sbml/common/common.h:106:0,
                 from StringMap.c:52:
C:/libsbml/i386/include/sbml/util/util.h:258:7: warning: 'finite' redeclared without dllimport attribute: previous dllimport ignored [-Wattributes]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/i386/include -IC:/libsbml/i386/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c check.c -o check.o
In file included from C:/libsbml/i386/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/i386/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/i386/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from check.c:1:
C:/libsbml/i386/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/i386/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/i386/include/sbml/SBMLError.h:426,
                 from C:/libsbml/i386/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from check.c:1:
C:/libsbml/i386/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/i386/include -IC:/libsbml/i386/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c doc.c -o doc.o
In file included from C:/libsbml/i386/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/i386/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/i386/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from doc.c:1:
C:/libsbml/i386/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/i386/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/i386/include/sbml/SBMLError.h:426,
                 from C:/libsbml/i386/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from doc.c:1:
C:/libsbml/i386/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
doc.c: In function 'rsbml_build_doc_simple_species_reference':
doc.c:453:8: warning: unused variable 'tmp' [-Wunused-variable]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/i386/include -IC:/libsbml/i386/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c dom.c -o dom.o
In file included from C:/libsbml/i386/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/i386/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/i386/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from dom.c:1:
C:/libsbml/i386/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/i386/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/i386/include/sbml/SBMLError.h:426,
                 from C:/libsbml/i386/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from dom.c:1:
C:/libsbml/i386/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/i386/include -IC:/libsbml/i386/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c graph.c -o graph.o
In file included from C:/libsbml/i386/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/i386/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/i386/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from graph.c:1:
C:/libsbml/i386/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/i386/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/i386/include/sbml/SBMLError.h:426,
                 from C:/libsbml/i386/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from graph.c:1:
C:/libsbml/i386/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/i386/include -IC:/libsbml/i386/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c init.c -o init.o
In file included from C:/libsbml/i386/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/i386/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/i386/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from init.c:1:
C:/libsbml/i386/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/i386/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/i386/include/sbml/SBMLError.h:426,
                 from C:/libsbml/i386/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from init.c:1:
C:/libsbml/i386/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/i386/include -IC:/libsbml/i386/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c io.c -o io.o
In file included from C:/libsbml/i386/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/i386/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/i386/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from io.c:1:
C:/libsbml/i386/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/i386/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/i386/include/sbml/SBMLError.h:426,
                 from C:/libsbml/i386/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from io.c:1:
C:/libsbml/i386/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
g++ -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/i386/include -IC:/libsbml/i386/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c layoutWrappers.cpp -o layoutWrappers.o
In file included from C:/libsbml/i386/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/i386/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/i386/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from layoutWrappers.cpp:1:
C:/libsbml/i386/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/i386/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/i386/include/sbml/SBMLError.h:426,
                 from C:/libsbml/i386/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from layoutWrappers.cpp:1:
C:/libsbml/i386/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/i386/include/sbml/xml/XMLInputStream.h:47:0,
                 from C:/libsbml/i386/include/sbml/SpeciesReference.h:268,
                 from C:/libsbml/i386/include/sbml/SBMLTransforms.h:48,
                 from C:/libsbml/i386/include/sbml/SBMLDocument.h:260,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from layoutWrappers.cpp:1:
C:/libsbml/i386/include/sbml/xml/XMLTokenizer.h:48:21: warning: type attributes ignored after type is already defined [-Wattributes]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/i386/include -IC:/libsbml/i386/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c mathml.c -o mathml.o
In file included from C:/libsbml/i386/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/i386/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/i386/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from mathml.c:3:
C:/libsbml/i386/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/i386/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/i386/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/i386/include/sbml/SBMLError.h:426,
                 from C:/libsbml/i386/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/i386/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from mathml.c:3:
C:/libsbml/i386/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
mathml.c: In function 'rmathml_SEXP':
mathml.c:56:12: warning: unused variable 'closure' [-Wunused-variable]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/i386/include -IC:/libsbml/i386/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c simulate.c -o simulate.o
g++ -m32 -shared -s -static-libgcc -o rsbml.dll tmp.def StringMap.o check.o doc.o dom.o graph.o init.o io.o layoutWrappers.o mathml.o simulate.o -LC:/libsbml/i386/bin -lsbml -Ld:/RCompile/r-compiling/local/local320/lib/i386 -Ld:/RCompile/r-compiling/local/local320/lib -LE:/biocbld/BBS-3˜1.1-B/R/bin/i386 -lR
mkdir -p E:/biocbld/bbs-3.1-bioc/R/library/rsbml/libs/i386
cp C:/libsbml/i386/bin/*.dll E:/biocbld/bbs-3.1-bioc/R/library/rsbml/libs//i386
installing to E:/biocbld/bbs-3.1-bioc/R/library/rsbml/libs/i386
** 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 to library 'E:/biocbld/bbs-3.1-bioc/R/library'
* installing *source* package 'rsbml' ...

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


** libs
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/x64/include -IC:/libsbml/x64/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c StringMap.c -o StringMap.o
In file included from C:/libsbml/x64/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/x64/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/x64/include/sbml/common/common.h:32,
                 from StringMap.c:52:
C:/libsbml/x64/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/x64/include/sbml/common/common.h:106:0,
                 from StringMap.c:52:
C:/libsbml/x64/include/sbml/util/util.h:258:7: warning: 'finite' redeclared without dllimport attribute: previous dllimport ignored [-Wattributes]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/x64/include -IC:/libsbml/x64/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c check.c -o check.o
In file included from C:/libsbml/x64/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/x64/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/x64/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from check.c:1:
C:/libsbml/x64/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/x64/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/x64/include/sbml/SBMLError.h:426,
                 from C:/libsbml/x64/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from check.c:1:
C:/libsbml/x64/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/x64/include -IC:/libsbml/x64/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c doc.c -o doc.o
In file included from C:/libsbml/x64/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/x64/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/x64/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from doc.c:1:
C:/libsbml/x64/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/x64/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/x64/include/sbml/SBMLError.h:426,
                 from C:/libsbml/x64/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from doc.c:1:
C:/libsbml/x64/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
doc.c: In function 'rsbml_build_doc_simple_species_reference':
doc.c:453:8: warning: unused variable 'tmp' [-Wunused-variable]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/x64/include -IC:/libsbml/x64/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c dom.c -o dom.o
In file included from C:/libsbml/x64/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/x64/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/x64/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from dom.c:1:
C:/libsbml/x64/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/x64/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/x64/include/sbml/SBMLError.h:426,
                 from C:/libsbml/x64/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from dom.c:1:
C:/libsbml/x64/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/x64/include -IC:/libsbml/x64/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c graph.c -o graph.o
In file included from C:/libsbml/x64/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/x64/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/x64/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from graph.c:1:
C:/libsbml/x64/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/x64/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/x64/include/sbml/SBMLError.h:426,
                 from C:/libsbml/x64/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from graph.c:1:
C:/libsbml/x64/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
graph.c: In function 'rsbml_build_graph':
graph.c:57:57: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/x64/include -IC:/libsbml/x64/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c init.c -o init.o
In file included from C:/libsbml/x64/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/x64/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/x64/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from init.c:1:
C:/libsbml/x64/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/x64/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/x64/include/sbml/SBMLError.h:426,
                 from C:/libsbml/x64/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from init.c:1:
C:/libsbml/x64/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/x64/include -IC:/libsbml/x64/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c io.c -o io.o
In file included from C:/libsbml/x64/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/x64/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/x64/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from io.c:1:
C:/libsbml/x64/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/x64/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/x64/include/sbml/SBMLError.h:426,
                 from C:/libsbml/x64/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from io.c:1:
C:/libsbml/x64/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
g++ -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/x64/include -IC:/libsbml/x64/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c layoutWrappers.cpp -o layoutWrappers.o
In file included from C:/libsbml/x64/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/x64/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/x64/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from layoutWrappers.cpp:1:
C:/libsbml/x64/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/x64/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/x64/include/sbml/SBMLError.h:426,
                 from C:/libsbml/x64/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from layoutWrappers.cpp:1:
C:/libsbml/x64/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/x64/include/sbml/xml/XMLInputStream.h:47:0,
                 from C:/libsbml/x64/include/sbml/SpeciesReference.h:268,
                 from C:/libsbml/x64/include/sbml/SBMLTransforms.h:48,
                 from C:/libsbml/x64/include/sbml/SBMLDocument.h:260,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from layoutWrappers.cpp:1:
C:/libsbml/x64/include/sbml/xml/XMLTokenizer.h:48:21: warning: type attributes ignored after type is already defined [-Wattributes]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/x64/include -IC:/libsbml/x64/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c mathml.c -o mathml.o
In file included from C:/libsbml/x64/include/sbml/common/libsbml-version.h:32:0,
                 from C:/libsbml/x64/include/sbml/common/libsbml-config.h:63,
                 from C:/libsbml/x64/include/sbml/common/sbmlfwd.h:40,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:32,
                 from rsbml.h:1,
                 from mathml.c:3:
C:/libsbml/x64/include/sbml/common/extern.h:61:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:66:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:75:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
C:/libsbml/x64/include/sbml/common/extern.h:76:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
In file included from C:/libsbml/x64/include/sbml/xml/XMLError.h:329:0,
                 from C:/libsbml/x64/include/sbml/SBMLError.h:426,
                 from C:/libsbml/x64/include/sbml/SBMLDocument.h:257,
                 from C:/libsbml/x64/include/sbml/SBMLTypes.h:34,
                 from rsbml.h:1,
                 from mathml.c:3:
C:/libsbml/x64/include/sbml/xml/XMLExtern.h:70:0: warning: ignoring #pragma warning  [-Wunknown-pragmas]
mathml.c: In function 'rmathml_SEXP':
mathml.c:56:12: warning: unused variable 'closure' [-Wunused-variable]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG -D_R_=1 -DUSE_R=1 -IC:/libsbml/x64/include -IC:/libsbml/x64/include/expat -IE:/biocbld/BBS-3˜1.1-B/R/include -DLIBSBML3    -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c simulate.c -o simulate.o
g++ -m64 -shared -s -static-libgcc -o rsbml.dll tmp.def StringMap.o check.o doc.o dom.o graph.o init.o io.o layoutWrappers.o mathml.o simulate.o -LC:/libsbml/x64/bin -lsbml -Ld:/RCompile/r-compiling/local/local320/lib/x64 -Ld:/RCompile/r-compiling/local/local320/lib -LE:/biocbld/BBS-3˜1.1-B/R/bin/x64 -lR
mkdir -p E:/biocbld/bbs-3.1-bioc/R/library/rsbml/libs/x64
cp C:/libsbml/x64/bin/*.dll E:/biocbld/bbs-3.1-bioc/R/library/rsbml/libs//x64
installing to E:/biocbld/bbs-3.1-bioc/R/library/rsbml/libs/x64
** testing if installed package can be loaded
* DONE (rsbml)