rsbml 1.5.1
Michael Lawrence
| Snapshot Date: 2008-04-09 00:13:10 -0700 (Wed, 09 Apr 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/rsbml | | Last Changed Rev: 30883 / Revision: 30951 | | Last Changed Date: 2008-04-07 09:57:56 -0700 (Mon, 07 Apr 2008) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | [ ERROR ] | skipped | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | ERROR | skipped | |
| wellington | Linux (openSUSE 10.3) / i686 | ERROR | skipped | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | ERROR | skipped | skipped |
| pelham | Mac OS X Leopard (10.5.1) / i386 | ERROR | skipped | skipped |
* checking for file 'rsbml/DESCRIPTION' ... OK
* preparing 'rsbml':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
* Installing *source* package 'rsbml' ...
checking for pkg-config... /usr/local/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for LIBSBML3... no
checking for gcc... gcc -std=gnu99
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc -std=gnu99 accepts -g... yes
checking for gcc -std=gnu99 option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -std=gnu99 -E
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking sbml/SBMLDocument.h usability... yes
checking sbml/SBMLDocument.h presence... yes
checking for sbml/SBMLDocument.h... yes
checking for SBMLDocument_create in -lsbml... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/include/sbml -I/usr/local/include -I/usr/local/include/sbml -I/usr/local/include -fpic -g -O2 -Wall -c check.c -o check.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/include/sbml -I/usr/local/include -I/usr/local/include/sbml -I/usr/local/include -fpic -g -O2 -Wall -c doc.c -o doc.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/include/sbml -I/usr/local/include -I/usr/local/include/sbml -I/usr/local/include -fpic -g -O2 -Wall -c dom.c -o dom.o
dom.c: In function 'rsbml_build_dom_s_base':
dom.c:138: warning: implicit declaration of function 'SBase_getElementName'
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/include/sbml -I/usr/local/include -I/usr/local/include/sbml -I/usr/local/include -fpic -g -O2 -Wall -c graph.c -o graph.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/include/sbml -I/usr/local/include -I/usr/local/include/sbml -I/usr/local/include -fpic -g -O2 -Wall -c init.c -o init.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/include/sbml -I/usr/local/include -I/usr/local/include/sbml -I/usr/local/include -fpic -g -O2 -Wall -c io.c -o io.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/include/sbml -I/usr/local/include -I/usr/local/include/sbml -I/usr/local/include -fpic -g -O2 -Wall -c StringMap.c -o StringMap.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o rsbml.so check.o doc.o dom.o graph.o init.o io.o StringMap.o -lsbml -L/home/biocbuild/bbs-2.2-bioc/R/lib -lR
** R
** inst
** preparing package for lazy loading
Loading required package: graph
** help
>>> Building/Updating help pages for package 'rsbml'
Formats: text html latex example
AlgebraicRule-class text html latex
AssignmentRule-class text html latex
BoundingBox-class text html latex
CVTerm-class text html latex
Compartment-class text html latex
CompartmentGlyph-class text html latex
CompartmentType-class text html latex
CompartmentVolumeRule-class text html latex
Constraint-class text html latex
CubicBezier-class text html latex
Curve-class text html latex
Delay-class text html latex
Dimensions-class text html latex
Event-class text html latex
EventAssignment-class text html latex
FunctionDefinition-class text html latex
GraphicalObject-class text html latex
InitialAssignment-class text html latex
KineticLaw-class text html latex
Layout-class text html latex
LineSegment-class text html latex
Model-class text html latex
ModelCreator-class text html latex
ModelHistory-class text html latex
ModifierSpeciesReference-class text html latex
Parameter-class text html latex
ParameterRule-class text html latex
Point-class text html latex
RateRule-class text html latex
Reaction-class text html latex
ReactionGlyph-class text html latex
Rule-class text html latex
SBML-class text html latex example
SBMLDocument-class text html latex example
SBase-class text html latex
SimpleSpeciesReference-class text html latex
Species-class text html latex
SpeciesConcentrationRule-class text html latex
SpeciesGlyph-class text html latex
SpeciesReference-class text html latex
SpeciesReferenceGlyph-class text html latex
SpeciesType-class text html latex
StoichiometryMath-class text html latex
TextGlyph-class text html latex
Trigger-class text html latex
Unit-class text html latex
UnitDefinition-class text html latex
read text html latex example
** building package indices ...
* DONE (rsbml)
* creating vignettes ... ERROR
Loading required package: graph
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared library '/tmp/Rinst3190693266/rsbml/libs/rsbml.so':
/tmp/Rinst3190693266/rsbml/libs/rsbml.so: undefined symbol: SBase_getElementName
Error: processing vignette 'quick-start.Rnw' failed with diagnostics:
chunk 1 (label=read)
Error in library(rsbml) : .First.lib failed for 'rsbml'
Execution halted