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Package 193/234HostnameOSArchBUILDCHECKBUILD BIN
rsbml 1.4.0
Michael Lawrence
Last Changed Date: 2007-10-02 17:41:09 -0700
Last Changed Rev: 27709
lamb1 Linux (SUSE 10.1) x86_64  OK  OK 
wellington Linux (SUSE 9.2) i686 N O T   S U P P O R T E D
liverpool Windows Server 2003 R2 (32-bit) x64  OK [ WARNINGS ] OK 
pitt Mac OS X (10.4.10) i386 N O T   S U P P O R T E D
Package: rsbml
Version: 1.4.0
Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check rsbml_1.4.0.tar.gz
RetCode: 0
Time: 73.0 seconds
Status: WARNINGS
CheckDir: rsbml.Rcheck
Warnings: 1

Command output

* checking for working latex ... OK
* using log directory 'E:/biocbld/bbs-2.1-bioc/meat/rsbml.Rcheck'
* using R version 2.6.0 (2007-10-03)
* checking for file 'rsbml/DESCRIPTION' ... OK
* this is package 'rsbml' version '1.4.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'rsbml' 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 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 rsbml-Ex.R ... OK
* checking examples ... WARNING
Found the following significant warnings:
  Warning: 'Sys.putenv' is deprecated.
Deprecated functions may be defunct as soon as of the next release of R.
See ?Deprecated.
* checking package vignettes in 'inst/doc' ... OK
* creating rsbml-manual.tex ... OK
* checking rsbml-manual.tex ... OK

WARNING: There was 1 warning, see
  E:/biocbld/bbs-2.1-bioc/meat/rsbml.Rcheck/00check.log
for details

rsbml.Rcheck/00install.out:

installing R.css in E:/biocbld/bbs-2.1-bioc/meat/rsbml.Rcheck


---------- Making package rsbml ------------
  adding build stamp to DESCRIPTION
  making DLL ...
making check.d from check.c
making doc.d from doc.c
making dom.d from dom.c
making graph.d from graph.c
making init.d from init.c
making io.d from io.c
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include   -g -D_R_=1 -DUSE_R=1 -IC:/SBML/libsbml-2.3.4-expat/win32/include/sbml -IC:/SBML/libsbml-2.3.4-expat/win32/include/expat -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O3  -c check.c -o check.o
In file included from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLDocument.h:56,
                 from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLTypes.h:56,
                 from rsbml.h:4,
                 from check.c:1:
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:79: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:84: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:87: warning: ignoring #pragma warning 
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include   -g -D_R_=1 -DUSE_R=1 -IC:/SBML/libsbml-2.3.4-expat/win32/include/sbml -IC:/SBML/libsbml-2.3.4-expat/win32/include/expat -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O3  -c doc.c -o doc.o
In file included from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLDocument.h:56,
                 from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLTypes.h:56,
                 from rsbml.h:4,
                 from doc.c:1:
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:79: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:84: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:87: warning: ignoring #pragma warning 
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include   -g -D_R_=1 -DUSE_R=1 -IC:/SBML/libsbml-2.3.4-expat/win32/include/sbml -IC:/SBML/libsbml-2.3.4-expat/win32/include/expat -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O3  -c dom.c -o dom.o
In file included from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLDocument.h:56,
                 from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLTypes.h:56,
                 from rsbml.h:4,
                 from dom.c:1:
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:79: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:84: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:87: warning: ignoring #pragma warning 
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include   -g -D_R_=1 -DUSE_R=1 -IC:/SBML/libsbml-2.3.4-expat/win32/include/sbml -IC:/SBML/libsbml-2.3.4-expat/win32/include/expat -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O3  -c graph.c -o graph.o
In file included from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLDocument.h:56,
                 from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLTypes.h:56,
                 from rsbml.h:4,
                 from graph.c:1:
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:79: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:84: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:87: warning: ignoring #pragma warning 
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include   -g -D_R_=1 -DUSE_R=1 -IC:/SBML/libsbml-2.3.4-expat/win32/include/sbml -IC:/SBML/libsbml-2.3.4-expat/win32/include/expat -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O3  -c init.c -o init.o
In file included from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLDocument.h:56,
                 from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLTypes.h:56,
                 from rsbml.h:4,
                 from init.c:1:
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:79: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:84: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:87: warning: ignoring #pragma warning 
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include   -g -D_R_=1 -DUSE_R=1 -IC:/SBML/libsbml-2.3.4-expat/win32/include/sbml -IC:/SBML/libsbml-2.3.4-expat/win32/include/expat -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O3  -c io.c -o io.o
In file included from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLDocument.h:56,
                 from C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/SBMLTypes.h:56,
                 from rsbml.h:4,
                 from io.c:1:
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:79: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:84: warning: ignoring #pragma warning 
C:/SBML/libsbml-2.3.4-expat/win32/include/sbml/common/extern.h:87: warning: ignoring #pragma warning 
windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.1-bioc/R/include  -i rsbml_res.rc -o rsbml_res.o
gcc-sjlj  -std=gnu99  -shared -s  -o rsbml.dll rsbml.def check.o doc.o dom.o graph.o init.o io.o rsbml_res.o  -Le:/biocbld/bbs-2.1-bioc/R/bin -LC:/SBML/libsbml-2.3.4-expat/win32/bin -lsbml   -lR
  ... DLL made
  installing DLL
  installing R files
  installing inst files
  installing man source files
  installing indices
  installing help
 >>> Building/Updating help pages for package 'rsbml'
     Formats: text html latex example chm 
  AlgebraicRule-class               text    html    latex           chm
  AssignmentRule-class              text    html    latex           chm
  BoundingBox-class                 text    html    latex           chm
  Compartment-class                 text    html    latex           chm
  CompartmentGlyph-class            text    html    latex           chm
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  CompartmentVolumeRule-class       text    html    latex           chm
  Constraint-class                  text    html    latex           chm
  CubicBezier-class                 text    html    latex           chm
  Curve-class                       text    html    latex           chm
  Delay-class                       text    html    latex           chm
  Dimensions-class                  text    html    latex           chm
  Event-class                       text    html    latex           chm
  EventAssignment-class             text    html    latex           chm
  FunctionDefinition-class          text    html    latex           chm
  GraphicalObject-class             text    html    latex           chm
  InitialAssignment-class           text    html    latex           chm
  KineticLaw-class                  text    html    latex           chm
  Layout-class                      text    html    latex           chm
  LineSegment-class                 text    html    latex           chm
  Model-class                       text    html    latex           chm
  ModifierSpeciesReference-class    text    html    latex           chm
  Parameter-class                   text    html    latex           chm
  ParameterRule-class               text    html    latex           chm
  Point-class                       text    html    latex           chm
  RateRule-class                    text    html    latex           chm
  Reaction-class                    text    html    latex           chm
  ReactionGlyph-class               text    html    latex           chm
  Rule-class                        text    html    latex           chm
  SBML-class                        text    html    latex   example chm
  SBMLDocument-class                text    html    latex   example chm
  SBase-class                       text    html    latex           chm
  SimpleSpeciesReference-class      text    html    latex           chm
  Species-class                     text    html    latex           chm
  SpeciesConcentrationRule-class    text    html    latex           chm
  SpeciesGlyph-class                text    html    latex           chm
  SpeciesReference-class            text    html    latex           chm
  SpeciesReferenceGlyph-class       text    html    latex           chm
  SpeciesType-class                 text    html    latex           chm
  StoichiometryMath-class           text    html    latex           chm
  TextGlyph-class                   text    html    latex           chm
  Trigger-class                     text    html    latex           chm
  Unit-class                        text    html    latex           chm
  UnitDefinition-class              text    html    latex           chm
  read                              text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\bbs-2.1-bioc\meat\rsbml.Rcheck\00_pkg_src\rsbml\chm\rsbml.chm


Compile time: 0 minutes, 0 seconds
46	Topics
618	Local links
44	Internet links
1	Graphic


Created e:\biocbld\bbs-2.1-bioc\meat\rsbml.Rcheck\00_pkg_src\rsbml\chm\rsbml.chm, 60,020 bytes
Compression decreased file by 254,751 bytes.
  preparing package rsbml for lazy loading
Loading required package: graph
New generic for "curve" does not agree with implicit generic from package "graphics"; a new generic will be assigned with package "rsbml"
New generic for "delay" does not agree with implicit generic from package "base"; a new generic will be assigned with package "rsbml"
New generic for "scale" does not agree with implicit generic from package "base"; a new generic will be assigned with package "rsbml"
  adding MD5 sums

* DONE (rsbml)