Rdisop 1.4.0
Steffen Neumann
| Bioconductor Changelog | | Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/Rdisop | | Last Changed Rev: 39013 / Revision: 42512 | | Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009) |
| wilson1 | Linux (openSUSE 11.1) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | [ OK ] | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | N O T S U P P O R T E D |
| pelham | Mac OS X Leopard (10.5.8) / i386 | N O T S U P P O R T E D |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.4-bioc/meat/Rdisop.Rcheck'
* using R version 2.9.2 (2009-08-24)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Rdisop/DESCRIPTION' ... OK
* this is package 'Rdisop' version '1.4.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Rdisop' 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 files against version 2 parser ... 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
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK
* Installing *source* package 'Rdisop' ...
Building libRcpp.a in RcppSrc...
g++ -c Rcpp.cpp -o Rcpp.o -I"e:\biocbld\bbs-2.4-bioc\R/include" -I"e:\biocbld\bbs-2.4-bioc\R/src/include" -Wall -O2
ar r libRcpp.a Rcpp.o
ranlib libRcpp.a
rm Rcpp.o
Building imslib.dll in src/imslib...
cp src/winlibs/libims*.dll R_PACKAGE_DIR:E:/biocbld/bbs-2.4-bioc/meat/Rdisop.Rcheck/Rdisop/libs/
-rw-r--r-- 1 biocbuild None 2806048 Apr 20 2009 src/winlibs/libims-0.dll
-rwxr-xr-x 1 biocbuild None 2806048 Apr 20 2009 src/winlibs/libims.dll
libs in instal directory...
total 5488
-rw-r--r-- 1 biocbuild None 2806048 Oct 20 18:09 libims-0.dll
-rwxr-xr-x 1 biocbuild None 2806048 Oct 20 18:09 libims.dll
** libs
making DLL ...
g++ -I"e:/biocbld/bbs-2.4-bioc/R/include" -I./imslib/src -I../RcppSrc/ -O2 -Wall -c disop.cpp -o disop.o
disop.cpp: In function 'bool isValidMyNitrogenRule(const ims::ComposedElement&, int)':
disop.cpp:122: warning: unused variable 'parityeven'
disop.cpp: In function 'SEXPREC* decomposeIsotopes(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
disop.cpp:207: warning: comparison between signed and unsigned integer expressions
disop.cpp:210: warning: comparison between signed and unsigned integer expressions
disop.cpp:218: warning: comparison between signed and unsigned integer expressions
disop.cpp:218: warning: comparison between signed and unsigned integer expressions
disop.cpp:171: warning: unused variable 'number_molecules_shown'
disop.cpp: In function 'SEXPREC* calculateScore(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
disop.cpp:353: warning: comparison between signed and unsigned integer expressions
disop.cpp:353: warning: comparison between signed and unsigned integer expressions
disop.cpp:370: warning: comparison between signed and unsigned integer expressions
disop.cpp:373: warning: comparison between signed and unsigned integer expressions
disop.cpp:377: warning: comparison between signed and unsigned integer expressions
disop.cpp:377: warning: comparison between signed and unsigned integer expressions
disop.cpp: In function 'void initializeAlphabet(SEXPREC*, alphabet_t&)':
disop.cpp:789: warning: deprecated conversion from string constant to 'char*'
disop.cpp:791: warning: deprecated conversion from string constant to 'char*'
disop.cpp:793: warning: deprecated conversion from string constant to 'char*'
disop.cpp:795: warning: deprecated conversion from string constant to 'char*'
disop.cpp:796: warning: deprecated conversion from string constant to 'char*'
disop.cpp:797: warning: deprecated conversion from string constant to 'char*'
g++ -shared -s -o Rdisop.dll tmp.def disop.o -L./winlibs -lims -L../RcppSrc/ -lRcpp -Le:/biocbld/bbs-2.4-bioc/R/bin -lR
Info: resolving ims::IsotopeDistribution::SIZE by linking to __imp___ZN3ims19IsotopeDistribution4SIZEE (auto-import)
Info: resolving ims::IsotopeDistribution::ABUNDANCES_SUM_ERROR by linking to __imp___ZN3ims19IsotopeDistribution20ABUNDANCES_SUM_ERRORE (auto-import)
Info: resolving vtable for ims::Alphabetby linking to __imp___ZTVN3ims8AlphabetE (auto-importc:/rtools/mingw/bin/../lib/gcc/mingw32/4.2.1-sjlj/../../../../mingw32/bin/ld.exe: warning: auto-importing has been activated without --enable-auto-import specified on the command line.
This should work unless it involves constant data structures referencing symbols from auto-imported DLLs.)
... done
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
>>> Building/Updating help pages for package 'Rdisop'
Formats: text html latex example chm
RcppVersion text html latex example chm
addMolecules text html latex example chm
decomposeMass text html latex example chm
getMolecule text html latex example chm
initializeCHNOPS text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\BBS-2~1.4-B\meat\RDISOP~1.RCH\00_PKG~1\Rdisop\chm\Rdisop.chm
Compile time: 0 minutes, 0 seconds
6 Topics
25 Local links
0 Internet links
1 Graphic
Created e:\biocbld\BBS-2~1.4-B\meat\RDISOP~1.RCH\00_PKG~1\Rdisop\chm\Rdisop.chm, 21,307 bytes
Compression decreased file by 2,332 bytes.
** building package indices ...
** MD5 sums
* DONE (Rdisop)