Rdisop 1.8.0
Steffen Neumann
| Snapshot Date: 2010-10-04 11:22:20 -0700 (Mon, 04 Oct 2010) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/Rdisop | | Last Changed Rev: 46401 / Revision: 49923 | | Last Changed Date: 2010-04-22 11:21:23 -0700 (Thu, 22 Apr 2010) |
| wilson1 | Linux (openSUSE 11.1) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | [ OK ] | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | 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-2.6-bioc/meat/Rdisop.Rcheck'
* using R version 2.11.1 (2010-05-31)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Rdisop/DESCRIPTION' ... OK
* this is package 'Rdisop' version '1.8.0'
* 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 package can be unloaded cleanly ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... 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 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 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
* install options are ' --no-html'
* installing *source* package 'Rdisop' ...
Building libRcpp.a in RcppSrc...
g++ -c Rcpp.cpp -o Rcpp.o -I"E:\biocbld\bbs-2.6-bioc\R/include" -I"E:\biocbld\bbs-2.6-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-2.6-bioc/meat/Rdisop.Rcheck/Rdisop/libs/
-rw-r--r--+ 1 biocbuild None 2806048 2010-04-22 11:50 src/winlibs/libims-0.dll
-rwxr-xr-x+ 1 biocbuild None 2806048 2010-04-22 11:50 src/winlibs/libims.dll
libs in instal directory...
total 5488
-rwxr-xr-x 1 biocbuild None 2806048 2010-10-04 19:47 libims-0.dll
-rwxr-xr-x 1 biocbuild None 2806048 2010-10-04 19:47 libims.dll
** libs
making DLL ...
g++ -I"E:/biocbld/bbs-2.6-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:124: warning: unused variable 'parityeven'
disop.cpp: In function 'SEXPREC* decomposeIsotopes(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
disop.cpp:211: warning: comparison between signed and unsigned integer expressions
disop.cpp:214: warning: comparison between signed and unsigned integer expressions
disop.cpp:222: warning: comparison between signed and unsigned integer expressions
disop.cpp:222: warning: comparison between signed and unsigned integer expressions
disop.cpp:174: warning: unused variable 'number_molecules_shown'
disop.cpp: In function 'SEXPREC* calculateScore(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
disop.cpp:357: warning: comparison between signed and unsigned integer expressions
disop.cpp:357: warning: comparison between signed and unsigned integer expressions
disop.cpp:374: warning: comparison between signed and unsigned integer expressions
disop.cpp:377: warning: comparison between signed and unsigned integer expressions
disop.cpp:381: warning: comparison between signed and unsigned integer expressions
disop.cpp:381: warning: comparison between signed and unsigned integer expressions
disop.cpp: In function 'void initializeAlphabet(SEXPREC*, alphabet_t&, int)':
disop.cpp:797: warning: deprecated conversion from string constant to 'char*'
disop.cpp:799: warning: deprecated conversion from string constant to 'char*'
disop.cpp:801: warning: deprecated conversion from string constant to 'char*'
disop.cpp:803: warning: deprecated conversion from string constant to 'char*'
disop.cpp:804: warning: deprecated conversion from string constant to 'char*'
disop.cpp:805: warning: deprecated conversion from string constant to 'char*'
g++ -shared -s -static-libgcc -o Rdisop.dll tmp.def disop.o -L./winlibs -lims -L../RcppSrc/ -lRcpp -LE:/biocbld/bbs-2.6-bioc/R/bin -lR
Info: resolving ims::IsotopeDistribution::ABUNDANCES_SUM_ERROR by linking to __imp___ZN3ims19IsotopeDistribution20ABUNDANCES_SUM_ERRORE (auto-import)
Info: resolving ims::IsotopeDistribution::SIZE by linking to __imp___ZN3ims19IsotopeDistribution4SIZEE (auto-import)
Info: resolving vtable for ims::Alphabetby linking to __imp___ZTVN3ims8AlphabetE (auto-importc:/rtools211/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.)
installing to E:/biocbld/bbs-2.6-bioc/meat/Rdisop.Rcheck/Rdisop/libs
... done
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
* DONE (Rdisop)