Rdisop 1.11.3
Steffen Neumann
| Snapshot Date: 2011-02-24 11:26:35 -0800 (Thu, 24 Feb 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Rdisop | | Last Changed Rev: 52486 / Revision: 53255 | | Last Changed Date: 2011-02-04 15:42:28 -0800 (Fri, 04 Feb 2011) |
| lamb2 | Linux (openSUSE 11.2) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | [ OK ] |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | OK | OK |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
| petty | Mac OS X Snow Leopard (10.6.4) / i386 | OK | OK | OK |
* installing *source* package 'Rdisop' ...
Building libRcpp.a in RcppSrc...
... using <gcc> and <g++>
g++ -c Rcpp.cpp -o Rcpp.o -I"E:/biocbld/bbs-2.8-bioc/R/include" -I"E:/biocbld/bbs-2.8-bioc/R/src/include" -Wall -O2
ar rs libRcpp.a Rcpp.o
rm -f Rcpp.o
Building imslib.dll in src/imslib... with <gcc> and <g++>
configure: not found
make: *** No rule to make target `src/libims.la'. Stop.
** libs
Warning: this package has a non-empty 'configure.win' file,
so building only the main architecture
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c disop.cpp -o disop.o
In file included from ./imslib/src/ims/alphabet.h:8:0,
from disop.cpp:35:
./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const':
./imslib/src/ims/element.h:166:46: warning: comparison between signed and unsigned integer expressions
disop.cpp: In function 'bool isValidMyNitrogenRule(const ims::ComposedElement&, int)':
disop.cpp:124:8: warning: unused variable 'parityeven'
disop.cpp: In function 'SEXPREC* decomposeIsotopes(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
disop.cpp:211:61: warning: comparison between signed and unsigned integer expressions
disop.cpp:214:61: warning: comparison between signed and unsigned integer expressions
disop.cpp:222:60: warning: comparison between signed and unsigned integer expressions
disop.cpp:222:86: warning: comparison between signed and unsigned integer expressions
disop.cpp:174:6: warning: unused variable 'number_molecules_shown'
disop.cpp: In function 'SEXPREC* calculateScore(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
disop.cpp:357:60: warning: comparison between signed and unsigned integer expressions
disop.cpp:357:86: warning: comparison between signed and unsigned integer expressions
disop.cpp:374:61: warning: comparison between signed and unsigned integer expressions
disop.cpp:377:61: warning: comparison between signed and unsigned integer expressions
disop.cpp:381:60: warning: comparison between signed and unsigned integer expressions
disop.cpp:381:86: warning: comparison between signed and unsigned integer expressions
disop.cpp: In function 'void initializeAlphabet(SEXPREC*, alphabet_t&, int)':
disop.cpp:797:26: warning: deprecated conversion from string constant to 'char*'
disop.cpp:799:86: warning: deprecated conversion from string constant to 'char*'
disop.cpp:801:47: warning: deprecated conversion from string constant to 'char*'
disop.cpp:803:23: warning: deprecated conversion from string constant to 'char*'
disop.cpp:804:55: warning: deprecated conversion from string constant to 'char*'
disop.cpp:805:65: warning: deprecated conversion from string constant to 'char*'
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/element.cpp -o imslib/src/ims/element.o
In file included from imslib/src/ims/element.cpp:6:0:
./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const':
./imslib/src/ims/element.h:166:46: warning: comparison between signed and unsigned integer expressions
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/composedelement.cpp -o imslib/src/ims/composedelement.o
In file included from ./imslib/src/ims/composedelement.h:7:0,
from imslib/src/ims/composedelement.cpp:8:
./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const':
./imslib/src/ims/element.h:166:46: warning: comparison between signed and unsigned integer expressions
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/isotopedistribution.cpp -o imslib/src/ims/isotopedistribution.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/alphabet.cpp -o imslib/src/ims/alphabet.o
In file included from ./imslib/src/ims/alphabet.h:8:0,
from imslib/src/ims/alphabet.cpp:6:
./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const':
./imslib/src/ims/element.h:166:46: warning: comparison between signed and unsigned integer expressions
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/weights.cpp -o imslib/src/ims/weights.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/distributedalphabet.cpp -o imslib/src/ims/distributedalphabet.o
In file included from ./imslib/src/ims/alphabet.h:8:0,
from ./imslib/src/ims/distributedalphabet.h:7,
from imslib/src/ims/distributedalphabet.cpp:7:
./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const':
./imslib/src/ims/element.h:166:46: warning: comparison between signed and unsigned integer expressions
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/transformation.cpp -o imslib/src/ims/transformation.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/isotopespecies.cpp -o imslib/src/ims/isotopespecies.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/base/parser/alphabettextparser.cpp -o imslib/src/ims/base/parser/alphabettextparser.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/base/parser/distributedalphabettextparser.cpp -o imslib/src/ims/base/parser/distributedalphabettextparser.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/base/parser/massestextparser.cpp -o imslib/src/ims/base/parser/massestextparser.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/base/parser/moleculesequenceparser.cpp -o imslib/src/ims/base/parser/moleculesequenceparser.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/base/parser/standardmoleculesequenceparser.cpp -o imslib/src/ims/base/parser/standardmoleculesequenceparser.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/base/parser/keggligandcompoundsparser.cpp -o imslib/src/ims/base/parser/keggligandcompoundsparser.o
imslib/src/ims/base/parser/keggligandcompoundsparser.cpp: In member function 'virtual void ims::KeggLigandCompoundsParser::parse(const ims::AbstractMoleculeSequenceParser::sequence_type&)':
imslib/src/ims/base/parser/keggligandcompoundsparser.cpp:55:65: warning: suggest parentheses around '&&' within '||'
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/base/parser/moleculeionchargemodificationparser.cpp -o imslib/src/ims/base/parser/moleculeionchargemodificationparser.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/calib/linepairstabber.cpp -o imslib/src/ims/calib/linepairstabber.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/calib/matchmatrix.cpp -o imslib/src/ims/calib/matchmatrix.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/calib/linearpointsetmatcher.cpp -o imslib/src/ims/calib/linearpointsetmatcher.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/decomp/realmassdecomposer.cpp -o imslib/src/ims/decomp/realmassdecomposer.o
In file included from ./imslib/src/ims/alphabet.h:8:0,
from ./imslib/src/ims/decomp/decomputils.h:12,
from imslib/src/ims/decomp/realmassdecomposer.cpp:9:
./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const':
./imslib/src/ims/element.h:166:46: warning: comparison between signed and unsigned integer expressions
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/utils/distribution.cpp -o imslib/src/ims/utils/distribution.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/distributionprobabilityscorer.cpp -o imslib/src/ims/distributionprobabilityscorer.o
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/characteralphabet.cpp -o imslib/src/ims/characteralphabet.o
In file included from ./imslib/src/ims/alphabet.h:8:0,
from ./imslib/src/ims/characteralphabet.h:6,
from imslib/src/ims/characteralphabet.cpp:3:
./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const':
./imslib/src/ims/element.h:166:46: warning: comparison between signed and unsigned integer expressions
g++ -I"E:/biocbld/bbs-2.8-bioc/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -c imslib/src/ims/nitrogenrulefilter.cpp -o imslib/src/ims/nitrogenrulefilter.o
In file included from ./imslib/src/ims/composedelement.h:7:0,
from ./imslib/src/ims/nitrogenrulefilter.h:4,
from imslib/src/ims/nitrogenrulefilter.cpp:5:
./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const':
./imslib/src/ims/element.h:166:46: warning: comparison between signed and unsigned integer expressions
g++ -shared -s -static-libgcc -o Rdisop.dll tmp.def disop.o imslib/src/ims/element.o imslib/src/ims/composedelement.o imslib/src/ims/isotopedistribution.o imslib/src/ims/alphabet.o imslib/src/ims/weights.o imslib/src/ims/distributedalphabet.o imslib/src/ims/transformation.o imslib/src/ims/isotopespecies.o imslib/src/ims/base/parser/alphabettextparser.o imslib/src/ims/base/parser/distributedalphabettextparser.o imslib/src/ims/base/parser/massestextparser.o imslib/src/ims/base/parser/moleculesequenceparser.o imslib/src/ims/base/parser/standardmoleculesequenceparser.o imslib/src/ims/base/parser/keggligandcompoundsparser.o imslib/src/ims/base/parser/moleculeionchargemodificationparser.o imslib/src/ims/calib/linepairstabber.o imslib/src/ims/calib/matchmatrix.o imslib/src/ims/calib/linearpointsetmatcher.o imslib/src/ims/decomp/realmassdecomposer.o imslib/src/ims/utils/distribution.o imslib/src/ims/distributionprobabilityscorer.o imslib/src/ims/characteralphabet.o imslib/src/ims/nitrogenrulefilter.o -L../RcppSrc -lRcpp -LE:/biocbld/bbs-2.8-bioc/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.8-bioc/meat/Rdisop.buildbin-libdir/Rdisop/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Rdisop' as Rdisop_1.11.3.zip
* DONE (Rdisop)