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Package 409/516HostnameOS / ArchBUILDCHECKBUILD BIN
Rdisop 1.14.0
Steffen Neumann
Snapshot Date: 2012-01-08 18:22:44 -0800 (Sun, 08 Jan 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/Rdisop
Last Changed Rev: 59920 / Revision: 61898
Last Changed Date: 2011-10-31 15:59:03 -0700 (Mon, 31 Oct 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  TIMEOUT  skipped  skipped 
gewurz Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: Rdisop
Version: 1.14.0
Command: rm -rf Rdisop.buildbin-libdir && mkdir Rdisop.buildbin-libdir && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD INSTALL --build --no-multiarch --library=Rdisop.buildbin-libdir Rdisop_1.14.0.tar.gz
StartedAt: 2012-01-09 06:48:57 -0800 (Mon, 09 Jan 2012)
EndedAt: 2012-01-09 06:49:31 -0800 (Mon, 09 Jan 2012)
EllapsedTime: 33.6 seconds
RetCode: 0
Status:  OK  
PackageFile: Rdisop_1.14.0.zip
PackageFileSize: 567.5 KiB

Command output

* installing *source* package 'Rdisop' ...
Building libRcpp.a in RcppSrc...
... using <x86_64-w64-mingw32-gcc> and <x86_64-w64-mingw32-g++>
x86_64-w64-mingw32-g++ -c Rcpp.cpp -o Rcpp.o -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/src/include"  -Wall -O2
x86_64-w64-mingw32-ar rs libRcpp.a Rcpp.o
rm -f Rcpp.o
Building imslib.dll in src/imslib... with <x86_64-w64-mingw32-gcc> and <x86_64-w64-mingw32-g++>
configure: not found
make: *** No rule to make target `src/libims.la'.  Stop.
** libs
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -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:799:26: warning: deprecated conversion from string constant to 'char*'
disop.cpp:801:86: warning: deprecated conversion from string constant to 'char*'
disop.cpp:803:47: warning: deprecated conversion from string constant to 'char*'
disop.cpp:805:23: warning: deprecated conversion from string constant to 'char*'
disop.cpp:806:55: warning: deprecated conversion from string constant to 'char*'
disop.cpp:807:65: warning: deprecated conversion from string constant to 'char*'
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -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
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -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
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/isotopedistribution.cpp -o imslib/src/ims/isotopedistribution.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -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
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/weights.cpp -o imslib/src/ims/weights.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -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
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/transformation.cpp -o imslib/src/ims/transformation.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/isotopespecies.cpp -o imslib/src/ims/isotopespecies.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/base/parser/alphabettextparser.cpp -o imslib/src/ims/base/parser/alphabettextparser.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/base/parser/distributedalphabettextparser.cpp -o imslib/src/ims/base/parser/distributedalphabettextparser.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/base/parser/massestextparser.cpp -o imslib/src/ims/base/parser/massestextparser.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/base/parser/moleculesequenceparser.cpp -o imslib/src/ims/base/parser/moleculesequenceparser.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/base/parser/standardmoleculesequenceparser.cpp -o imslib/src/ims/base/parser/standardmoleculesequenceparser.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -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 '||'
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/base/parser/moleculeionchargemodificationparser.cpp -o imslib/src/ims/base/parser/moleculeionchargemodificationparser.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/calib/linepairstabber.cpp -o imslib/src/ims/calib/linepairstabber.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/calib/matchmatrix.cpp -o imslib/src/ims/calib/matchmatrix.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/calib/linearpointsetmatcher.cpp -o imslib/src/ims/calib/linearpointsetmatcher.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -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
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/utils/distribution.cpp -o imslib/src/ims/utils/distribution.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -c imslib/src/ims/distributionprobabilityscorer.cpp -o imslib/src/ims/distributionprobabilityscorer.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -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
x86_64-w64-mingw32-g++  -I"D:/biocbld/bbs-2.9-bioc/R/include"       -I../RcppSrc -I./imslib/src/   -O2 -Wall  -mtune=core2 -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
x86_64-w64-mingw32-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 -LD:/biocbld/bbs-2.9-bioc/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/Rdisop.buildbin-libdir/Rdisop/libs/x64
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'Rdisop.Rnw' 
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Rdisop' as Rdisop_1.14.0.zip

* DONE (Rdisop)