Rdisop 1.14.0
Steffen Neumann
| Snapshot Date: 2012-03-23 18:21:46 -0700 (Fri, 23 Mar 2012) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/Rdisop | | Last Changed Rev: 59920 / Revision: 64395 | | Last Changed Date: 2011-10-31 15:59:03 -0700 (Mon, 31 Oct 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | OK | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | ERROR | [ ERROR ] |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
install for i386
* installing *source* package 'Rdisop' ...
Building libRcpp.a in RcppSrc...
... using <gcc> and <g++>
g++ -c Rcpp.cpp -o Rcpp.o -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/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 [-Wsign-compare]
disop.cpp: In function 'bool isValidMyNitrogenRule(const ims::ComposedElement&, int)':
disop.cpp:124:8: warning: unused variable 'parityeven' [-Wunused-variable]
disop.cpp: In function 'SEXPREC* decomposeIsotopes(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
disop.cpp:211:61: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:214:61: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:222:60: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:222:86: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:174:6: warning: unused variable 'number_molecules_shown' [-Wunused-variable]
disop.cpp: In function 'SEXPREC* calculateScore(SEXP, SEXP, SEXP, SEXP)':
disop.cpp:357:60: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:357:86: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:374:61: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:377:61: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:381:60: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:381:86: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp: In function 'void initializeAlphabet(SEXP, alphabet_t&, int)':
disop.cpp:799:26: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
disop.cpp:801:86: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
disop.cpp:803:47: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
disop.cpp:805:23: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
disop.cpp:806:55: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
disop.cpp:807:65: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
g++ -I"D:/biocbld/BBS-2˜1.9-B/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 [-Wsign-compare]
g++ -I"D:/biocbld/BBS-2˜1.9-B/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 [-Wsign-compare]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/isotopedistribution.cpp -o imslib/src/ims/isotopedistribution.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/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 [-Wsign-compare]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/weights.cpp -o imslib/src/ims/weights.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/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 [-Wsign-compare]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/transformation.cpp -o imslib/src/ims/transformation.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/isotopespecies.cpp -o imslib/src/ims/isotopespecies.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/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 sequence_type&)':
imslib/src/ims/base/parser/keggligandcompoundsparser.cpp:55:65: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
g++ -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/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 [-Wsign-compare]
g++ -I"D:/biocbld/BBS-2˜1.9-B/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
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/distributionprobabilityscorer.cpp -o imslib/src/ims/distributionprobabilityscorer.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/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 [-Wsign-compare]
g++ -I"D:/biocbld/BBS-2˜1.9-B/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 [-Wsign-compare]
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˜1.9-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/Rdisop.buildbin-libdir/Rdisop/libs/i386
** 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
add DLL for x64
* installing *source* package 'Rdisop' ...
Building libRcpp.a in RcppSrc...
... using <gcc -m64> and <g++ -m64>
make: invalid option -- 6
make: invalid option -- 4
Usage: make [options] [target] ...
Options:
-b, -m Ignored for compatibility.
-C DIRECTORY, --directory=DIRECTORY
Change to DIRECTORY before doing anything.
-d Print lots of debugging information.
--debug[=FLAGS] Print various types of debugging information.
-e, --environment-overrides
Environment variables override makefiles.
-f FILE, --file=FILE, --makefile=FILE
Read FILE as a makefile.
-h, --help Print this message and exit.
-i, --ignore-errors Ignore errors from commands.
-I DIRECTORY, --include-dir=DIRECTORY
Search DIRECTORY for included makefiles.
-j [N], --jobs[=N] Allow N jobs at once; infinite jobs with no arg.
-k, --keep-going Keep going when some targets can't be made.
-l [N], --load-average[=N], --max-load[=N]
Don't start multiple jobs unless load is below N.
-n, --just-print, --dry-run, --recon
Don't actually run any commands; just print them.
-o FILE, --old-file=FILE, --assume-old=FILE
Consider FILE to be very old and don't remake it.
-p, --print-data-base Print make's internal database.
-q, --question Run no commands; exit status says if up to date.
-r, --no-builtin-rules Disable the built-in implicit rules.
-R, --no-builtin-variables Disable the built-in variable settings.
-s, --silent, --quiet Don't echo commands.
-S, --no-keep-going, --stop
Turns off -k.
-t, --touch Touch targets instead of remaking them.
-v, --version Print the version number of make and exit.
-w, --print-directory Print the current directory.
--no-print-directory Turn off -w, even if it was turned on implicitly.
-W FILE, --what-if=FILE, --new-file=FILE, --assume-new=FILE
Consider FILE to be infinitely new.
--warn-undefined-variables Warn when an undefined variable is referenced.
--unix Run in UNIX mode (use sh.exe subshell).
--win32 Run in Win32 mode (use Win32 subshell).
Report bugs to <bug-make@gnu.org>.
Building imslib.dll in src/imslib... with <gcc -m64> and <g++ -m64>
configure: not found
make: *** No rule to make target `src/libims.la'. Stop.
** libs
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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 [-Wsign-compare]
disop.cpp: In function 'bool isValidMyNitrogenRule(const ims::ComposedElement&, int)':
disop.cpp:124:8: warning: unused variable 'parityeven' [-Wunused-variable]
disop.cpp: In function 'SEXPREC* decomposeIsotopes(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
disop.cpp:211:61: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:214:61: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:222:60: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:222:86: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:174:6: warning: unused variable 'number_molecules_shown' [-Wunused-variable]
disop.cpp: In function 'SEXPREC* calculateScore(SEXP, SEXP, SEXP, SEXP)':
disop.cpp:357:60: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:357:86: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:374:61: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:377:61: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:381:60: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp:381:86: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
disop.cpp: In function 'void initializeAlphabet(SEXP, alphabet_t&, int)':
disop.cpp:799:26: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
disop.cpp:801:86: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
disop.cpp:803:47: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
disop.cpp:805:23: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
disop.cpp:806:55: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
disop.cpp:807:65: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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 [-Wsign-compare]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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 [-Wsign-compare]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/isotopedistribution.cpp -o imslib/src/ims/isotopedistribution.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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 [-Wsign-compare]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/weights.cpp -o imslib/src/ims/weights.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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 [-Wsign-compare]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/transformation.cpp -o imslib/src/ims/transformation.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/isotopespecies.cpp -o imslib/src/ims/isotopespecies.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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 sequence_type&)':
imslib/src/ims/base/parser/keggligandcompoundsparser.cpp:55:65: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/calib/linepairstabber.cpp -o imslib/src/ims/calib/linepairstabber.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/calib/matchmatrix.cpp -o imslib/src/ims/calib/matchmatrix.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/calib/linearpointsetmatcher.cpp -o imslib/src/ims/calib/linearpointsetmatcher.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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 [-Wsign-compare]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/utils/distribution.cpp -o imslib/src/ims/utils/distribution.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -I../RcppSrc -I./imslib/src/ -O2 -Wall -mtune=core2 -c imslib/src/ims/distributionprobabilityscorer.cpp -o imslib/src/ims/distributionprobabilityscorer.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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 [-Wsign-compare]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/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 [-Wsign-compare]
g++ -m64 -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:/RCompile/CRANpkg/extralibs64/local/lib/x64 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LD:/biocbld/BBS-2˜1.9-B/R/bin/x64 -lR
c:/rtools215/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../i686-w64-mingw32/bin/ld.exe: skipping incompatible ../RcppSrc/libRcpp.a when searching for -lRcpp
c:/rtools215/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../i686-w64-mingw32/bin/ld.exe: skipping incompatible ../RcppSrc\libRcpp.a when searching for -lRcpp
c:/rtools215/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../i686-w64-mingw32/bin/ld.exe: skipping incompatible ../RcppSrc/libRcpp.a when searching for -lRcpp
c:/rtools215/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../i686-w64-mingw32/bin/ld.exe: cannot find -lRcpp
collect2: ld returned 1 exit status
ERROR: compilation failed for package 'Rdisop'
* removing 'D:/biocbld/bbs-2.9-bioc/meat/Rdisop.buildbin-libdir/Rdisop'
* restoring previous 'D:/biocbld/bbs-2.9-bioc/meat/Rdisop.buildbin-libdir/Rdisop'