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BioC 3.1: INSTALL report for CNORode on moscato2

This page was generated on 2015-10-09 09:29:58 -0700 (Fri, 09 Oct 2015).

Package 189/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CNORode 1.10.0
David Henriques
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/CNORode
Last Changed Rev: 102591 / Revision: 109384
Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: CNORode
Version: 1.10.0
Command: C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.1/bioc/src/contrib/CNORode_1.10.0.tar.gz && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch CNORode_1.10.0.tar.gz && rm CNORode_1.10.0.tar.gz
StartedAt: 2015-10-08 18:54:32 -0700 (Thu, 08 Oct 2015)
EndedAt: 2015-10-08 18:56:08 -0700 (Thu, 08 Oct 2015)
EllapsedTime: 95.3 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.1/bioc/src/contrib/CNORode_1.10.0.tar.gz && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch CNORode_1.10.0.tar.gz && rm CNORode_1.10.0.tar.gz
###
##############################################################################
##############################################################################




install for i386

* installing to library 'E:/biocbld/bbs-3.1-bioc/R/library'
* installing *source* package 'CNORode' ...
** libs
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodea.c -o cvodea.o
cvodea.c: In function 'CVAhermiteStorePnt':
cvodea.c:2445:11: warning: variable 'retval' set but not used [-Wunused-but-set-variable]
cvodea.c: In function 'CVArhsQ':
cvodea.c:2941:7: warning: variable 'flag' set but not used [-Wunused-but-set-variable]
cvodea.c: In function 'CVAhermiteGetY':
cvodea.c:2591:17: warning: 'ySd0' may be used uninitialized in this function [-Wuninitialized]
cvodea.c:2591:17: warning: 'yS0' may be used uninitialized in this function [-Wuninitialized]
cvodea.c: In function 'CVodeB':
cvodea.c:1438:8: warning: 'flag' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodea_io.c -o cvodea_io.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes.c -o cvodes.o
cvodes.c: In function 'cvQuadSensRhs1InternalDQ':
cvodes.c:8834:20: warning: variable 'rDeltap' set but not used [-Wunused-but-set-variable]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_band.c -o cvodes_band.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_bandpre.c -o cvodes_bandpre.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_bbdpre.c -o cvodes_bbdpre.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_dense.c -o cvodes_dense.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_diag.c -o cvodes_diag.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_direct.c -o cvodes_direct.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_io.c -o cvodes_io.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_spbcgs.c -o cvodes_spbcgs.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_spgmr.c -o cvodes_spgmr.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_spils.c -o cvodes_spils.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c cvodes_sptfqmr.c -o cvodes_sptfqmr.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c decimal2binary.c -o decimal2binary.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c findStates.c -o findStates.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c fnvector_serial.c -o fnvector_serial.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c getAdjacencyMatrix.c -o getAdjacencyMatrix.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c getNumBits.c -o getNumBits.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c getNumInputs.c -o getNumInputs.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c getStateIndex.c -o getStateIndex.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c getTruthTables.c -o getTruthTables.o
getTruthTables.c: In function 'getTruthTables':
getTruthTables.c:17:14: warning: unused variable 'n' [-Wunused-variable]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c get_count_bits.c -o get_count_bits.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c get_input_index.c -o get_input_index.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c get_support_truth_tables.c -o get_support_truth_tables.o
get_support_truth_tables.c: In function 'get_support_truth_tables':
get_support_truth_tables.c:16:10: warning: unused variable 'k' [-Wunused-variable]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c get_truth_tables_index.c -o get_truth_tables_index.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c hill_function.c -o hill_function.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c linear_transfer_function.c -o linear_transfer_function.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c normHill.c -o normHill.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c nvector_serial.c -o nvector_serial.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c printAdjMat.c -o printAdjMat.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c printInterMat.c -o printInterMat.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c printNminiTerms.c -o printNminiTerms.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c printTruthTables.c -o printTruthTables.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c rhsODE.c -o rhsODE.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c sim_logic_ode.c -o sim_logic_ode.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c simulateODE.c -o simulateODE.o
simulateODE.c: In function 'simulateODE':
simulateODE.c:150:4: warning: implicit declaration of function 'CVDense' [-Wimplicit-function-declaration]
simulateODE.c:32:14: warning: variable 'counter' set but not used [-Wunused-but-set-variable]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c sundials_band.c -o sundials_band.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c sundials_dense.c -o sundials_dense.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c sundials_direct.c -o sundials_direct.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c sundials_iterative.c -o sundials_iterative.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c sundials_math.c -o sundials_math.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c sundials_nvector.c -o sundials_nvector.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c sundials_spbcgs.c -o sundials_spbcgs.o
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c sundials_spgmr.c -o sundials_spgmr.o
sundials_spgmr.c: In function 'SpgmrFree':
sundials_spgmr.c:439:29: warning: variable 'yg' set but not used [-Wunused-but-set-variable]
sundials_spgmr.c:439:20: warning: variable 'givens' set but not used [-Wunused-but-set-variable]
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O3 -Wall  -std=gnu99 -mtune=core2 -c sundials_sptfqmr.c -o sundials_sptfqmr.o
gcc -m32 -shared -s -static-libgcc -o CNORode.dll tmp.def cvodea.o cvodea_io.o cvodes.o cvodes_band.o cvodes_bandpre.o cvodes_bbdpre.o cvodes_dense.o cvodes_diag.o cvodes_direct.o cvodes_io.o cvodes_spbcgs.o cvodes_spgmr.o cvodes_spils.o cvodes_sptfqmr.o decimal2binary.o findStates.o fnvector_serial.o getAdjacencyMatrix.o getNumBits.o getNumInputs.o getStateIndex.o getTruthTables.o get_count_bits.o get_input_index.o get_support_truth_tables.o get_truth_tables_index.o hill_function.o linear_transfer_function.o normHill.o nvector_serial.o printAdjMat.o printInterMat.o printNminiTerms.o printTruthTables.o rhsODE.o sim_logic_ode.o simulateODE.o sundials_band.o sundials_dense.o sundials_direct.o sundials_iterative.o sundials_math.o sundials_nvector.o sundials_spbcgs.o sundials_spgmr.o sundials_sptfqmr.o -Ld:/RCompile/r-compiling/local/local320/lib/i386 -Ld:/RCompile/r-compiling/local/local320/lib -LE:/biocbld/BBS-3˜1.1-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-3.1-bioc/R/library/CNORode/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'CNORode-vignette.Rnw' using 'UTF-8' 
** testing if installed package can be loaded

install for x64

* installing to library 'E:/biocbld/bbs-3.1-bioc/R/library'
* installing *source* package 'CNORode' ...
** libs
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodea.c -o cvodea.o
cvodea.c: In function 'CVAhermiteStorePnt':
cvodea.c:2445:11: warning: variable 'retval' set but not used [-Wunused-but-set-variable]
cvodea.c: In function 'CVArhsQ':
cvodea.c:2941:7: warning: variable 'flag' set but not used [-Wunused-but-set-variable]
cvodea.c: In function 'CVAhermiteGetY':
cvodea.c:2591:17: warning: 'ySd0' may be used uninitialized in this function [-Wuninitialized]
cvodea.c:2591:17: warning: 'yS0' may be used uninitialized in this function [-Wuninitialized]
cvodea.c: In function 'CVodeB':
cvodea.c:1438:8: warning: 'flag' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodea_io.c -o cvodea_io.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes.c -o cvodes.o
cvodes.c: In function 'cvQuadSensRhs1InternalDQ':
cvodes.c:8834:20: warning: variable 'rDeltap' set but not used [-Wunused-but-set-variable]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_band.c -o cvodes_band.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_bandpre.c -o cvodes_bandpre.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_bbdpre.c -o cvodes_bbdpre.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_dense.c -o cvodes_dense.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_diag.c -o cvodes_diag.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_direct.c -o cvodes_direct.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_io.c -o cvodes_io.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_spbcgs.c -o cvodes_spbcgs.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_spgmr.c -o cvodes_spgmr.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_spils.c -o cvodes_spils.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c cvodes_sptfqmr.c -o cvodes_sptfqmr.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c decimal2binary.c -o decimal2binary.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c findStates.c -o findStates.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c fnvector_serial.c -o fnvector_serial.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c getAdjacencyMatrix.c -o getAdjacencyMatrix.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c getNumBits.c -o getNumBits.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c getNumInputs.c -o getNumInputs.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c getStateIndex.c -o getStateIndex.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c getTruthTables.c -o getTruthTables.o
getTruthTables.c: In function 'getTruthTables':
getTruthTables.c:17:14: warning: unused variable 'n' [-Wunused-variable]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c get_count_bits.c -o get_count_bits.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c get_input_index.c -o get_input_index.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c get_support_truth_tables.c -o get_support_truth_tables.o
get_support_truth_tables.c: In function 'get_support_truth_tables':
get_support_truth_tables.c:16:10: warning: unused variable 'k' [-Wunused-variable]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c get_truth_tables_index.c -o get_truth_tables_index.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c hill_function.c -o hill_function.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c linear_transfer_function.c -o linear_transfer_function.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c normHill.c -o normHill.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c nvector_serial.c -o nvector_serial.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c printAdjMat.c -o printAdjMat.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c printInterMat.c -o printInterMat.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c printNminiTerms.c -o printNminiTerms.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c printTruthTables.c -o printTruthTables.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c rhsODE.c -o rhsODE.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c sim_logic_ode.c -o sim_logic_ode.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c simulateODE.c -o simulateODE.o
simulateODE.c: In function 'simulateODE':
simulateODE.c:150:4: warning: implicit declaration of function 'CVDense' [-Wimplicit-function-declaration]
simulateODE.c:32:14: warning: variable 'counter' set but not used [-Wunused-but-set-variable]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c sundials_band.c -o sundials_band.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c sundials_dense.c -o sundials_dense.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c sundials_direct.c -o sundials_direct.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c sundials_iterative.c -o sundials_iterative.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c sundials_math.c -o sundials_math.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c sundials_nvector.c -o sundials_nvector.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c sundials_spbcgs.c -o sundials_spbcgs.o
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c sundials_spgmr.c -o sundials_spgmr.o
sundials_spgmr.c: In function 'SpgmrFree':
sundials_spgmr.c:439:29: warning: variable 'yg' set but not used [-Wunused-but-set-variable]
sundials_spgmr.c:439:20: warning: variable 'givens' set but not used [-Wunused-but-set-variable]
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"  -I./include    -O2 -Wall  -std=gnu99 -mtune=core2 -c sundials_sptfqmr.c -o sundials_sptfqmr.o
gcc -m64 -shared -s -static-libgcc -o CNORode.dll tmp.def cvodea.o cvodea_io.o cvodes.o cvodes_band.o cvodes_bandpre.o cvodes_bbdpre.o cvodes_dense.o cvodes_diag.o cvodes_direct.o cvodes_io.o cvodes_spbcgs.o cvodes_spgmr.o cvodes_spils.o cvodes_sptfqmr.o decimal2binary.o findStates.o fnvector_serial.o getAdjacencyMatrix.o getNumBits.o getNumInputs.o getStateIndex.o getTruthTables.o get_count_bits.o get_input_index.o get_support_truth_tables.o get_truth_tables_index.o hill_function.o linear_transfer_function.o normHill.o nvector_serial.o printAdjMat.o printInterMat.o printNminiTerms.o printTruthTables.o rhsODE.o sim_logic_ode.o simulateODE.o sundials_band.o sundials_dense.o sundials_direct.o sundials_iterative.o sundials_math.o sundials_nvector.o sundials_spbcgs.o sundials_spgmr.o sundials_sptfqmr.o -Ld:/RCompile/r-compiling/local/local320/lib/x64 -Ld:/RCompile/r-compiling/local/local320/lib -LE:/biocbld/BBS-3˜1.1-B/R/bin/x64 -lR
installing to E:/biocbld/bbs-3.1-bioc/R/library/CNORode/libs/x64
** testing if installed package can be loaded
* DONE (CNORode)