eiR 0.99.4
Kevin Horan
| Snapshot Date: 2013-03-22 17:01:19 -0700 (Fri, 22 Mar 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/eiR | | Last Changed Rev: 74711 / Revision: 74721 | | Last Changed Date: 2013-03-22 15:40:44 -0700 (Fri, 22 Mar 2013) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | OK | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | [ ERROR ] | skipped | skipped |
| petty | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | OK |
| pelham | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | OK |
* checking for file 'eiR/DESCRIPTION' ... OK
* preparing 'eiR':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
-----------------------------------
* installing *source* package 'eiR' ...
untarring boost include tree...
** libs
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c apost.cpp -o apost.o
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c char_bit_cnt.cpp -o char_bit_cnt.o
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c embedCoords.cc -o embedCoords.o
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c eucsearch.cc -o eucsearch.o
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c format.cc -o format.o
format.cc: In function 'int binaryCoord(char*, char*, int)':
format.cc:54:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c mplsh-model.cpp -o mplsh-model.o
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c mplsh.cpp -o mplsh.o
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c profiling.cc -o profiling.o
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c r_wrap.cpp -o r_wrap.o
r_wrap.cpp: In function 'SEXPREC* SWIG_MakePtr(void*, const char*, R_SWIG_Owner)':
r_wrap.cpp:943:15: warning: variable 'p' set but not used [-Wunused-but-set-variable]
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c recordfile.cc -o recordfile.o
recordfile.cc: In function 'int read_file(const char*, int&, std::vector<double>&, std::vector<int>&, bool)':
recordfile.cc:45:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
gcc -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c routines.c -o routines.o
routines.c: In function 'setulb_':
routines.c:40:28: warning: variable 'l3' set but not used [-Wunused-but-set-variable]
routines.c:40:24: warning: variable 'l2' set but not used [-Wunused-but-set-variable]
routines.c:40:20: warning: variable 'l1' set but not used [-Wunused-but-set-variable]
routines.c: In function 'dcsrch_':
routines.c:4466:6: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
routines.c: In function 'timer_':
routines.c:4776:17: warning: variable 'temp' set but not used [-Wunused-but-set-variable]
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c scan.cc -o scan.o
scan.cc: In function 'int eucsearch(const char*, const char*, int, std::ostream&)':
scan.cc:54:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
scan.cc:56:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
scan.cc: In function 'int eucsearch2file(const char*, const char*, int, char*)':
scan.cc:68:1: warning: no return statement in function returning non-void [-Wreturn-type]
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c search_r.cpp -o search_r.o
search_r.cpp: In function 'int loadIndex(Index&, lshkit::FloatMatrix&, std::string&, float, unsigned int, unsigned int, unsigned int)':
search_r.cpp:66:42: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
search_r.cpp: In function 'SEXPREC* lshsearchAll(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
search_r.cpp:139:16: warning: unused variable 'cnt' [-Wunused-variable]
search_r.cpp:122:8: warning: unused variable 'querySize' [-Wunused-variable]
search_r.cpp:129:8: warning: unused variable 'k' [-Wunused-variable]
search_r.cpp: In function 'SEXPREC* lshsearch(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
search_r.cpp:227:16: warning: unused variable 'cnt' [-Wunused-variable]
g++ -m32 -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -I"d:/RCompile/CRANpkg/extralibs64/local/include" -DNO_MAIN -Iinclude -I. -IC:/GSL/i386/include -Itrimmed_boost_1_49_0 -O2 -Wall -mtune=core2 -c solver.cc -o solver.o
solver.cc: In destructor 'Solver::˜Solver()':
solver.cc:38:17: warning: right operand of comma operator has no effect [-Wunused-value]
solver.cc:38:22: warning: right operand of comma operator has no effect [-Wunused-value]
solver.cc:38:25: warning: right operand of comma operator has no effect [-Wunused-value]
solver.cc:38:28: warning: right operand of comma operator has no effect [-Wunused-value]
solver.cc:38:31: warning: right operand of comma operator has no effect [-Wunused-value]
solver.cc:38:33: warning: right operand of comma operator has no effect [-Wunused-value]
solver.cc: In member function 'int Solver::optim(doublereal*, doublereal*, doublereal, doublereal)':
solver.cc:91:7: warning: unused variable 'buf' [-Wunused-variable]
make[1]: Entering directory `/cygdrive/e/biocbld/bbs-2.12-bioc/tmpdir/RtmpSqxkuh/Rbuild5f82750279e/eiR/src/f2c'
cp signal1.h0 signal1.h
cp sysdep1.h0 sysdep1.h
gcc -m32 -c f77vers.c
gcc -m32 -c i77vers.c
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 main.c
ld -r -x -o main.xxx main.o
mv main.xxx main.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 s_rnge.c
ld -r -x -o s_rnge.xxx s_rnge.o
mv s_rnge.xxx s_rnge.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 abort_.c
ld -r -x -o abort_.xxx abort_.o
mv abort_.xxx abort_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 exit_.c
ld -r -x -o exit_.xxx exit_.o
mv exit_.xxx exit_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 getarg_.c
ld -r -x -o getarg_.xxx getarg_.o
mv getarg_.xxx getarg_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 iargc_.c
ld -r -x -o iargc_.xxx iargc_.o
mv iargc_.xxx iargc_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 getenv_.c
ld -r -x -o getenv_.xxx getenv_.o
mv getenv_.xxx getenv_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 signal_.c
ld -r -x -o signal_.xxx signal_.o
mv signal_.xxx signal_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 s_stop.c
ld -r -x -o s_stop.xxx s_stop.o
mv s_stop.xxx s_stop.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 s_paus.c
ld -r -x -o s_paus.xxx s_paus.o
mv s_paus.xxx s_paus.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 system_.c
ld -r -x -o system_.xxx system_.o
mv system_.xxx system_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 cabs.c
ld -r -x -o cabs.xxx cabs.o
mv cabs.xxx cabs.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 ctype.c
ld -r -x -o ctype.xxx ctype.o
mv ctype.xxx ctype.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 derf_.c
ld -r -x -o derf_.xxx derf_.o
mv derf_.xxx derf_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 derfc_.c
ld -r -x -o derfc_.xxx derfc_.o
mv derfc_.xxx derfc_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 erf_.c
ld -r -x -o erf_.xxx erf_.o
mv erf_.xxx erf_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 erfc_.c
ld -r -x -o erfc_.xxx erfc_.o
mv erfc_.xxx erfc_.o
gcc -m32 -c -DSkip_f2c_Undefs -O3 -Wall -std=gnu99 -mtune=core2 sig_die.c
ld -r -x -o sig_die.xxx sig_die.o
mv sig_die.xxx sig_die.o
gcc -m32 -O3 -Wall -std=gnu99 -mtune=core2 -DNO_FPINIT arithchk.c -lm ||\
gcc -m32 -DNO_LONG_LONG -O3 -Wall -std=gnu99 -mtune=core2 -DNO_FPINIT arithchk.c -lm
arithchk.c: In function 'need_nancheck':
arithchk.c:158:9: warning: variable 't' set but not used [-Wunused-but-set-variable]
./a.out >arith.h
./a.out: not found
make[1]: *** [arith.h] Error 127
make[1]: Leaving directory `/cygdrive/e/biocbld/bbs-2.12-bioc/tmpdir/RtmpSqxkuh/Rbuild5f82750279e/eiR/src/f2c'
make: *** [f2c/libf2c.a] Error 2
ERROR: compilation failed for package 'eiR'
* removing 'E:/biocbld/bbs-2.12-bioc/tmpdir/RtmpSqxkuh/Rinst5f845e5895/eiR'
-----------------------------------
ERROR: package installation failed