Dear Users:
I am having the following problems installing AmberTools12. Thank you for your assistance,
Chris.
$ ./configure -noX11 gnu ## I accepted patching
$ make install
../lib/nxtsec.o ../lib/random.o -lfftw3 \
-L/home/nealec/exe/amber12/lib -larpack -llapack -lblas
/bin/mv pbsa /home/nealec/exe/amber12/bin
make[2]: Leaving directory `/home/nealec/exe/amber12/AmberTools/src/pbsa'
(cd cifparse && make install )
make[2]: Entering directory `/home/nealec/exe/amber12/AmberTools/src/cifparse'
flex -t cifparse.l | sed 's/yy/cifp/g' > lex.cif.c
/bin/sh: flex: command not found
/home/nealec/exe/amber12/bin/yacc -v -d cifparse.y
sed 's/yy/cifp/g' < y.tab.c > cifp.tab.c
sed 's/yy/cifp/g' < y.tab.h > cifp.tab.h
rm -f y.tab.c y.tab.h
gcc -c -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ -DHASBZ2 lex.cif.c
gcc -c -Dflex -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ -DHASBZ2 cifp.tab.c
gcc -c -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ -DHASBZ2 cifparse.c
rm -f libcifparse.a
ar rv libcifparse.a lex.cif.o cifp.tab.o cifparse.o
ar: creating libcifparse.a
a - lex.cif.o
a - cifp.tab.o
a - cifparse.o
ranlib libcifparse.a
mv libcifparse.a /home/nealec/exe/amber12/lib
make[2]: Leaving directory `/home/nealec/exe/amber12/AmberTools/src/cifparse'
(cd antechamber && make install )
make[2]: Entering directory `/home/nealec/exe/amber12/AmberTools/src/antechamber'
gcc -c -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ -DHASBZ2 -o am1bcc.o am1bcc.c
gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ -DHASBZ2 am1bcc.o -lm -o /home/nealec/exe/amber12/bin/am1bcc
gcc -c -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ -DHASBZ2 -o acdoctor.o acdoctor.c
gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ -DHASBZ2 acdoctor.o -lm -o /home/nealec/exe/amber12/bin/acdoctor
gcc -c -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ -DHASBZ2 -o antechamber.o antechamber.c
gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ -DHASBZ2 antechamber.o \
-L/home/nealec/exe/amber12/lib -lcifparse -lm -o /home/nealec/exe/amber12/bin/antechamber
/home/nealec/exe/amber12/lib/libcifparse.a(cifp.tab.o): In function `cifpparse':
cifp.tab.c:(.text+0x455): undefined reference to `cifplex'
cifp.tab.c:(.text+0xb90): undefined reference to `cifplex'
collect2: error: ld returned 1 exit status
make[2]: *** [/home/nealec/exe/amber12/bin/antechamber] Error 1
make[2]: Leaving directory `/home/nealec/exe/amber12/AmberTools/src/antechamber'
make[1]: *** [serial] Error 2
make[1]: Leaving directory `/home/nealec/exe/amber12/AmberTools/src'
make: *** [install] Error 2
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Received on Tue Jun 25 2013 - 13:00:02 PDT
