[AMBER] Error with na_anal.c

From: Chirag Vora <chirag740.gmail.com>
Date: Mon, 18 Jul 2011 14:20:53 +0530

Dear developers and users,
I am installing AMBER 10 (parallel) on ubuntu10.04. I have installed all
necessary libraries.

Following are the steps followed:
1) Succesfully installed openMPI-1.4.3 to ~/Documents/openmpi-1.4.3/

2) Extracted AmberTools-1.2.tar.bz2 and Amber10.tar.bz2 in ~/Documents/

3) Applied both patches (ambertools/amber10) successfully

4) After doing cd src/ and running ./configure_at I get a following copious
output :

 Testing the C compiler:
      mpicc -m64 -o testp testp.c
OK

Obtaining the C++ compiler version:
      g++ -v
The version is ../src/configure
4.4.3
[: 520: -lt: unexpected operator
OK

Testing the g77 compiler:
     g77 -O2 -fno-automatic -finit-local-zero -o testp testp.f
./configure_at: 538: g77: not found
./configure_at: 539: ./testp: not found
Unable to compile a Fortran program using g77 -O2 -fno-automatic
-finit-local-zero

Testing the gfortran compiler:
     gfortran -O1 -fno-automatic -o testp testp.f
OK

Testing flex:
OK

Configuring netcdf; (may be time-consuming)

NETCDF configure succeeded.

The configuration file, config.h, was successfully created.

The next step is to type 'make -f Makefile_at'

chirag.chirag-desktop:~/Documents/amber10/src$ make -f Makefile_at
mkdir /home/chirag/Documents/amber10/bin /home/chirag/Documents/amber10/lib
/home/chirag/Documents/amber10/include
mkdir: cannot create directory `/home/chirag/Documents/amber10/bin': File
exists
mkdir: cannot create directory `/home/chirag/Documents/amber10/lib': File
exists
mkdir: cannot create directory `/home/chirag/Documents/amber10/include':
File exists
make: [install] Error 1 (ignored)
(cd ucpp-1.3 && make install )
make[1]: Entering directory `/home/chirag/Documents/amber10/src/ucpp-1.3'
Makefile:35: warning: overriding commands for target `.c.o'
../config.h:99: warning: ignoring old commands for target `.c.o'
mpicc -c -m64 -DBINTRAJ -DMPI -DSTAND_ALONE mem.c
mpicc -c -m64 -DBINTRAJ -DMPI -DSTAND_ALONE nhash.c
mpicc -c -m64 -DBINTRAJ -DMPI -DSTAND_ALONE cpp.c
mpicc -c -m64 -DBINTRAJ -DMPI -DSTAND_ALONE lexer.c
mpicc -c -m64 -DBINTRAJ -DMPI -DSTAND_ALONE assert.c
mpicc -c -m64 -DBINTRAJ -DMPI -DSTAND_ALONE macro.c
mpicc -c -m64 -DBINTRAJ -DMPI -DSTAND_ALONE eval.c
mpicc -o ucpp mem.o nhash.o cpp.o lexer.o assert.o macro.o eval.o
mv ucpp /home/chirag/Documents/amber10/bin
make[1]: Leaving directory `/home/chirag/Documents/amber10/src/ucpp-1.3'
(cd byacc && make install )
make[1]: Entering directory `/home/chirag/Documents/amber10/src/byacc'
mpicc -c -m64 -DBINTRAJ -DMPI -o closure.o closure.c
mpicc -c -m64 -DBINTRAJ -DMPI -o error.o error.c
mpicc -c -m64 -DBINTRAJ -DMPI -o lalr.o lalr.c
mpicc -c -m64 -DBINTRAJ -DMPI -o lr0.o lr0.c
mpicc -c -m64 -DBINTRAJ -DMPI -o main.o main.c
mpicc -c -m64 -DBINTRAJ -DMPI -o mkpar.o mkpar.c
mpicc -c -m64 -DBINTRAJ -DMPI -o output.o output.c
mpicc -c -m64 -DBINTRAJ -DMPI -o reader.o reader.c
mpicc -c -m64 -DBINTRAJ -DMPI -o skeleton.o skeleton.c
mpicc -c -m64 -DBINTRAJ -DMPI -o symtab.o symtab.c
mpicc -c -m64 -DBINTRAJ -DMPI -o verbose.o verbose.c
mpicc -c -m64 -DBINTRAJ -DMPI -o warshall.o warshall.c
main.o: In function `create_file_names':
main.c:(.text+0x641): warning: the use of `mktemp' is dangerous, better use
`mkstemp' or `mkdtemp'
mv yacc /home/chirag/Documents/amber10/bin
make[1]: Leaving directory `/home/chirag/Documents/amber10/src/byacc'
(cd carpack && make install );
make[1]: Entering directory `/home/chirag/Documents/amber10/src/carpack'
Makefile:7: warning: overriding commands for target `.c.o'
../config.h:99: warning: ignoring old commands for target `.c.o'
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgetv0.o dgetv0.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaqrb.o dlaqrb.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dnaitr.o dnaitr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dnapps.o dnapps.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dnaup2.o dnaup2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dnaupd.o dnaupd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dnconv.o dnconv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dneigh.o dneigh.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dneupd.o dneupd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dngets.o dngets.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsaitr.o dsaitr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsapps.o dsapps.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsaup2.o dsaup2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsaupd.o dsaupd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsconv.o dsconv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dseigt.o dseigt.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsesrt.o dsesrt.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dseupd.o dseupd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsgets.o dsgets.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsortc.o dsortc.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsortr.o dsortr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dstatn.o dstatn.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dstats.o dstats.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dstqrb.o dstqrb.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsarpack.o dsarpack.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o wallclock.o wallclock.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dmout.o dmout.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o ivout.o ivout.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dvout.o dvout.c
ar rv arpack.a dgetv0.o dlaqrb.o dnaitr.o dnapps.o dnaup2.o dnaupd.o
dnconv.o dneigh.o dneupd.o dngets.o dsaitr.o dsapps.o dsaup2.o dsaupd.o
dsconv.o dseigt.o dsesrt.o dseupd.o dsgets.o dsortc.o dsortr.o dstatn.o
dstats.o dstqrb.o dsarpack.o wallclock.o dmout.o ivout.o dvout.o
ar: creating arpack.a
a - dgetv0.o
a - dlaqrb.o
a - dnaitr.o
a - dnapps.o
a - dnaup2.o
a - dnaupd.o
a - dnconv.o
a - dneigh.o
a - dneupd.o
a - dngets.o
a - dsaitr.o
a - dsapps.o
a - dsaup2.o
a - dsaupd.o
a - dsconv.o
a - dseigt.o
a - dsesrt.o
a - dseupd.o
a - dsgets.o
a - dsortc.o
a - dsortr.o
a - dstatn.o
a - dstats.o
a - dstqrb.o
a - dsarpack.o
a - wallclock.o
a - dmout.o
a - ivout.o
a - dvout.o
ranlib arpack.a
mv arpack.a /home/chirag/Documents/amber10/lib
make[1]: Leaving directory `/home/chirag/Documents/amber10/src/carpack'
(cd clapack && make install )
make[1]: Entering directory `/home/chirag/Documents/amber10/src/clapack'
Makefile:7: warning: overriding commands for target `.c.o'
../config.h:99: warning: ignoring old commands for target `.c.o'
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsyev.o dsyev.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsyevd.o dsyevd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dormtr.o dormtr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dormql.o dormql.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dormqr.o dormqr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlansy.o dlansy.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsytrd.o dsytrd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dorgtr.o dorgtr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsteqr.o dsteqr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsterf.o dsterf.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlascl.o dlascl.c
mpicc -c -O0 -o dlamch.o dlamch.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o ilaenv.o ilaenv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlassq.o dlassq.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsytd2.o dsytd2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dorm2l.o dorm2l.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlatrd.o dlatrd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dorgql.o dorgql.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dorgqr.o dorgqr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlasrt.o dlasrt.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaset.o dlaset.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlanst.o dlanst.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaev2.o dlaev2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlasr.o dlasr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlapy2.o dlapy2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlartg.o dlartg.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlae2.o dlae2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dorg2r.o dorg2r.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlarft.o dlarft.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlarfb.o dlarfb.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dorg2l.o dorg2l.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlarfg.o dlarfg.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlarf.o dlarf.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dspev.o dspev.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlansp.o dlansp.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsptrd.o dsptrd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dopgtr.o dopgtr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dposv.o dposv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dppsv.o dppsv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dspsv.o dspsv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgeev.o dgeev.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsptrs.o dsptrs.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsptrf.o dsptrf.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dpptrs.o dpptrs.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dpptrf.o dpptrf.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgebak.o dgebak.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dtrevc.o dtrevc.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlacpy.o dlacpy.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dhseqr.o dhseqr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dorghr.o dorghr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgehrd.o dgehrd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgebal.o dgebal.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlange.o dlange.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlabad.o dlabad.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlahqr.o dlahqr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlarfx.o dlarfx.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlanhs.o dlanhs.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaln2.o dlaln2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgehd2.o dgehd2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlahrd.o dlahrd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlanv2.o dlanv2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dladiv.o dladiv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgerq2.o dgerq2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dorm2r.o dorm2r.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlarnv.o dlarnv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgeqr2.o dgeqr2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaruv.o dlaruv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dspevd.o dspevd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dstedc.o dstedc.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dopmtr.o dopmtr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaed0.o dlaed0.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaed1.o dlaed1.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaed7.o dlaed7.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaeda.o dlaeda.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaed8.o dlaed8.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaed9.o dlaed9.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlamrg.o dlamrg.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaed2.o dlaed2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaed3.o dlaed3.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsygv.o dsygv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsygst.o dsygst.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsygs2.o dsygs2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaed4.o dlaed4.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaed5.o dlaed5.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dlaed6.o dlaed6.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dpotrf.o dpotrf.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dpotrs.o dpotrs.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dpotf2.o dpotf2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o ieeeck.o ieeeck.c
ar rv lapack.a dsyev.o dsyevd.o dormtr.o dormql.o dormqr.o dlansy.o dsytrd.o
dorgtr.o dsteqr.o dsterf.o dlascl.o dlamch.o ilaenv.o dlassq.o dsytd2.o
dorm2l.o dlatrd.o dorgql.o dorgqr.o dlasrt.o dlaset.o dlanst.o dlaev2.o
dlasr.o dlapy2.o dlartg.o dlae2.o dorg2r.o dlarft.o dlarfb.o dorg2l.o
dlarfg.o dlarf.o dspev.o dlansp.o dsptrd.o dopgtr.o dposv.o dppsv.o dspsv.o
dgeev.o dsptrs.o dsptrf.o dpptrs.o dpptrf.o dgebak.o dtrevc.o dlacpy.o
dhseqr.o dorghr.o dgehrd.o dgebal.o dlange.o dlabad.o dlahqr.o dlarfx.o
dlanhs.o dlaln2.o dgehd2.o dlahrd.o dlanv2.o dladiv.o dgerq2.o dorm2r.o
dlarnv.o dgeqr2.o dlaruv.o dspevd.o dstedc.o dopmtr.o dlaed0.o dlaed1.o
dlaed7.o dlaeda.o dlaed8.o dlaed9.o dlamrg.o dlaed2.o dlaed3.o dsygv.o
dsygst.o dsygs2.o dlaed4.o dlaed5.o dlaed6.o dpotrf.o dpotrs.o dpotf2.o
ieeeck.o dsyevd.o dormtr.o dormqr.o dormql.o dorm2l.o
ar: creating lapack.a
a - dsyev.o
a - dsyevd.o
a - dormtr.o
a - dormql.o
a - dormqr.o
a - dlansy.o
a - dsytrd.o
a - dorgtr.o
a - dsteqr.o
a - dsterf.o
a - dlascl.o
a - dlamch.o
a - ilaenv.o
a - dlassq.o
a - dsytd2.o
a - dorm2l.o
a - dlatrd.o
a - dorgql.o
a - dorgqr.o
a - dlasrt.o
a - dlaset.o
a - dlanst.o
a - dlaev2.o
a - dlasr.o
a - dlapy2.o
a - dlartg.o
a - dlae2.o
a - dorg2r.o
a - dlarft.o
a - dlarfb.o
a - dorg2l.o
a - dlarfg.o
a - dlarf.o
a - dspev.o
a - dlansp.o
a - dsptrd.o
a - dopgtr.o
a - dposv.o
a - dppsv.o
a - dspsv.o
a - dgeev.o
a - dsptrs.o
a - dsptrf.o
a - dpptrs.o
a - dpptrf.o
a - dgebak.o
a - dtrevc.o
a - dlacpy.o
a - dhseqr.o
a - dorghr.o
a - dgehrd.o
a - dgebal.o
a - dlange.o
a - dlabad.o
a - dlahqr.o
a - dlarfx.o
a - dlanhs.o
a - dlaln2.o
a - dgehd2.o
a - dlahrd.o
a - dlanv2.o
a - dladiv.o
a - dgerq2.o
a - dorm2r.o
a - dlarnv.o
a - dgeqr2.o
a - dlaruv.o
a - dspevd.o
a - dstedc.o
a - dopmtr.o
a - dlaed0.o
a - dlaed1.o
a - dlaed7.o
a - dlaeda.o
a - dlaed8.o
a - dlaed9.o
a - dlamrg.o
a - dlaed2.o
a - dlaed3.o
a - dsygv.o
a - dsygst.o
a - dsygs2.o
a - dlaed4.o
a - dlaed5.o
a - dlaed6.o
a - dpotrf.o
a - dpotrs.o
a - dpotf2.o
a - ieeeck.o
a - dsyevd.o
a - dormtr.o
a - dormqr.o
a - dormql.o
a - dorm2l.o
ranlib lapack.a
mv lapack.a /home/chirag/Documents/amber10/lib
make[1]: Leaving directory `/home/chirag/Documents/amber10/src/clapack'
(cd cblas && make install )
make[1]: Entering directory `/home/chirag/Documents/amber10/src/cblas'
Makefile:7: warning: overriding commands for target `.c.o'
../config.h:99: warning: ignoring old commands for target `.c.o'
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dasum.o dasum.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o daxpy.o daxpy.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dcopy.o dcopy.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o ddot.o ddot.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgbmv.o dgbmv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgemm.o dgemm.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dgemv.o dgemv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dger.o dger.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dnrm2.o dnrm2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o drot.o drot.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o drotg.o drotg.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsbmv.o dsbmv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dscal.o dscal.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dspmv.o dspmv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dspr.o dspr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dspr2.o dspr2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dswap.o dswap.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsymm.o dsymm.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsymv.o dsymv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsyr.o dsyr.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsyr2.o dsyr2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsyr2k.o dsyr2k.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dsyrk.o dsyrk.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dtbmv.o dtbmv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dtbsv.o dtbsv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dtpmv.o dtpmv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dtpsv.o dtpsv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dtrmm.o dtrmm.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dtrmv.o dtrmv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dtrsm.o dtrsm.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dtrsv.o dtrsv.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o idamax.o idamax.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o lsame.o lsame.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o xerbla.o xerbla.c
ar rv blas.a dasum.o daxpy.o dcopy.o ddot.o dgbmv.o dgemm.o dgemv.o dger.o
dnrm2.o drot.o drotg.o dsbmv.o dscal.o dspmv.o dspr.o dspr2.o dswap.o
dsymm.o dsymv.o dsyr.o dsyr2.o dsyr2k.o dsyrk.o dtbmv.o dtbsv.o dtpmv.o
dtpsv.o dtrmm.o dtrmv.o dtrsm.o dtrsv.o idamax.o lsame.o xerbla.o
ar: creating blas.a
a - dasum.o
a - daxpy.o
a - dcopy.o
a - ddot.o
a - dgbmv.o
a - dgemm.o
a - dgemv.o
a - dger.o
a - dnrm2.o
a - drot.o
a - drotg.o
a - dsbmv.o
a - dscal.o
a - dspmv.o
a - dspr.o
a - dspr2.o
a - dswap.o
a - dsymm.o
a - dsymv.o
a - dsyr.o
a - dsyr2.o
a - dsyr2k.o
a - dsyrk.o
a - dtbmv.o
a - dtbsv.o
a - dtpmv.o
a - dtpsv.o
a - dtrmm.o
a - dtrmv.o
a - dtrsm.o
a - dtrsv.o
a - idamax.o
a - lsame.o
a - xerbla.o
ranlib blas.a
mv blas.a /home/chirag/Documents/amber10/lib
make[1]: Leaving directory `/home/chirag/Documents/amber10/src/cblas'
(cd f2c && make install )
make[1]: Entering directory `/home/chirag/Documents/amber10/src/f2c'
Makefile:7: warning: overriding commands for target `.c.o'
../config.h:99: warning: ignoring old commands for target `.c.o'
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o abort_.o abort_.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_atan.o d_atan.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_cosh.o d_cosh.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_int.o d_int.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_nint.o d_nint.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_sinh.o d_sinh.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_abs.o d_abs.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_atn2.o d_atn2.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_dim.o d_dim.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_lg10.o d_lg10.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_prod.o d_prod.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_sqrt.o d_sqrt.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o exit_.o exit_.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_acos.o d_acos.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_exp.o d_exp.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_log.o d_log.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_sign.o d_sign.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_tan.o d_tan.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_asin.o d_asin.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_cos.o d_cos.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_mod.o d_mod.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_sin.o d_sin.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o d_tanh.o d_tanh.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o wsfe.o wsfe.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o s_cmp.o s_cmp.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o s_copy.o s_copy.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o s_paus.o s_paus.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o s_rnge.o s_rnge.c
s_rnge.c: In function ‘s_rnge’:
s_rnge.c:16: warning: format ‘%ld’ expects type ‘long int’, but argument 3
has type ‘ftnint’
s_rnge.c:19: warning: format ‘%ld’ expects type ‘long int’, but argument 3
has type ‘int’
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o s_stop.o s_stop.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o wsle.o wsle.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o xwsne.o xwsne.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o util.o util.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o wref.o wref.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o wrtfmt.o wrtfmt.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o rsne.o rsne.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o sfe.o sfe.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o sue.o sue.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o uio.o uio.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o open.o open.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o rdfmt.o rdfmt.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o rewind.o rewind.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o rsfe.o rsfe.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o rsli.o rsli.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o ilnw.o ilnw.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o inquire.o inquire.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o lread.o lread.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o fmtlib.o fmtlib.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o ftell_.o ftell_.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o iio.o iio.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o err.o err.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o close.o close.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dfe.o dfe.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o dolio.o dolio.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o due.o due.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o endfile.o endfile.c
endfile.c: In function ‘f_end’:
endfile.c:30: warning: format ‘%ld’ expects type ‘long int’, but argument 3
has type ‘ftnint’
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o backspace.o backspace.c
backspace.c: In function ‘f_back’:
backspace.c:44: warning: ignoring return value of ‘fread’, declared with
attribute warn_unused_result
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o fmt.o fmt.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o sig_die.o sig_die.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o pow_dd.o pow_dd.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o pow_di.o pow_di.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o pow_ii.o pow_ii.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o lwrite.o lwrite.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o i_len.o i_len.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o s_cat.o s_cat.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o F77_aloc.o F77_aloc.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o wsne.o wsne.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -o typesize.o typesize.c
ar rv f2c.a abort_.o d_atan.o d_cosh.o d_int.o d_nint.o d_sinh.o
d_abs.o d_atn2.o d_dim.o d_lg10.o d_prod.o d_sqrt.o exit_.o
d_acos.o d_exp.o d_log.o d_sign.o d_tan.o d_asin.o d_cos.o
d_mod.o d_sin.o d_tanh.o wsfe.o s_cmp.o s_copy.o s_paus.o s_rnge.o
s_stop.o wsle.o xwsne.o util.o wref.o wrtfmt.o rsne.o sfe.o sue.o uio.o
open.o rdfmt.o rewind.o rsfe.o rsli.o ilnw.o inquire.o lread.o fmtlib.o
ftell_.o iio.o err.o close.o dfe.o dolio.o due.o endfile.o backspace.o fmt.o
sig_die.o pow_dd.o pow_di.o pow_ii.o lwrite.o i_len.o s_cat.o F77_aloc.o
wsne.o typesize.o
ar: creating f2c.a
a - abort_.o
a - d_atan.o
a - d_cosh.o
a - d_int.o
a - d_nint.o
a - d_sinh.o
a - d_abs.o
a - d_atn2.o
a - d_dim.o
a - d_lg10.o
a - d_prod.o
a - d_sqrt.o
a - exit_.o
a - d_acos.o
a - d_exp.o
a - d_log.o
a - d_sign.o
a - d_tan.o
a - d_asin.o
a - d_cos.o
a - d_mod.o
a - d_sin.o
a - d_tanh.o
a - wsfe.o
a - s_cmp.o
a - s_copy.o
a - s_paus.o
a - s_rnge.o
a - s_stop.o
a - wsle.o
a - xwsne.o
a - util.o
a - wref.o
a - wrtfmt.o
a - rsne.o
a - sfe.o
a - sue.o
a - uio.o
a - open.o
a - rdfmt.o
a - rewind.o
a - rsfe.o
a - rsli.o
a - ilnw.o
a - inquire.o
a - lread.o
a - fmtlib.o
a - ftell_.o
a - iio.o
a - err.o
a - close.o
a - dfe.o
a - dolio.o
a - due.o
a - endfile.o
a - backspace.o
a - fmt.o
a - sig_die.o
a - pow_dd.o
a - pow_di.o
a - pow_ii.o
a - lwrite.o
a - i_len.o
a - s_cat.o
a - F77_aloc.o
a - wsne.o
a - typesize.o
ranlib f2c.a
mv f2c.a /home/chirag/Documents/amber10/lib
make[1]: Leaving directory `/home/chirag/Documents/amber10/src/f2c'
(cd c9x-complex && make skip )
make[1]: Entering directory `/home/chirag/Documents/amber10/src/c9x-complex'
using built-in (C99) complex.h functionality
make[1]: Leaving directory `/home/chirag/Documents/amber10/src/c9x-complex'
(cd cifparse && make install )
make[1]: Entering directory `/home/chirag/Documents/amber10/src/cifparse'
Makefile:7: warning: overriding commands for target `.c.o'
../config.h:99: warning: ignoring old commands for target `.c.o'
flex -t cifparse.l | sed 's/yy/cifp/g' > lex.cif.c
/home/chirag/Documents/amber10/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 y.tab.c y.tab.h
mpicc -c -m64 -DBINTRAJ -DMPI lex.cif.c
cifparse.l: In function ‘delete_punctuation’:
cifparse.l:274: warning: assignment makes integer from pointer without a
cast
mpicc -c -m64 -DBINTRAJ -DMPI -Dflex cifp.tab.c
mpicc -c -m64 -DBINTRAJ -DMPI cifparse.c
cifparse.c: In function ‘ndb_cif_print_item_value’:
cifparse.c:176: warning: format not a string literal and no format arguments
cifparse.c: In function ‘ndb_cif_write_category’:
cifparse.c:287: warning: cast from pointer to integer of different size
cifparse.c: In function ‘ndb_cif_print_formatted_item_value’:
cifparse.c:370: warning: cast from pointer to integer of different size
cifparse.c:388: warning: cast from pointer to integer of different size
cifparse.c: In function ‘ndb_cif_init’:
cifparse.c:470: warning: cast from pointer to integer of different size
cifparse.c: In function ‘ndb_cif_new_datablock’:
cifparse.c:538: warning: cast from pointer to integer of different size
cifparse.c: In function ‘ndb_cif_get_item_value’:
cifparse.c:1478: warning: cast from pointer to integer of different size
cifparse.c:1497: warning: cast from pointer to integer of different size
rm -f cifparse.a
ar rv cifparse.a lex.cif.o cifp.tab.o cifparse.o
ar: creating cifparse.a
a - lex.cif.o
a - cifp.tab.o
a - cifparse.o
ranlib cifparse.a
mv cifparse.a /home/chirag/Documents/amber10/lib
make[1]: Leaving directory `/home/chirag/Documents/amber10/src/cifparse'
(cd nab && make install )
make[1]: Entering directory `/home/chirag/Documents/amber10/src/nab'
mpicc -DBINDIR='"."' -DINCDIR='"."' -DLIBDIR='"."' -m64 -DBINTRAJ -DMPI \
        -DCC='"mpicc"' -DCPP='"/home/chirag/Documents/amber10/bin/ucpp -l"'
-DFLIBS='"/home/chirag/Documents/amber10/lib/libsym.a
/home/chirag/Documents/amber10/lib/arpack.a
/home/chirag/Documents/amber10/lib/lapack.a
/home/chirag/Documents/amber10/lib/blas.a
/home/chirag/Documents/amber10/lib/f2c.a -lmpi"' -o nab nab.c
mpicc -c -m64 -DBINTRAJ -DMPI -o nab2c.o nab2c.c
flex nablex.l
/home/chirag/Documents/amber10/bin/yacc -d nabgrm.y
/home/chirag/Documents/amber10/bin/yacc: w - line 332 of "nabgrm.y", the
default action assigns an undefined value to $$
/home/chirag/Documents/amber10/bin/yacc: 3 shift/reduce conflicts.
mpicc -c -m64 -DBINTRAJ -DMPI -o cgen.o cgen.c
cgen.c: In function ‘CG_gentype’:
cgen.c:1676: warning: format not a string literal and no format arguments
(cd ../semantics; make)
make[2]: Entering directory `/home/chirag/Documents/amber10/src/semantics'
mpicc -DDATDIR='"/home/chirag/Documents/amber10/dat"' -o parse parse.c
parse.c: In function ‘fprint_ovalue’:
parse.c:2043: warning: format not a string literal and no format arguments
./parse *.rules
./parse: 82 symbols.
./parse: 19 types, lastuser = 14, v_error = 14.
./parse: 9 classes.
./parse: 8 kinds.
./parse: 4 accesses.
./parse: 27 attributes.
./parse: 40 rules.
./parse: 40 used symbols.
./parse: 15 used types.
./parse: 7 used classes.
./parse: 7 used kinds.
./parse: 0 errors.
make[2]: Leaving directory `/home/chirag/Documents/amber10/src/semantics'
mv ../semantics/checkexpr.c .
mpicc -c -m64 -DBINTRAJ -DMPI -o checkexpr.o checkexpr.c
mpicc -c -m64 -DBINTRAJ -DMPI -o dumpnode.o dumpnode.c
mpicc -c -m64 -DBINTRAJ -DMPI -o errormsg.o errormsg.c
mpicc -c -m64 -DBINTRAJ -DMPI -o fixexpr.o fixexpr.c
mpicc -c -m64 -DBINTRAJ -DMPI -o genavscode.o genavscode.c
mpicc -c -m64 -DBINTRAJ -DMPI -o node.o node.c
mpicc -c -m64 -DBINTRAJ -DMPI -o symbol.o symbol.c
mpicc -c -m64 -DBINTRAJ -DMPI -Dflex y.tab.c
mpicc -o nab2c nab2c.o cgen.o checkexpr.o dumpnode.o errormsg.o fixexpr.o
genavscode.o node.o symbol.o y.tab.o
./nab -c allatom_to_dna3.nab
mpicc -c -m64 -DBINTRAJ -DMPI -o axis2frame.o axis2frame.c
mpicc -c -m64 -DBINTRAJ -DMPI -o binpos.o binpos.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI bonded_atoms.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI
-DDATDIR='"/home/chirag/Documents/amber10/dat"' boundsutil.c
boundsutil.c: In function ‘rd_bmat’:
boundsutil.c:963: warning: ignoring return value of ‘fread’, declared with
attribute warn_unused_result
boundsutil.c:965: warning: ignoring return value of ‘fread’, declared with
attribute warn_unused_result
boundsutil.c:972: warning: ignoring return value of ‘fread’, declared with
attribute warn_unused_result
./nab -c lmod.nab
./nab -c xmin.nab
mpicc -c -O3 -m64 -DBINTRAJ -DMPI conjgrad.c
mpicc -c -m64 -DBINTRAJ -DMPI -o database.o database.c
./nab -c dna3.nab
./nab -c dna3_to_allatom.nab
mpicc -c -m64 -DBINTRAJ -DMPI -o dump.o dump.c
flex -t dg_options.l | sed -e 's/yy/dgo/g' -e 's/stdout/nabout/'>
lex.dg_options.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -Dflex embed.c
./nab -c -O0 -DDATDIR='"/home/chirag/Documents/amber10/dat"' fd_helix.nab
fd_helix.c: In function ‘put_tmp’:
fd_helix.c:30: warning: format ‘%6d’ expects type ‘int’, but argument 4 has
type ‘STRING_T *’
fd_helix.c:30: warning: format ‘%8.3lf’ expects type ‘double’, but argument
5 has type ‘STRING_T *’
fd_helix.c:30: warning: format ‘%8.3lf’ expects type ‘double’, but argument
6 has type ‘INT_T’
mpicc -c -m64 -DBINTRAJ -DMPI -o frameutil.o frameutil.c
mpicc -c -DDATDIR='"/home/chirag/Documents/amber10/dat"' getdist.c
mpicc -c -m64 -DBINTRAJ -DMPI -o hashutil.o hashutil.c
mpicc -c -m64 -DBINTRAJ -DMPI -o jacobi.o jacobi.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI lmodC.c
mpicc -c -m64 -DBINTRAJ -DMPI -o match.o match.c
mpicc -c -m64 -DBINTRAJ -DMPI -o matop.o matop.c
mpicc -c -m64 -DBINTRAJ -DMPI -o memutil.o memutil.c
memutil.c: In function ‘vector’:
memutil.c:31: warning: format ‘%lld’ expects type ‘long long int’, but
argument 3 has type ‘size_t’
mpicc -c -O3 -m64 -DBINTRAJ -DMPI molio.c
mpicc -c -m64 -DBINTRAJ -DMPI -o molsurf.o molsurf.c
mpicc -c -m64 -DBINTRAJ -DMPI -o molutil.o molutil.c
mpicc -c -m64 -DBINTRAJ -DMPI -o dmcsrch.o dmcsrch.c
mpicc -c -m64 -DBINTRAJ -DMPI -o nab2avs.o nab2avs.c
mpicc -c -m64 -DBINTRAJ -DMPI -o nab2geom.o nab2geom.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI nblist.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI newton.c
mpicc -c -m64 -DBINTRAJ -DMPI -o nmode.o nmode.c
mpicc -c -m64 -DBINTRAJ -DMPI -o chirvol.o chirvol.c
mpicc -c -m64 -DBINTRAJ -DMPI -o pointutil.o pointutil.c
mpicc -c -m64 -DBINTRAJ -DMPI -o prm.o prm.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI rand2.c
mpicc -c -m64 -DBINTRAJ -DMPI -o regexp.o regexp.c
mpicc -c -DDATDIR='"/home/chirag/Documents/amber10/dat"' reslib.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI sasad.c
mpicc -c -m64 -DBINTRAJ -DMPI -o select_atoms.o select_atoms.c
flex -t mm_options.l | sed -e 's/yy/mmo/g' -e 's/stdout/nabout/' >
lex.mm_options.c
mpicc -c -O3 -m64 -DBINTRAJ -DMPI -Dflex sff.c
In file included from eff.c:1666,
                 from sff.c:795:
gbsa.c: In function ‘egb’:
gbsa.c:177: warning: too few arguments for format
mpicc -c -m64 -DBINTRAJ -DMPI -o stringutil.o stringutil.c
mpicc -c -m64 -DBINTRAJ -DMPI -o temputil.o temputil.c
mpicc -c -m64 -DBINTRAJ -DMPI -o time.o time.c
mpicc -c -m64 -DBINTRAJ -DMPI -o tm_malloc.o tm_malloc.c
mpicc -c -m64 -DBINTRAJ -DMPI -o traceback.o traceback.c
traceback.c: In function ‘rt_errormsg’:
traceback.c:14: warning: format not a string literal and no format arguments
./nab -c bdna.nab
./nab -c dg_helix.nab
dg_helix.c: In function ‘dg_helix’:
dg_helix.c:96: warning: unknown conversion type character ‘\’ in format
./nab -c getchivol.nab
./nab -c getres.nab
./nab -c getseq_from_pdb.nab
./nab -c getxyz_from_pdb.nab
getxyz_from_pdb.c: In function ‘getxyz_from_pdb’:
getxyz_from_pdb.c:175: warning: unknown conversion type character ‘.’ in
format
getxyz_from_pdb.c:175: warning: format ‘%-10s’ expects type ‘char *’, but
argument 2 has type ‘double’
./nab -c -DBINDIR='"/home/chirag/Documents/amber10/bin"'
-DDATDIR='"/home/chirag/Documents/amber10/dat"' getpdb_prm.nab
getpdb_prm.c: In function ‘getpdb_prm’:
getpdb_prm.c:41: warning: unknown conversion type character 0xa in format
./nab -c getpdb_rlb.nab
./nab -c linkprot.nab
linkprot.c: In function ‘linkprot’:
linkprot.c:110: warning: unknown conversion type character ‘:’ in format
linkprot.c:110: warning: unknown conversion type character ‘:’ in format
linkprot.c:111: warning: unknown conversion type character ‘:’ in format
linkprot.c:111: warning: unknown conversion type character ‘:’ in format
linkprot.c:113: warning: unknown conversion type character ‘:’ in format
linkprot.c:113: warning: unknown conversion type character ‘:’ in format
linkprot.c:148: warning: unknown conversion type character ‘:’ in format
linkprot.c:148: warning: unknown conversion type character ‘:’ in format
linkprot.c:149: warning: unknown conversion type character ‘:’ in format
linkprot.c:149: warning: unknown conversion type character ‘:’ in format
linkprot.c:151: warning: unknown conversion type character ‘:’ in format
linkprot.c:151: warning: unknown conversion type character ‘:’ in format
./nab -c link_na.nab
link_na.c: In function ‘link_na’:
link_na.c:93: warning: unknown conversion type character ‘:’ in format
link_na.c:93: warning: unknown conversion type character ‘:’ in format
link_na.c:93: warning: unknown conversion type character ‘:’ in format
link_na.c:93: warning: unknown conversion type character ‘:’ in format
link_na.c:93: warning: unknown conversion type character ‘:’ in format
link_na.c:93: warning: unknown conversion type character ‘:’ in format
link_na.c:102: warning: unknown conversion type character ‘:’ in format
link_na.c:102: warning: unknown conversion type character ‘:’ in format
link_na.c:102: warning: unknown conversion type character ‘:’ in format
link_na.c:102: warning: unknown conversion type character ‘:’ in format
link_na.c:102: warning: unknown conversion type character ‘:’ in format
link_na.c:102: warning: unknown conversion type character ‘:’ in format
link_na.c:112: warning: unknown conversion type character ‘:’ in format
link_na.c:112: warning: unknown conversion type character ‘:’ in format
link_na.c:112: warning: unknown conversion type character ‘:’ in format
link_na.c:112: warning: unknown conversion type character ‘:’ in format
link_na.c:112: warning: unknown conversion type character ‘:’ in format
link_na.c:112: warning: unknown conversion type character ‘:’ in format
link_na.c:156: warning: unknown conversion type character ‘:’ in format
link_na.c:156: warning: unknown conversion type character ‘:’ in format
link_na.c:156: warning: unknown conversion type character ‘:’ in format
link_na.c:156: warning: unknown conversion type character ‘:’ in format
link_na.c:156: warning: unknown conversion type character ‘:’ in format
link_na.c:156: warning: unknown conversion type character ‘:’ in format
link_na.c:165: warning: unknown conversion type character ‘:’ in format
link_na.c:165: warning: unknown conversion type character ‘:’ in format
link_na.c:165: warning: unknown conversion type character ‘:’ in format
link_na.c:165: warning: unknown conversion type character ‘:’ in format
link_na.c:165: warning: unknown conversion type character ‘:’ in format
link_na.c:165: warning: unknown conversion type character ‘:’ in format
link_na.c:175: warning: unknown conversion type character ‘:’ in format
link_na.c:175: warning: unknown conversion type character ‘:’ in format
link_na.c:175: warning: unknown conversion type character ‘:’ in format
link_na.c:175: warning: unknown conversion type character ‘:’ in format
link_na.c:175: warning: unknown conversion type character ‘:’ in format
link_na.c:175: warning: unknown conversion type character ‘:’ in format
./nab -c -DDATDIR='"/home/chirag/Documents/amber10/dat"' na_anal.nab
na_anal.c: In function ‘sugarpuckeranal’:
na_anal.c:690: warning: conversion lacks type at end of format
na_anal.c:690: warning: format ‘%4s’ expects type ‘char *’, but argument 4
has type ‘INT_T’
na_anal.c:690: warning: format ‘%8.2f’ expects type ‘double’, but argument 5
has type ‘STRING_T *’
na_anal.c:694: warning: unknown conversion type character ‘\’ in format
na_anal.c:699: warning: unknown conversion type character 0xa in format
na_anal.c:730: warning: conversion lacks type at end of format
na_anal.c: In function ‘local_helical_parameters’:
na_anal.c:795: warning: format not a string literal and no format arguments
na_anal.c:801: warning: format not a string literal and no format arguments
na_anal.c:844: warning: unknown conversion type character 0xa in format
na_anal.c: In function ‘helix_properties’:
na_anal.c:896: warning: format not a string literal and no format arguments
na_anal.c:903: warning: format not a string literal and no format arguments
na_anal.c: In function ‘basepairanal’:
na_anal.c:1800: warning: format not a string literal and no format arguments
na_anal.c: In function ‘helixanal’:
na_anal.c:2417: error: expected ‘)’ before ‘is’
na_anal.c:2417: error: stray ‘\’ in program
na_anal.c:2417:41: warning: missing terminating " character
na_anal.c:2417: error: missing terminating " character
na_anal.c:2419: warning: too few arguments for format
na_anal.c:2419: error: expected ‘;’ before ‘}’ token
cc failed!
make[1]: *** [na_anal.o] Error 1
make[1]: Leaving directory `/home/chirag/Documents/amber10/src/nab'
make: *** [install] Error 2


What step(s) must be followed to overcome this?

-- 
Chirag V. Vora <chiragvora.live.com>
Department of Pharmacoinformatics <http://pharmacoinformatics.tripod.com/>,
National Institute of Pharmaceutical Education and Research<http://niper.ac.in>
*Sector 67, S.A.S. Nagar, *
*Punjab (INDIA) - 160 062,  *
*Phone: +91-9814187740*
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Received on Mon Jul 18 2011 - 02:00:04 PDT