Problem: src/antechamber/bondtype.C fails to compile.  The error message says that it can't find the vector header file "#include <vector>", although the vector and vector.h are in /usr/include/g++-3/vector.

The command from the makefile is:
	g++ -c  -o bondtype.o bondtype.C

When I add a "-I/usr/include/g++-3" to g++, I get the same error.  Also, creating a symlink from /usr/include/c++/3.3.3 /usr/include/g++-3 doesn't help.

The system is Redhat 7.3 w/ ifort, icc, and the Gnu c/c++ compilers installed.


The ouput of the "make serial" command is as follows:
-- Begin --
Starting installation of Amber8 (serial) at Fri Apr 22 13:01:47 EDT 2005.
mkdir ../exe
mkdir: cannot create directory `../exe': File exists
make: [serial] Error 1 (ignored)
cd lib; make install
make[1]: Entering directory `/home/pmullins/amber8/src/lib'
ifort     -o new2oldparm new2oldparm.o nxtsec.o
mv new2oldparm ../../exe
/bin/rm _*.f
/bin/rm: cannot remove `_*.f': No such file or directory
make[1]: [install] Error 1 (ignored)
make[1]: Leaving directory `/home/pmullins/amber8/src/lib'
cd addles; make install
make[1]: Entering directory `/home/pmullins/amber8/src/addles'
cd ../lib; ./Makelist ../lib/random.o ../lib/mexit.o  ../lib/nxtsec.o
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `random.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `mexit.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `nxtsec.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
ifort     -o addles lesmain.o addspace.o readprm.o writprm.o readcrd.o writcrd.o pick.o  	 rline.o   nxt.o intgr.o   find.o    of.o geti.o    unit.o    getc.o alert.o   echo.o    get4c.o getd.o    wlesprm.o lesprm.o les2prm.o checksz.o  ../lib/random.o ../lib/mexit.o  ../lib/nxtsec.o 
mv addles ../../exe
make[1]: Leaving directory `/home/pmullins/amber8/src/addles'
cd sander; make serial
make[1]: Entering directory `/home/pmullins/amber8/src/sander'
cd ../lib; make sys.a
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `sys.a' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
cd ../lib; make nxtsec.o
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `nxtsec.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
cd ../lapack; make
make[2]: Entering directory `/home/pmullins/amber8/src/lapack'
Makefile:7: warning: overriding commands for target `.f.o'
../config.h:79: warning: ignoring old commands for target `.f.o'
ar rv lapack.a dsyev.o dlansy.o dsytrd.o dorgtr.o dsteqr.o dsterf.o dlascl.o dlamch.o xerbla.o ilaenv.o dlassq.o dsytd2.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 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 dlaed4.o dlaed5.o dlaed6.o
r - dsyev.o
r - dlansy.o
r - dsytrd.o
r - dorgtr.o
r - dsteqr.o
r - dsterf.o
r - dlascl.o
r - dlamch.o
r - xerbla.o
r - ilaenv.o
r - dlassq.o
r - dsytd2.o
r - dlatrd.o
r - dorgql.o
r - dorgqr.o
r - dlasrt.o
r - dlaset.o
r - dlanst.o
r - dlaev2.o
r - dlasr.o
r - dlapy2.o
r - dlartg.o
r - dlae2.o
r - dorg2r.o
r - dlarft.o
r - dlarfb.o
r - dorg2l.o
r - dlarfg.o
r - dlarf.o
r - dspev.o
r - dlansp.o
r - dsptrd.o
r - dopgtr.o
r - dppsv.o
r - dspsv.o
r - dgeev.o
r - dsptrs.o
r - dsptrf.o
r - dpptrs.o
r - dpptrf.o
r - dgebak.o
r - dtrevc.o
r - dlacpy.o
r - dhseqr.o
r - dorghr.o
r - dgehrd.o
r - dgebal.o
r - dlange.o
r - dlabad.o
r - dlahqr.o
r - dlarfx.o
r - dlanhs.o
r - dlaln2.o
r - dgehd2.o
r - dlahrd.o
r - dlanv2.o
r - dladiv.o
r - dgerq2.o
r - dorm2r.o
r - dlarnv.o
r - dgeqr2.o
r - dlaruv.o
r - dspevd.o
r - dstedc.o
r - dopmtr.o
r - dlaed0.o
r - dlaed1.o
r - dlaed7.o
r - dlaeda.o
r - dlaed8.o
r - dlaed9.o
r - dlamrg.o
r - dlaed2.o
r - dlaed3.o
r - dlaed4.o
r - dlaed5.o
r - dlaed6.o
ranlib lapack.a
make[2]: Leaving directory `/home/pmullins/amber8/src/lapack'
cd ../blas; make
make[2]: Entering directory `/home/pmullins/amber8/src/blas'
Makefile:7: warning: overriding commands for target `.f.o'
../config.h:79: warning: ignoring old commands for target `.f.o'
ar rv blas.a dasum.o daxpy.o dcabs1.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 dummy.o dzasum.o dznrm2.o idamax.o isamax.o lsame.o 
r - dasum.o
r - daxpy.o
r - dcabs1.o
r - dcopy.o
r - ddot.o
r - dgbmv.o
r - dgemm.o
r - dgemv.o
r - dger.o
r - dnrm2.o
r - drot.o
r - drotg.o
r - dsbmv.o
r - dscal.o
r - dspmv.o
r - dspr.o
r - dspr2.o
r - dswap.o
r - dsymm.o
r - dsymv.o
r - dsyr.o
r - dsyr2.o
r - dsyr2k.o
r - dsyrk.o
r - dtbmv.o
r - dtbsv.o
r - dtpmv.o
r - dtpsv.o
r - dtrmm.o
r - dtrmv.o
r - dtrsm.o
r - dtrsv.o
r - dummy.o
r - dzasum.o
r - dznrm2.o
r - idamax.o
r - isamax.o
r - lsame.o
ranlib blas.a
make[2]: Leaving directory `/home/pmullins/amber8/src/blas'
cd ../lmod; make
make[2]: Entering directory `/home/pmullins/amber8/src/lmod'
cd xmin; make
make[3]: Entering directory `/home/pmullins/amber8/src/lmod/xmin'
Makefile:6: warning: overriding commands for target `.f.o'
../../config.h:79: warning: ignoring old commands for target `.f.o'
make[3]: Nothing to be done for `install'.
make[3]: Leaving directory `/home/pmullins/amber8/src/lmod/xmin'
cd nvib; make
make[3]: Entering directory `/home/pmullins/amber8/src/lmod/nvib'
Makefile:6: warning: overriding commands for target `.f.o'
../../config.h:79: warning: ignoring old commands for target `.f.o'
make[3]: Nothing to be done for `install'.
make[3]: Leaving directory `/home/pmullins/amber8/src/lmod/nvib'
cd lmod; make
make[3]: Entering directory `/home/pmullins/amber8/src/lmod/lmod'
Makefile:6: warning: overriding commands for target `.f.o'
../../config.h:79: warning: ignoring old commands for target `.f.o'
make[3]: Nothing to be done for `install'.
make[3]: Leaving directory `/home/pmullins/amber8/src/lmod/lmod'
ar rv lmod.a xmin/*.o nvib/*.o lmod/*.o
r - xmin/xmin.o
r - nvib/nvib.o
r - lmod/lmod.o
ranlib lmod.a
make[2]: Leaving directory `/home/pmullins/amber8/src/lmod'
ifort   -FR  -o sander trace.o lmod.o decomp.o icosasurf.o egb.o findmask.o pb_force.o sander.o cshf.o noecalc.o noeread.o caldis.o calrate.o dinten.o drates.o indexn.o kmat.o pearsn.o plane.o remarc.o nmrcal.o nmrred.o restal.o getnat.o nmrnrg.o modwt.o disnrg.o angnrg.o tornrg.o nmrprt.o nmrgrp.o nmrcms.o nmrcmf.o impnum.o nmrsht.o at2res.o chklin.o opnmrg.o printe.o runmin.o ndvprt.o force.o rdparm.o mdread.o locmem.o runmd.o getcor.o r6ave.o r6drv.o aveint.o degcnt.o corf.o threeb.o tripl.o nmrrad.o decnvh.o fastwt.o echoin.o parallel.o jnrg.o shake.o ene.o mdwrit.o minrit.o set.o setmm.o dynlib.o mdfil.o nmlsrc.o ew_force.o ew_setup.o ew_box.o ew_bspline.o ew_fft.o ew_direct.o ew_recip.o pcshift.o align.o rstack.o istack.o rfree.o rgroup.o random.o lsqfit.o amopen.o debug.o ew_recip_reg.o ew_handle_dips.o ew_dipole_recip.o mexit.o new_time.o extra_pts.o thermo_int.o matinv.o assert.o mmtsb.o mmtsb_client.o erfcfun.o veclib.o mdm.o pb_init.o constantph.o prn_dipoles.o  \
	../lmod/lmod.a  \
	../lapack/lapack.a ../blas/blas.a ../lib/nxtsec.o ../lib/sys.a 
ifort   -FR  -o sander.LES trace.o lmod.o decomp.o icosasurf.o egb.LES.o findmask.o pb_force.o sander.LES.o cshf.o noecalc.o noeread.o caldis.o calrate.o dinten.o drates.o indexn.o kmat.o pearsn.o plane.o remarc.o nmrcal.LES.o nmrred.LES.o restal.o getnat.o nmrnrg.o modwt.LES.o disnrg.o angnrg.o tornrg.o nmrprt.o nmrgrp.o nmrcms.o nmrcmf.o impnum.o nmrsht.o at2res.o chklin.o opnmrg.o printe.o runmin.o ndvprt.o force.LES.o rdparm.LES.o mdread.LES.o locmem.LES.o runmd.LES.o getcor.o r6ave.LES.o r6drv.o aveint.o degcnt.LES.o corf.o threeb.o tripl.o nmrrad.o decnvh.o fastwt.o echoin.o parallel.LES.o jnrg.LES.o shake.o ene.LES.o mdwrit.o minrit.o set.o setmm.o dynlib.LES.o mdfil.o nmlsrc.o ew_force.LES.o ew_setup.o ew_box.o ew_bspline.o ew_fft.o ew_direct.LES.o ew_recip.LES.o pcshift.o align.o rstack.o istack.o rfree.o rgroup.o random.o lsqfit.o amopen.o egb_les.LES.o debug.o ew_recip_reg.o ew_handle_dips.o ew_dipole_recip.o mexit.o new_time.o extra_pts.LES.o thermo_int.o matinv.o assert.o mmtsb.o mmtsb_client.o erfcfun.o veclib.o mdm.o pb_init.o constantph.o prn_dipoles.o \
	../lmod/lmod.a  \
	../lapack/lapack.a ../blas/blas.a ../lib/nxtsec.o ../lib/sys.a
cd ../divcon; make libdivcon.a
make[2]: Entering directory `/home/pmullins/amber8/src/divcon'
make[2]: `libdivcon.a' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/divcon'
ifort   -FR  -o sander.QMMM trace.o debug.QMMM.o findmask.o pb_force.o sander.QMMM.o cshf.o noecalc.o noeread.o caldis.o calrate.o dinten.o drates.o indexn.o kmat.o pearsn.o plane.o remarc.o nmrcal.o nmrred.o restal.o getnat.o nmrnrg.o modwt.o disnrg.o angnrg.o tornrg.o nmrprt.o nmrgrp.o nmrcms.o nmrcmf.o impnum.o nmrsht.o at2res.o chklin.o opnmrg.o printe.QMMM.o runmin.QMMM.o ndvprt.o rdparm.QMMM.o mdread.QMMM.o locmem.QMMM.o runmd.QMMM.o getcor.QMMM.o r6ave.o r6drv.o aveint.o degcnt.o corf.o threeb.o tripl.o nmrrad.o decnvh.o fastwt.o echoin.o parallel.o jnrg.o shake.o ene.QMMM.o mdwrit.QMMM.o minrit.QMMM.o set.o setmm.o dynlib.o mdfil.o nmlsrc.o pcshift.o align.o rstack.o istack.o rfree.o rgroup.o random.o lsqfit.o amopen.o mexit.o new_time.o thermo_int.o matinv.o decomp.o  assert.o erfcfun.o veclib.o mdm.o pb_init.o constantph.o prn_dipoles.o mmtsb.o mmtsb_client.o delbad.o link_atoms.o qmcompare.o qmsort.o forcecp.o ifshk.o resnba.o nonbon.o ../lib/nxtsec.o \
	  ../lapack/lapack.a ../blas/blas.a \
	../lib/sys.a ../divcon/libdivcon.a ../divcon/block.o
cd ../lib; make mexit.o
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `mexit.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
ifort   -FR  -o ambmask ambmask.o findmask.o \
	amopen.o ../lib/mexit.o ../lib/nxtsec.o 
/bin/mv sander sander.LES sander.QMMM ambmask ../../exe
make[1]: Leaving directory `/home/pmullins/amber8/src/sander'
cd ptraj; make install
make[1]: Entering directory `/home/pmullins/amber8/src/ptraj'
cd ../lapack; make
make[2]: Entering directory `/home/pmullins/amber8/src/lapack'
Makefile:7: warning: overriding commands for target `.f.o'
../config.h:79: warning: ignoring old commands for target `.f.o'
ar rv lapack.a dsyev.o dlansy.o dsytrd.o dorgtr.o dsteqr.o dsterf.o dlascl.o dlamch.o xerbla.o ilaenv.o dlassq.o dsytd2.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 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 dlaed4.o dlaed5.o dlaed6.o
r - dsyev.o
r - dlansy.o
r - dsytrd.o
r - dorgtr.o
r - dsteqr.o
r - dsterf.o
r - dlascl.o
r - dlamch.o
r - xerbla.o
r - ilaenv.o
r - dlassq.o
r - dsytd2.o
r - dlatrd.o
r - dorgql.o
r - dorgqr.o
r - dlasrt.o
r - dlaset.o
r - dlanst.o
r - dlaev2.o
r - dlasr.o
r - dlapy2.o
r - dlartg.o
r - dlae2.o
r - dorg2r.o
r - dlarft.o
r - dlarfb.o
r - dorg2l.o
r - dlarfg.o
r - dlarf.o
r - dspev.o
r - dlansp.o
r - dsptrd.o
r - dopgtr.o
r - dppsv.o
r - dspsv.o
r - dgeev.o
r - dsptrs.o
r - dsptrf.o
r - dpptrs.o
r - dpptrf.o
r - dgebak.o
r - dtrevc.o
r - dlacpy.o
r - dhseqr.o
r - dorghr.o
r - dgehrd.o
r - dgebal.o
r - dlange.o
r - dlabad.o
r - dlahqr.o
r - dlarfx.o
r - dlanhs.o
r - dlaln2.o
r - dgehd2.o
r - dlahrd.o
r - dlanv2.o
r - dladiv.o
r - dgerq2.o
r - dorm2r.o
r - dlarnv.o
r - dgeqr2.o
r - dlaruv.o
r - dspevd.o
r - dstedc.o
r - dopmtr.o
r - dlaed0.o
r - dlaed1.o
r - dlaed7.o
r - dlaeda.o
r - dlaed8.o
r - dlaed9.o
r - dlamrg.o
r - dlaed2.o
r - dlaed3.o
r - dlaed4.o
r - dlaed5.o
r - dlaed6.o
ranlib lapack.a
make[2]: Leaving directory `/home/pmullins/amber8/src/lapack'
cd ../arpack; make
make[2]: Entering directory `/home/pmullins/amber8/src/arpack'
Makefile:7: warning: overriding commands for target `.f.o'
../config.h:79: warning: ignoring old commands for target `.f.o'
make[2]: Nothing to be done for `install'.
make[2]: Leaving directory `/home/pmullins/amber8/src/arpack'
cd ../blas; make
make[2]: Entering directory `/home/pmullins/amber8/src/blas'
Makefile:7: warning: overriding commands for target `.f.o'
../config.h:79: warning: ignoring old commands for target `.f.o'
ar rv blas.a dasum.o daxpy.o dcabs1.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 dummy.o dzasum.o dznrm2.o idamax.o isamax.o lsame.o 
r - dasum.o
r - daxpy.o
r - dcabs1.o
r - dcopy.o
r - ddot.o
r - dgbmv.o
r - dgemm.o
r - dgemv.o
r - dger.o
r - dnrm2.o
r - drot.o
r - drotg.o
r - dsbmv.o
r - dscal.o
r - dspmv.o
r - dspr.o
r - dspr2.o
r - dswap.o
r - dsymm.o
r - dsymv.o
r - dsyr.o
r - dsyr2.o
r - dsyr2k.o
r - dsyrk.o
r - dtbmv.o
r - dtbsv.o
r - dtpmv.o
r - dtpsv.o
r - dtrmm.o
r - dtrmv.o
r - dtrsm.o
r - dtrsv.o
r - dummy.o
r - dzasum.o
r - dznrm2.o
r - idamax.o
r - isamax.o
r - lsame.o
ranlib blas.a
make[2]: Leaving directory `/home/pmullins/amber8/src/blas'
cd ../lib ; make sys.a 
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `sys.a' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
cd pdb; make
make[2]: Entering directory `/home/pmullins/amber8/src/ptraj/pdb'
make[2]: Nothing to be done for `install'.
make[2]: Leaving directory `/home/pmullins/amber8/src/ptraj/pdb'
ifort   -nofor_main -FR  -o rdparm main.o rdparm.o dispatch.o help.o utility.o second.o io.o trajectory.o evec.o torsion.o rms.o display.o interface.o energy.o experimental.o ptraj.o actions.o analyze.o thermo.o pubfft.o pdb/libpdb.a ../arpack/arpack.a ../lapack/lapack.a ../blas/blas.a  
ifort   -nofor_main -FR  -o ptraj main.o rdparm.o dispatch.o help.o utility.o second.o io.o trajectory.o evec.o torsion.o rms.o display.o interface.o energy.o experimental.o ptraj.o actions.o analyze.o thermo.o pubfft.o pdb/libpdb.a ../arpack/arpack.a ../lapack/lapack.a ../blas/blas.a  
/bin/mv rdparm ptraj ../../exe
make[1]: Leaving directory `/home/pmullins/amber8/src/ptraj'
cd nmr_aux; make install
make[1]: Entering directory `/home/pmullins/amber8/src/nmr_aux'
cd prepare_input; make clean ; make install
make[2]: Entering directory `/home/pmullins/amber8/src/nmr_aux/prepare_input'
/bin/rm *.o _*.f makeDIST_RST makeANG_RST makeSHF.cp makeCHIR_RST.cp \
	makeDIP_RST.protein.cp makeDIP_RST.dna.cp
/bin/rm: cannot remove `_*.f': No such file or directory
/bin/rm: cannot remove `makeDIST_RST': No such file or directory
/bin/rm: cannot remove `makeANG_RST': No such file or directory
/bin/rm: cannot remove `makeSHF.cp': No such file or directory
/bin/rm: cannot remove `makeCHIR_RST.cp': No such file or directory
/bin/rm: cannot remove `makeDIP_RST.protein.cp': No such file or directory
/bin/rm: cannot remove `makeDIP_RST.dna.cp': No such file or directory
make[2]: [clean] Error 1 (ignored)
make[2]: Leaving directory `/home/pmullins/amber8/src/nmr_aux/prepare_input'
make[2]: Entering directory `/home/pmullins/amber8/src/nmr_aux/prepare_input'
gcc -c -O2   -o makeDIST_RST.o makeDIST_RST.c
gcc    -o makeDIST_RST makeDIST_RST.o -lm
gcc -c -O2   -o makeANG_RST.o makeANG_RST.c
gcc    -o makeANG_RST makeANG_RST.o -lm
/bin/rm -f makeSHF_RST.cp makeCHIR_RST.cp makeDIP_RST.protein.cp \
		makeDIP_RST.dna.cp
cp makeSHF_RST makeSHF_RST.cp
cp makeCHIR_RST makeCHIR_RST.cp
cp makeDIP_RST.protein makeDIP_RST.protein.cp
cp makeDIP_RST.dna makeDIP_RST.dna.cp
chmod 755 makeDIST_RST makeANG_RST makeSHF_RST.cp makeCHIR_RST.cp \
		makeDIP_RST.protein.cp makeDIP_RST.dna.cp
mv makeDIST_RST makeANG_RST ../../../exe
mv makeCHIR_RST.cp ../../../exe/makeCHIR_RST
mv makeSHF_RST.cp ../../../exe/makeSHF_RST
mv makeDIP_RST.protein.cp ../../../exe/makeDIP_RST.protein
mv makeDIP_RST.dna.cp ../../../exe/makeDIP_RST.dna
cp map.DG-AMBER ../../../dat
cp map.Brook-AMBER ../../../dat
make[2]: Leaving directory `/home/pmullins/amber8/src/nmr_aux/prepare_input'
cd fantasian; make clean ; make install
make[2]: Entering directory `/home/pmullins/amber8/src/nmr_aux/fantasian'
/bin/rm *.o _*.f fantasian
/bin/rm: cannot remove `fantasian': No such file or directory
make[2]: [clean] Error 1 (ignored)
make[2]: Leaving directory `/home/pmullins/amber8/src/nmr_aux/fantasian'
make[2]: Entering directory `/home/pmullins/amber8/src/nmr_aux/fantasian'
cpp -traditional -P -I/home/pmullins/amber8/src/include  fantasian.f > _fantasian.f
ifort -c -w95    -mp1 -O0   -o fantasian.o _fantasian.f
ifort     -o fantasian fantasian.o ../../lib/random.o ../../lib/mexit.o 
mv fantasian ../../../exe/
make[2]: Leaving directory `/home/pmullins/amber8/src/nmr_aux/fantasian'
cp senergy sviol sviol2 ../../exe
make[1]: Leaving directory `/home/pmullins/amber8/src/nmr_aux'
cd nmode; make install
make[1]: Entering directory `/home/pmullins/amber8/src/nmode'
cd ../lib ; ./Makelist ../lib/rfree.o   ../lib/matinv.o ../lib/nxtsec.o ../lib/amopen.o 
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `rfree.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `matinv.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `nxtsec.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `amopen.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
cd ../lib; make sys.a
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `sys.a' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
cd ../lapack; make
make[2]: Entering directory `/home/pmullins/amber8/src/lapack'
Makefile:7: warning: overriding commands for target `.f.o'
../config.h:79: warning: ignoring old commands for target `.f.o'
ar rv lapack.a dsyev.o dlansy.o dsytrd.o dorgtr.o dsteqr.o dsterf.o dlascl.o dlamch.o xerbla.o ilaenv.o dlassq.o dsytd2.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 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 dlaed4.o dlaed5.o dlaed6.o
r - dsyev.o
r - dlansy.o
r - dsytrd.o
r - dorgtr.o
r - dsteqr.o
r - dsterf.o
r - dlascl.o
r - dlamch.o
r - xerbla.o
r - ilaenv.o
r - dlassq.o
r - dsytd2.o
r - dlatrd.o
r - dorgql.o
r - dorgqr.o
r - dlasrt.o
r - dlaset.o
r - dlanst.o
r - dlaev2.o
r - dlasr.o
r - dlapy2.o
r - dlartg.o
r - dlae2.o
r - dorg2r.o
r - dlarft.o
r - dlarfb.o
r - dorg2l.o
r - dlarfg.o
r - dlarf.o
r - dspev.o
r - dlansp.o
r - dsptrd.o
r - dopgtr.o
r - dppsv.o
r - dspsv.o
r - dgeev.o
r - dsptrs.o
r - dsptrf.o
r - dpptrs.o
r - dpptrf.o
r - dgebak.o
r - dtrevc.o
r - dlacpy.o
r - dhseqr.o
r - dorghr.o
r - dgehrd.o
r - dgebal.o
r - dlange.o
r - dlabad.o
r - dlahqr.o
r - dlarfx.o
r - dlanhs.o
r - dlaln2.o
r - dgehd2.o
r - dlahrd.o
r - dlanv2.o
r - dladiv.o
r - dgerq2.o
r - dorm2r.o
r - dlarnv.o
r - dgeqr2.o
r - dlaruv.o
r - dspevd.o
r - dstedc.o
r - dopmtr.o
r - dlaed0.o
r - dlaed1.o
r - dlaed7.o
r - dlaeda.o
r - dlaed8.o
r - dlaed9.o
r - dlamrg.o
r - dlaed2.o
r - dlaed3.o
r - dlaed4.o
r - dlaed5.o
r - dlaed6.o
ranlib lapack.a
make[2]: Leaving directory `/home/pmullins/amber8/src/lapack'
cd ../blas; make
make[2]: Entering directory `/home/pmullins/amber8/src/blas'
Makefile:7: warning: overriding commands for target `.f.o'
../config.h:79: warning: ignoring old commands for target `.f.o'
ar rv blas.a dasum.o daxpy.o dcabs1.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 dummy.o dzasum.o dznrm2.o idamax.o isamax.o lsame.o 
r - dasum.o
r - daxpy.o
r - dcabs1.o
r - dcopy.o
r - ddot.o
r - dgbmv.o
r - dgemm.o
r - dgemv.o
r - dger.o
r - dnrm2.o
r - drot.o
r - drotg.o
r - dsbmv.o
r - dscal.o
r - dspmv.o
r - dspr.o
r - dspr2.o
r - dswap.o
r - dsymm.o
r - dsymv.o
r - dsyr.o
r - dsyr2.o
r - dsyr2k.o
r - dsyrk.o
r - dtbmv.o
r - dtbsv.o
r - dtpmv.o
r - dtpsv.o
r - dtrmm.o
r - dtrmv.o
r - dtrsm.o
r - dtrsv.o
r - dummy.o
r - dzasum.o
r - dznrm2.o
r - idamax.o
r - isamax.o
r - lsame.o
ranlib blas.a
make[2]: Leaving directory `/home/pmullins/amber8/src/blas'
ifort   -FR  -o nmode  nmode.o alloc.o angl.o assert.o bond.o bresna.o cdiv.o chck.o chdir.o chlamba.o debug.o difang.o difbon.o dihdup.o dihed.o dirch.o dsort.o eigout.o ephi.o eprnt.o errstp.o findl.o forces.o getcor.o getf.o getm.o getref.o grdmax.o level.o lmdout.o lmode.o makel.o movecm.o mweight.o mweit.o new_stuff.o nmdfil.o nonbon.o nonbon1.o norm.o norml.o nrch.o oseen.o pairr.o pairw.o percon.o pload.o putvar.o rdinp.o rdparm.o remrot.o resdis.o rgroup.o savec.o savei.o  savet.o setang.o setatm.o setbon.o setcor.o setdih.o setgam.o setgr.o setvar.o spsort.o thermo.o timit.o traco.o  tsearch.o tstate.o xconst.o zerout.o zxcgr.o mexit.o ../lib/rfree.o   ../lib/matinv.o ../lib/nxtsec.o ../lib/amopen.o  \
	../lib/sys.a ../lapack/lapack.a ../blas/blas.a 
/bin/mv nmode ../../exe
make[1]: Leaving directory `/home/pmullins/amber8/src/nmode'
cd resp; make install
make[1]: Entering directory `/home/pmullins/amber8/src/resp'
cd ../lib ; ./Makelist ../lib/mexit.o ../lib/amopen.o ../lib/lapack.o 
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `mexit.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `amopen.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `lapack.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
cd ../lib ; make sys.a
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `sys.a' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
ifort     -o resp  resp.o ../lib/mexit.o ../lib/amopen.o ../lib/lapack.o ../lib/sys.a 
/bin/mv resp ../../exe/
make[1]: Leaving directory `/home/pmullins/amber8/src/resp'
cd protonate; make install
make[1]: Entering directory `/home/pmullins/amber8/src/protonate'
cd ../lib ; ./Makelist ../lib/mexit.o ../lib/amopen.o
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `mexit.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `amopen.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
cd ../lib; make sys.a
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `sys.a' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
ifort     -o pol_h pol_h.o stm_sel.o sortf_as.o ../lib/mexit.o ../lib/amopen.o ../lib/sys.a 
ifort     -o protonate protonate.o ../lib/mexit.o ../lib/amopen.o ../lib/sys.a 
ifort     -o gwh gwh.o pdbatm.o pdbhet2.o top_3.o stm_sel.o sortf_as.o ../lib/mexit.o ../lib/amopen.o ../lib/sys.a 
mv pol_h protonate gwh ../../exe/
make[1]: Leaving directory `/home/pmullins/amber8/src/protonate'
cd anal; make install
make[1]: Entering directory `/home/pmullins/amber8/src/anal'
cd ../lib ; ./Makelist ../lib/rfree.o ../lib/rgroup.o ../lib/nxtsec.o ../lib/util.o ../lib/amopen.o ../lib/mexit.o ../lib/ligenb.o
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `rfree.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `rgroup.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `nxtsec.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `util.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `amopen.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `mexit.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `ligenb.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
cd ../lib; make sys.a
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `sys.a' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
ifort     -o anal  anafil.o analgr.o analys.o angl.o anglp.o atmget.o bangle.o bond.o bpgen.o calhb.o calhx.o calpuc.o chain.o clear.o compact.o dihtel.o dist.o egout.o egrout.o ephi.o gaus80.o gauss.o getall.o getcmn.o hangl.o haxis.o hbond.o hbout.o helix.o locmem.o lsqstr.o matind.o mdbox.o mdread.o minv.o movecm.o nhbpar.o pdbout.o pdbrit.o percon.o prtri.o prtrin.o puck.o pucker.o radgy.o rdparm.o rdrest.o resdis.o resnbn.o resnbp.o rms.o rmsfit.o rmsmov.o stell.o stogrd.o sumgrp.o teldih.o telint.o tell.o tilang.o tilt.o tors.o traco.o vect.o volume.o xconst.o ../lib/rfree.o ../lib/rgroup.o ../lib/nxtsec.o ../lib/util.o ../lib/amopen.o ../lib/mexit.o ../lib/ligenb.o ../lib/sys.a 
/bin/mv anal ../../exe/
make[1]: Leaving directory `/home/pmullins/amber8/src/anal'
cd mm_pbsa; make install
make[1]: Entering directory `/home/pmullins/amber8/src/mm_pbsa'
ifort      -o make_crd_hg make_crd_hg.o ../lib/amopen.o ../lib/mexit.o 
gcc -O2  -o molsurf molsurf.o -lm
mv make_crd_hg molsurf ../../exe
cp mm_pbsa.pl mm_pbsa_statistics.pl ../../exe
make[1]: Leaving directory `/home/pmullins/amber8/src/mm_pbsa'
cd pbsa; make install
make[1]: Entering directory `/home/pmullins/amber8/src/pbsa'
cd ../lmod; make
make[2]: Entering directory `/home/pmullins/amber8/src/lmod'
cd xmin; make
make[3]: Entering directory `/home/pmullins/amber8/src/lmod/xmin'
Makefile:6: warning: overriding commands for target `.f.o'
../../config.h:79: warning: ignoring old commands for target `.f.o'
make[3]: Nothing to be done for `install'.
make[3]: Leaving directory `/home/pmullins/amber8/src/lmod/xmin'
cd nvib; make
make[3]: Entering directory `/home/pmullins/amber8/src/lmod/nvib'
Makefile:6: warning: overriding commands for target `.f.o'
../../config.h:79: warning: ignoring old commands for target `.f.o'
make[3]: Nothing to be done for `install'.
make[3]: Leaving directory `/home/pmullins/amber8/src/lmod/nvib'
cd lmod; make
make[3]: Entering directory `/home/pmullins/amber8/src/lmod/lmod'
Makefile:6: warning: overriding commands for target `.f.o'
../../config.h:79: warning: ignoring old commands for target `.f.o'
make[3]: Nothing to be done for `install'.
make[3]: Leaving directory `/home/pmullins/amber8/src/lmod/lmod'
ar rv lmod.a xmin/*.o nvib/*.o lmod/*.o
r - xmin/xmin.o
r - nvib/nvib.o
r - lmod/lmod.o
ranlib lmod.a
make[2]: Leaving directory `/home/pmullins/amber8/src/lmod'
cd ../lib; make sys.a
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `sys.a' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
cd ../lib; make nxtsec.o
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `nxtsec.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
cd ../lapack; make
make[2]: Entering directory `/home/pmullins/amber8/src/lapack'
Makefile:7: warning: overriding commands for target `.f.o'
../config.h:79: warning: ignoring old commands for target `.f.o'
ar rv lapack.a dsyev.o dlansy.o dsytrd.o dorgtr.o dsteqr.o dsterf.o dlascl.o dlamch.o xerbla.o ilaenv.o dlassq.o dsytd2.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 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 dlaed4.o dlaed5.o dlaed6.o
r - dsyev.o
r - dlansy.o
r - dsytrd.o
r - dorgtr.o
r - dsteqr.o
r - dsterf.o
r - dlascl.o
r - dlamch.o
r - xerbla.o
r - ilaenv.o
r - dlassq.o
r - dsytd2.o
r - dlatrd.o
r - dorgql.o
r - dorgqr.o
r - dlasrt.o
r - dlaset.o
r - dlanst.o
r - dlaev2.o
r - dlasr.o
r - dlapy2.o
r - dlartg.o
r - dlae2.o
r - dorg2r.o
r - dlarft.o
r - dlarfb.o
r - dorg2l.o
r - dlarfg.o
r - dlarf.o
r - dspev.o
r - dlansp.o
r - dsptrd.o
r - dopgtr.o
r - dppsv.o
r - dspsv.o
r - dgeev.o
r - dsptrs.o
r - dsptrf.o
r - dpptrs.o
r - dpptrf.o
r - dgebak.o
r - dtrevc.o
r - dlacpy.o
r - dhseqr.o
r - dorghr.o
r - dgehrd.o
r - dgebal.o
r - dlange.o
r - dlabad.o
r - dlahqr.o
r - dlarfx.o
r - dlanhs.o
r - dlaln2.o
r - dgehd2.o
r - dlahrd.o
r - dlanv2.o
r - dladiv.o
r - dgerq2.o
r - dorm2r.o
r - dlarnv.o
r - dgeqr2.o
r - dlaruv.o
r - dspevd.o
r - dstedc.o
r - dopmtr.o
r - dlaed0.o
r - dlaed1.o
r - dlaed7.o
r - dlaeda.o
r - dlaed8.o
r - dlaed9.o
r - dlamrg.o
r - dlaed2.o
r - dlaed3.o
r - dlaed4.o
r - dlaed5.o
r - dlaed6.o
ranlib lapack.a
make[2]: Leaving directory `/home/pmullins/amber8/src/lapack'
cd ../blas; make
make[2]: Entering directory `/home/pmullins/amber8/src/blas'
Makefile:7: warning: overriding commands for target `.f.o'
../config.h:79: warning: ignoring old commands for target `.f.o'
ar rv blas.a dasum.o daxpy.o dcabs1.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 dummy.o dzasum.o dznrm2.o idamax.o isamax.o lsame.o 
r - dasum.o
r - daxpy.o
r - dcabs1.o
r - dcopy.o
r - ddot.o
r - dgbmv.o
r - dgemm.o
r - dgemv.o
r - dger.o
r - dnrm2.o
r - drot.o
r - drotg.o
r - dsbmv.o
r - dscal.o
r - dspmv.o
r - dspr.o
r - dspr2.o
r - dswap.o
r - dsymm.o
r - dsymv.o
r - dsyr.o
r - dsyr2.o
r - dsyr2k.o
r - dsyrk.o
r - dtbmv.o
r - dtbsv.o
r - dtpmv.o
r - dtpsv.o
r - dtrmm.o
r - dtrmv.o
r - dtrsm.o
r - dtrsv.o
r - dummy.o
r - dzasum.o
r - dznrm2.o
r - idamax.o
r - isamax.o
r - lsame.o
ranlib blas.a
make[2]: Leaving directory `/home/pmullins/amber8/src/blas'
ifort   -FR  -o pbsa pbsa.o runmd.o runmin.o lmod.o mdread.o rdparm.o getcor.o force.o pb_force.o pb_init.o egb.o ene.o decomp.o icosasurf.o findmask.o printe.o locmem.o fastwt.o echoin.o parallel.o shake.o mdwrit.o minrit.o set.o setmm.o dynlib.o mdfil.o nmlsrc.o rstack.o istack.o rfree.o rgroup.o random.o amopen.o debug.o degcnt.o mexit.o new_time.o matinv.o assert.o veclib.o constantph.o ../lmod/lmod.a ../lib/sys.a ../lib/nxtsec.o \
	../lapack/lapack.a ../blas/blas.a 
/bin/mv pbsa ../../exe
make[1]: Leaving directory `/home/pmullins/amber8/src/pbsa'
cd etc; make install
make[1]: Entering directory `/home/pmullins/amber8/src/etc'
cd ../lib ; ./Makelist ../lib/amopen.o ../lib/mexit.o ../lib/nxtsec.o
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `amopen.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `mexit.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `nxtsec.o' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
ifort     -o ambpdb ambpdb.o forFIRSTtype.o forFIRSTbond.o forFIRSThbond.o forFIRSTteth.o forFIRSToutp.o  ../lib/amopen.o ../lib/mexit.o ../lib/nxtsec.o 
ifort     -o nucgen nucgen.o ngfil.o ../lib/amopen.o ../lib/mexit.o ../lib/nxtsec.o \
	../lib/sys.a 
/bin/mv ambpdb nucgen ../../exe/
/bin/cp calcpka.pl cpinutil.pl CPin.pm ../../exe
make[1]: Leaving directory `/home/pmullins/amber8/src/etc'
cd divcon; make install
make[1]: Entering directory `/home/pmullins/amber8/src/divcon'
cd ../lib; make sys.a
make[2]: Entering directory `/home/pmullins/amber8/src/lib'
make[2]: `sys.a' is up to date.
make[2]: Leaving directory `/home/pmullins/amber8/src/lib'
ifort     -o divcon assign.o atgrid.o atmchg.o atmlist.o av.o bcheck.o bleng.o block.o bndang.o boxmove.o boxstep.o bpair.o bsort.o bsrch.o balance.o bspline.o calcgeo.o chkovlp.o chkres.o clustsub.o cmbcore.o cmbsub.o denful.o densub.o diag.o diagp.o diat.o dihedr.o diisub.o diislb.o dipole.o doferm.o dograd.o doscfdc.o densubfdm.o edriver.o energydc.o error.o escf.o esqr.o esqrfdm.o etimer.o fmix.o fockdc.o freq.o frmchk.o fshift.o g2int.o gcart.o gensub.o geoopt.o getcrd.o getdir.o getpar.o getpep.o getrforc.o getxyz.o glbpnt.o gridafnc.o gridrfnc.o header.o homolumo.o hsep.o icoord.o ijpair.o initp.o intpr.o lbfgs.o linmin.o lsolve.o math.o mixgrid.o mkgrid.o mosub.o mosubfdm.o mosubfdmx.o mvcrd.o namemcf.o  opnfil.o overlp.o pbcxyz.o pgridrfnc.o pgridafnc.o printsub.o pmix.o prjfc.o printpar.o push.o rdalldc.o rdbelly.o rdbox.o rdcluster.o rdcomb.o rdgrid.o rdgroup.o rdint.o rdkeys.o rdnext.o rdnum.o rdrst.o rdsub.o rdword.o rdxyz.o resgrid.o rcalc.o rdtail.o rdlist.o repul.o random.o rotate.o rdguess.o rddmx.o rdneighb.o rdpdb.o rddos.o rdprtvec.o rdhess.o septs.o setbox.o setncell.o setup.o setunit.o sproc.o stripkeywd.o setdef.o setopt.o setprtvec.o sabt.o tsqna.o tsrfo.o upcase.o wdjoin.o whatis.o wrtchg.o wrtgrd.o wrthss.o wrtint.o wrtpdb.o wrtrst.o wrtvec.o wrtcoor.o wrtxyz.o wrttim.o wrtdiv.o wrtdmx.o wrtvecsub.o zmake.o divcon.o  ../lib/sys.a
mv divcon ../../exe
make[1]: Leaving directory `/home/pmullins/amber8/src/divcon'
cd antechamber; make install
make[1]: Entering directory `/home/pmullins/amber8/src/antechamber'
g++ -c  -o bondtype.o bondtype.C
bondtype.C:23:19: vector: No such file or directory
bondtype.C:79: error: `vector' not declared
bondtype.C:242: error: `vector' was not declared in this scope
bondtype.C:242: error: parse error before `>' token
bondtype.C: In function `void get_penalties(...)':
bondtype.C:250: error: `penalties' undeclared (first use this function)
bondtype.C:250: error: (Each undeclared identifier is reported only once for 
   each function it appears in.)
bondtype.C: At global scope:
bondtype.C:254: error: `vector' was not declared in this scope
bondtype.C:254: error: parse error before `>' token
bondtype.C:257: error: 'vector' is used as a type, but is not defined as a 
   type.
bondtype.C:258: error: parse error before `for'
bondtype.C:258: error: `points' was not declared in this scope
bondtype.C:258: error: parse error before `;' token
bondtype.C:258: error: syntax error before `++' token
bondtype.C:264: error: `vector' was not declared in this scope
bondtype.C:264: error: parse error before `>' token
bondtype.C: In function `bool check_exist(...)':
bondtype.C:267: error: `addrs1' undeclared (first use this function)
bondtype.C:268: error: `addrs2' undeclared (first use this function)
bondtype.C: At global scope:
bondtype.C:278: error: `vector' was not declared in this scope
bondtype.C:278: error: parse error before `>' token
bondtype.C:284: error: parse error before `;' token
bondtype.C:284: error: syntax error before `++' token
bondtype.C:286: error: syntax error before `.' token
bondtype.C:287: error: syntax error before `.' token
bondtype.C:290: error: `n' was not declared in this scope
bondtype.C:290: error: parse error before `;' token
bondtype.C:290: error: syntax error before `++' token
bondtype.C:292: error: syntax error before `.' token
bondtype.C:293: error: syntax error before `.' token
bondtype.C:296: error: syntax error before `<=' token
bondtype.C:296: error: syntax error before `++' token
bondtype.C:299: error: `vector' was not declared in this scope
bondtype.C:299: error: parse error before `>' token
bondtype.C:302: error: `r1' was not declared in this scope
bondtype.C:302: error: parse error before `;' token
bondtype.C:302: error: syntax error before `++' token
bondtype.C:303: error: `r2' was not declared in this scope
bondtype.C:303: error: parse error before `;' token
bondtype.C:303: error: syntax error before `++' token
bondtype.C:305: error: parse error before `=' token
bondtype.C:308: error: parse error before `if'
bondtype.C:310: error: `r2' was not declared in this scope
bondtype.C:310: error: `y' was not declared in this scope
bondtype.C:310: error: parse error before `;' token
bondtype.C:310: error: syntax error before `++' token
bondtype.C:313: error: syntax error before `.' token
bondtype.C:322: error: `vector' was not declared in this scope
bondtype.C:322: error: `vector' was not declared in this scope
bondtype.C:322: error: parse error before `>' token
bondtype.C: In function `void dump(...)':
bondtype.C:325: error: `array' undeclared (first use this function)
bondtype.C: At global scope:
bondtype.C:348: error: `vector' was not declared in this scope
bondtype.C:348: error: `vector' was not declared in this scope
bondtype.C:348: error: parse error before `>' token
bondtype.C:372: error: `vector' was not declared in this scope
bondtype.C:372: error: `vector' was not declared in this scope
bondtype.C:372: error: parse error before `>' token
bondtype.C: In function `void dumplication(...)':
bondtype.C:376: error: `vector' undeclared (first use this function)
bondtype.C:376: error: parse error before `>' token
bondtype.C:379: error: request for member `push_back' in `index', which is of 
   non-aggregate type `char*()(const char*, int) throw ()'
bondtype.C:381: error: pointer to a function used in arithmetic
bondtype.C:385: error: pointer to a function used in arithmetic
bondtype.C:399: error: pointer to a function used in arithmetic
bondtype.C:399: error: assignment of read-only location
bondtype.C:399: error: cannot convert `int' to `char*()(const char*, int)' in 
   assignment
bondtype.C:403: error: pointer to a function used in arithmetic
bondtype.C: In function `int main(int, char**)':
bondtype.C:1097: error: parse error before `>' token
bondtype.C:1098: error: parse error before `>' token
bondtype.C:1106: error: `tmparray' undeclared (first use this function)
bondtype.C:1106: error: `process_penalties' undeclared (first use this 
   function)
make[1]: *** [bondtype.o] Error 1
make[1]: Leaving directory `/home/pmullins/amber8/src/antechamber'
make: *** [serial] Error 2
-- End --