[install@lionxv ptraj]$ make
cd pdb && make 
make[1]: Entering directory `/gpfs/apps/x86_64-rhel6/gcc-4.8.x/openmpi-1.8.x/amber14/AmberTools/src/ptraj/pdb'
ar rv libpdb.a pdbrun.o pdb_read.o pdb_sprntf.o pdb_sscanf.o pdb_write.o ms.o
ar: creating libpdb.a
a - pdbrun.o
a - pdb_read.o
a - pdb_sprntf.o
a - pdb_sscanf.o
a - pdb_write.o
a - ms.o
ranlib libpdb.a
mv libpdb.a /usr/global/gcc-4.8.x/openmpi-1.8.x/amber14/lib
make[1]: Leaving directory `/gpfs/apps/x86_64-rhel6/gcc-4.8.x/openmpi-1.8.x/amber14/AmberTools/src/ptraj/pdb'
cd ../arpack && make
make[1]: Entering directory `/gpfs/apps/x86_64-rhel6/gcc-4.8.x/openmpi-1.8.x/amber14/AmberTools/src/arpack'
make[1]: Nothing to be done for `install'.
make[1]: Leaving directory `/gpfs/apps/x86_64-rhel6/gcc-4.8.x/openmpi-1.8.x/amber14/AmberTools/src/arpack'
mpicc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ -DHASBZ2 -DMPI         \
		-o rdparm main.o rdparm.o dispatch.o help.o utility.o second.o io.o trajectory.o netcdf_ptraj.o parallel_ptraj.o evec.o torsion.o mask.o rms.o display.o interface.o energy.o experimental.o ptraj.o actions.o analyze.o thermo.o pubfft.o cluster.o clusterLib.o -L/usr/global/gcc-4.8.x/openmpi-1.8.x/amber14/lib -lpdb -larpack -llapack -lblas   -lgfortran -w /usr/global/gcc-4.8.x/openmpi-1.8.x/amber14/lib/libnetcdf.a -lm
netcdf_ptraj.o: In function `dan_netcdf_debug':
netcdf_ptraj.c:(.text+0x50): undefined reference to `ncmpi_inq'
netcdf_ptraj.c:(.text+0xfa): undefined reference to `ncmpi_inq_varname'
netcdf_ptraj.o: In function `NETCDF_open':
netcdf_ptraj.c:(.text+0x405): undefined reference to `ncmpi_open'
netcdf_ptraj.c:(.text+0x418): undefined reference to `ncmpi_begin_indep_data'
netcdf_ptraj.c:(.text+0x445): undefined reference to `ncmpi_create'
netcdf_ptraj.c:(.text+0x458): undefined reference to `ncmpi_begin_indep_data'
netcdf_ptraj.c:(.text+0x727): undefined reference to `ncmpi_strerror'
netcdf_ptraj.o: In function `NETCDF_close':
netcdf_ptraj.c:(.text+0x79f): undefined reference to `ncmpi_close'
netcdf_ptraj.c:(.text+0x7b9): undefined reference to `ncmpi_strerror'
netcdf_ptraj.o: In function `NETCDF_setup':
netcdf_ptraj.c:(.text+0xa0f): undefined reference to `ncmpi_inq_varid'
netcdf_ptraj.c:(.text+0xa22): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0xa58): undefined reference to `ncmpi_inq_varnatts'
netcdf_ptraj.c:(.text+0xac9): undefined reference to `ncmpi_inq_attlen'
netcdf_ptraj.c:(.text+0xadc): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0xb32): undefined reference to `ncmpi_get_att_text'
netcdf_ptraj.c:(.text+0xb45): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0xbc5): undefined reference to `ncmpi_inq_varid'
netcdf_ptraj.c:(.text+0xbd8): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0xc15): undefined reference to `ncmpi_inq_varid'
netcdf_ptraj.c:(.text+0xc58): undefined reference to `ncmpi_inq_varnatts'
netcdf_ptraj.c:(.text+0xcc9): undefined reference to `ncmpi_inq_attlen'
netcdf_ptraj.c:(.text+0xcdc): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0xd32): undefined reference to `ncmpi_get_att_text'
netcdf_ptraj.c:(.text+0xdb8): undefined reference to `ncmpi_inq_varid'
netcdf_ptraj.c:(.text+0xdd5): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0xe01): undefined reference to `ncmpi_inq_varid'
netcdf_ptraj.c:(.text+0xe1e): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0xe54): undefined reference to `ncmpi_inq_varnatts'
netcdf_ptraj.c:(.text+0xe7e): undefined reference to `ncmpi_inq_attlen'
netcdf_ptraj.c:(.text+0xec1): undefined reference to `ncmpi_get_att_text'
netcdf_ptraj.c:(.text+0xede): undefined reference to `ncmpi_inq_varnatts'
netcdf_ptraj.c:(.text+0xf08): undefined reference to `ncmpi_inq_attlen'
netcdf_ptraj.c:(.text+0xf4b): undefined reference to `ncmpi_get_att_text'
netcdf_ptraj.c:(.text+0xf73): undefined reference to `ncmpi_inq_varid'
netcdf_ptraj.c:(.text+0xfa5): undefined reference to `ncmpi_inq_varnatts'
netcdf_ptraj.c:(.text+0xfd4): undefined reference to `ncmpi_inq_attlen'
netcdf_ptraj.c:(.text+0x1017): undefined reference to `ncmpi_get_att_text'
netcdf_ptraj.c:(.text+0x103e): undefined reference to `ncmpi_get_att_double'
netcdf_ptraj.c:(.text+0x105b): undefined reference to `ncmpi_inq_varid'
netcdf_ptraj.o: In function `NETCDF_setupOutput':
netcdf_ptraj.c:(.text+0x161a): undefined reference to `ncmpi_set_fill'
netcdf_ptraj.c:(.text+0x162d): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0x1656): undefined reference to `ncmpi_enddef'
netcdf_ptraj.c:(.text+0x1669): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0x16dc): undefined reference to `ncmpi_put_vara_text'
netcdf_ptraj.c:(.text+0x16ef): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0x174c): undefined reference to `ncmpi_put_vara_text'
netcdf_ptraj.c:(.text+0x175f): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0x17d3): undefined reference to `ncmpi_put_vara_text'
netcdf_ptraj.c:(.text+0x17e6): undefined reference to `ncmpi_strerror'
netcdf_ptraj.o: In function `netcdfDefineVariable':
netcdf_ptraj.c:(.text+0x184f): undefined reference to `ncmpi_def_var'
netcdf_ptraj.c:(.text+0x1869): undefined reference to `ncmpi_strerror'
netcdf_ptraj.o: In function `netcdfDefineDimension':
netcdf_ptraj.c:(.text+0x18be): undefined reference to `ncmpi_def_dim'
netcdf_ptraj.c:(.text+0x18d1): undefined reference to `ncmpi_strerror'
netcdf_ptraj.o: In function `netcdfGetAttributeText':
netcdf_ptraj.c:(.text+0x191a): undefined reference to `ncmpi_inq_attlen'
netcdf_ptraj.c:(.text+0x194a): undefined reference to `ncmpi_get_att_text'
netcdf_ptraj.c:(.text+0x1990): undefined reference to `ncmpi_strerror'
netcdf_ptraj.o: In function `netcdfPutAttributeText':
netcdf_ptraj.c:(.text+0x19fd): undefined reference to `ncmpi_put_att_text'
netcdf_ptraj.c:(.text+0x1a10): undefined reference to `ncmpi_strerror'
netcdf_ptraj.o: In function `netcdfGetDimensionInfo':
netcdf_ptraj.c:(.text+0x1a64): undefined reference to `ncmpi_inq_dimid'
netcdf_ptraj.c:(.text+0x1a77): undefined reference to `ncmpi_strerror'
netcdf_ptraj.c:(.text+0x1aac): undefined reference to `ncmpi_inq_dimlen'
netcdf_ptraj.c:(.text+0x1abf): undefined reference to `ncmpi_strerror'
ptraj.o: In function `ptrajProcessInputCoordinates':
ptraj.c:(.text+0xd2e8): undefined reference to `ncmpi_get_vara_double'
ptraj.c:(.text+0xd3b8): undefined reference to `ncmpi_get_vara_double'
ptraj.c:(.text+0xd5eb): undefined reference to `ncmpi_get_vara_text'
ptraj.c:(.text+0xd5fe): undefined reference to `ncmpi_strerror'
ptraj.c:(.text+0xd6e9): undefined reference to `ncmpi_get_vara_float'
ptraj.c:(.text+0xd6fc): undefined reference to `ncmpi_strerror'
ptraj.c:(.text+0xd8a6): undefined reference to `ncmpi_get_vara_double'
ptraj.c:(.text+0xd8b9): undefined reference to `ncmpi_strerror'
ptraj.c:(.text+0xd8fd): undefined reference to `ncmpi_get_vara_double'
ptraj.c:(.text+0xd910): undefined reference to `ncmpi_strerror'
ptraj.c:(.text+0xd967): undefined reference to `ncmpi_get_vara_float'
ptraj.c:(.text+0xd97a): undefined reference to `ncmpi_strerror'
ptraj.o: In function `ptrajOutputCoordinates':
ptraj.c:(.text+0xf193): undefined reference to `ncmpi_put_vara_float'
ptraj.c:(.text+0xf1a6): undefined reference to `ncmpi_strerror'
ptraj.c:(.text+0xf2f8): undefined reference to `ncmpi_put_vara_double'
ptraj.c:(.text+0xf30b): undefined reference to `ncmpi_strerror'
ptraj.c:(.text+0xf352): undefined reference to `ncmpi_put_vara_double'
ptraj.c:(.text+0xf365): undefined reference to `ncmpi_strerror'
ptraj.c:(.text+0xf3d2): undefined reference to `ncmpi_put_vara_float'
ptraj.c:(.text+0xf3e5): undefined reference to `ncmpi_strerror'
ptraj.c:(.text+0xf444): undefined reference to `ncmpi_put_vara_double'
ptraj.c:(.text+0xf457): undefined reference to `ncmpi_strerror'
ptraj.c:(.text+0xf494): undefined reference to `ncmpi_sync'
collect2: error: ld returned 1 exit status
make: *** [rdparm] Error 1
[install@lionxv ptraj]$