Hi
Below is the contents of AMBERHOME/bin
acdoctor cpptraj.log make_crd_hg MMPBSA.py.MPI OptC4.py resp sviol2addles cpptraj.MPI makeDIP_RST.cyana mmpbsa_py_nabnmode paramfit respgen teLeap
add_pdb database makeDIST_RST mm_pbsa_statistics.pl parmcal rism1d test.py
AddToBox elsize matextract molsurf parmchk rism3d.snglpnt tinker_to_amber
am1bcc espgen matgen mpinab parmchk2 sander tleap
amber.csh exceptions.py matmerge mpinab2c parmed.py sander.LES transform
amber.sh exceptions.pyc matmul MTKppConstants pbsa sander.LES.MPI translate
ambmask fantasian MCPB nab pdb4amber sander.MPI tss_init
ambpdb FEW.pl MCPB.py nab2c pdbSearcher saxs tss_main
antechamber ffgbsa mdgx nc-config PdbSearcher.py saxs_md tss_next
ante-MMPBSA.py fftw-wisdom mdgx.MPI nccopy prep2xml senergy ucpp
atomtype fftw-wisdom-to-conf mdnab ncdump prepgen sequenceAligner UnitCell
bondtype fix_new_inpcrd_vel mdout2pymbar.pl ncgen process_mdout.perl sgldinfo.sh xaLeap
capActiveSite frcmod2xml mdout_analyzer.py ncgen3 process_minout.perl sgldwt.sh xleap
charmmgen func minab nef_to_RST PropPDB softcore_setup.py xparmed.py
charmmlipid2amber.py gbnsr6 mmE new2oldparm protonator sqm yacc
ChBox hcp_getpdb mm_pbsa_nabnmode new_crd_to_dyn pymdpbsa stats
cphstats hybrid mm_pbsa.pl new_to_old_crd pytleap stdLib2Sdf
cpinutil.py makeANG_RST MMPBSA.py nf-config reduce superimposer
cpptraj makeCHIR_RST mmpbsa_py_energy nmode residuegen sviol
ls $AMBERHOME/lib/python*/site-packages/
argparse.py chemistry compat24.pyc fortranformat mcpb MMPBSA_mods ParmedTools pymsmtexp.pyc pymsmtmol sanderles
argparse.pyc compat24.py cpinutils interface mdoutanalyzer mpi4py pymsmtexp.py pymsmtlib sander
Version of Python
Python 2.4.3
ThanksBerk
On Thursday, May 7, 2015 4:47 AM, Jason Swails <jason.swails.gmail.com> wrote:
On Wed, May 6, 2015 at 5:06 PM, Ramin Ekhteiari <ramin_ekh.yahoo.com> wrote:
> I have addressed "the path of AMBERHOME" by export
> AMBERHOME=/RS/users/myurtsever/stbknm/amber12/amber15tools/amber14
> and have sourced the amber.sh (source
> /RS/users/myurtsever/stbknm/amber12/amber15tools/amber14/amber.sh)
> But the same problem has been appeared.
>
What are the contents of $AMBERHOME/bin? (Type "ls $AMBERHOME/bin" and
print the contents here).
Also, what are the results of the following commands:
python --version
echo $PYTHONPATH
ls $AMBERHOME/lib/python*/site-packages/
python -m MMPBSA_mods
>
> Interestingly on this system I use ambertools 13 and it works well, but I
> do not know why the new version (15) does not.
>
The location where Python modules are stored was changed from
$AMBERHOME/bin to $AMBERHOME/lib/pythonX.X/site-packages, and the amber.sh
file appropriately updates your environment for this change.
HTH,
Jason
--
Jason M. Swails
BioMaPS,
Rutgers University
Postdoctoral Researcher
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Received on Thu May 07 2015 - 00:00:03 PDT
