Thank you, sir, for your reply. I have followed your command now I stuck in :
Reading input from STDIN...
>
Thanks and Regards,
Saikat Pal
On Thursday, 4 October, 2018, 7:50:13 PM IST, Matias Machado <mmachado.pasteur.edu.uy> wrote:
Dear Saikat,
Have you source the file $AMBERHOME/amber.sh or $AMBERHOME/amber.csh before executing parmed?
Best,
Matias
PD: I think this is the top recurrent issue in the mailing list...
------------------------------------
PhD.
Researcher at Biomolecular Simulations Lab.
Institut Pasteur de Montevideo | Uruguay
[
http://pasteur.uy/en/laboratorios-eng/lsbm]
[
http://www.sirahff.com]
----- Mensaje original -----
De: "Saikat Pal" <saikatpaliitg.yahoo.com>
Para: "AMBER Mailing List" <amber.ambermd.org>
Enviados: Jueves, 4 de Octubre 2018 8:37:46
Asunto: [AMBER] Amber to gromacs topology
I want to convert amber topology to gromacs topology. So I have tried using parmed but it fails. Here is the command i have used:/home/saikat/softwares/AMBER/amber18/bin/parmed -p 148d-wat-0-reduce-oct.prmtop -c 148d-wat-0-reduce-oct.inpcrd
Error shows:
Traceback (most recent call last):
File "/home/saikat/softwares/AMBER/amber18/bin/parmed", line 6, in <module>
from pkg_resources import load_entry_point
File "/home/saikat/softwares/AMBER/amber18/miniconda/lib/python2.7/site-packages/setuptools-27.2.0-py2.7.egg/pkg_resources/__init__.py", line 2985, in <module>
File "/home/saikat/softwares/AMBER/amber18/miniconda/lib/python2.7/site-packages/setuptools-27.2.0-py2.7.egg/pkg_resources/__init__.py", line 2971, in _call_aside
File "/home/saikat/softwares/AMBER/amber18/miniconda/lib/python2.7/site-packages/setuptools-27.2.0-py2.7.egg/pkg_resources/__init__.py", line 2998, in _initialize_master_working_set
File "/home/saikat/softwares/AMBER/amber18/miniconda/lib/python2.7/site-packages/setuptools-27.2.0-py2.7.egg/pkg_resources/__init__.py", line 662, in _build_master
File "/home/saikat/softwares/AMBER/amber18/miniconda/lib/python2.7/site-packages/setuptools-27.2.0-py2.7.egg/pkg_resources/__init__.py", line 675, in _build_from_requirements
File "/home/saikat/softwares/AMBER/amber18/miniconda/lib/python2.7/site-packages/setuptools-27.2.0-py2.7.egg/pkg_resources/__init__.py", line 854, in resolve
pkg_resources.DistributionNotFound: The 'ParmEd==3.0.0+57.g74a84d30' distribution was not found and is required by the application
Thanks and Regards,
Saikat Pal
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Received on Thu Oct 04 2018 - 08:00:03 PDT
