jaimergp

#!/usr/bin/env python
# encoding: utf-8

# get used to importing this in your Py27 projects!
from __future__ import print_function, division 
import chimera.extension

"""
This is the file that Chimera searches for to load new extensions
at runtime. Normally, you will only need to edit:

jaimergp

jaimergp

jaimergp

#!/usr/bin/env python
# -*- coding: utf-8 -*-

from __future__ import print_function
import pychimera
import os
# os.environ['CHIMERADIR'] = '/path/to/headless/chimera'
pychimera.patch_environ()
pychimera.enable_chimera()

jaimergp

#!/usr/bin/env python

import os
from shutil import copy
from pprint import pprint

path = os.path.expanduser("~/.chimera/preferences")
copy(path, path + ".bak")  # just in case
with open(path) as f:
    data = f.read()

jaimergp

jaimergp

#!/usr/bin/env python
# encoding: utf-8

"""
Download your entire Fotolog to disk, comments included
@jaimergp, 2016

Dependencies: requests, beautifulsoup4
"""

jaimergp

# Autocompletions for conda commands
# Place this file in ~./config/fish/completions/

# Original implementations, but slow
# function __fish_conda_commands
#   command conda help | awk '/^    \S/ {print $1}'
# end
# function __fish_conda_envs
#   command conda env list | awk 'NR > 2 {print $1}'
# end

jaimergp

jaimergp

######################################################################
### Center multi-unit protein in pbc box with VMD
### Make sure you are in first frame of MD
######################################################################

# Join separate units for this first frame only
pbc join connected -now
pbc join residue -now

# Join the protein for all MD