Skip to content

Commit

Permalink
Minor format changes in gbonc_autocorrel doc
Browse files Browse the repository at this point in the history
  • Loading branch information
jbarnoud committed Jul 22, 2016
1 parent 66f8c8a commit 57004c3
Showing 1 changed file with 6 additions and 4 deletions.
10 changes: 6 additions & 4 deletions package/MDAnalysis/analysis/hbonds/hbond_autocorrel.py
Original file line number Diff line number Diff line change
Expand Up @@ -32,7 +32,8 @@
then the lifetime of these bonds is monitored over time. Multiple passes
through the trajectory are used to build an average of the behaviour.
:math:`C_x(t) = \\left \\langle \\frac{h_{ij}(t_0) h_{ij}(t_0 + t)}{h_{ij}(t_0)^2} \\right\\rangle`
.. math::
C_x(t) = \\left \\langle \\frac{h_{ij}(t_0) h_{ij}(t_0 + t)}{h_{ij}(t_0)^2} \\right\\rangle
The subscript :math:`x` refers to the definition of lifetime being used, either
continuous or intermittent. The continuous definition measures the time that
Expand All @@ -41,7 +42,8 @@
be counted again. The relevent lifetime, :math:`\\tau_x`, can then be found
via integration of this function
:math:`\\tau_x = \\int_0^\\infty C_x(t) dt`
.. math::
\\tau_x = \\int_0^\\infty C_x(t) dt`
For this, the observed behaviour is fitted to a multi exponential function,
using 2 exponents for the continuous lifetime and 3 for the intermittent
Expand Down Expand Up @@ -277,8 +279,8 @@ def _slice_traj(self, sample_time):
def run(self, force=False):
"""Run all the required passes
Parameters:
-----------
Parameters
----------
force : bool, optional
Will overwrite previous results if they exist
"""
Expand Down

0 comments on commit 57004c3

Please sign in to comment.