Skip to content

Commit

Permalink
remove versionadded and versionchanged
Browse files Browse the repository at this point in the history
  • Loading branch information
lilyminium committed Jan 30, 2024
1 parent 2a27a93 commit 12e3f1b
Show file tree
Hide file tree
Showing 5 changed files with 0 additions and 25 deletions.
2 changes: 0 additions & 2 deletions docs/source/api.rst
Original file line number Diff line number Diff line change
Expand Up @@ -8,8 +8,6 @@ API Documentation
:Year: 2020
:Copyright: GNU Public License v3

.. versionadded:: 1.0.0

This toolkit provides an updated interface for the HOLE_ suite of tools
:cite:p:`Smart1993,Smart1996` to analyse an ion channel pore or transporter
pathway :cite:p:`Stelzl2014` as a function of time or arbitrary order
Expand Down
2 changes: 0 additions & 2 deletions mdahole2/analysis/__init__.py
Original file line number Diff line number Diff line change
Expand Up @@ -28,8 +28,6 @@
:Year: 2020
:Copyright: GNU Public License v3
.. versionadded:: 1.0.0
"""
from .hole import hole, HoleAnalysis
from .utils import create_vmd_surface
Expand Down
15 changes: 0 additions & 15 deletions mdahole2/analysis/hole.py
Original file line number Diff line number Diff line change
Expand Up @@ -210,8 +210,6 @@ def hole(pdbfile,
- HOLE is very picky and does not read all DCD-like formats [#HOLEDCD]_.
If in doubt, look into the `outfile` for error diagnostics.
.. versionadded:: 1.0
.. [#HOLEDCD] PDB files are not the only files that :program:`hole` can
read. In principle, it is also able to read CHARMM DCD
trajectories and generate a hole profile for each frame. However,
Expand Down Expand Up @@ -394,19 +392,13 @@ class HoleAnalysis(AnalysisBase):
results.sphpdbs: numpy.ndarray
Array of sphpdb filenames
.. versionadded:: 2.0.0
results.outfiles: numpy.ndarray
Arrau of output filenames
.. versionadded:: 2.0.0
results.profiles: dict
Profiles generated by HOLE2.
A dictionary of :class:`numpy.recarray`\ s, indexed by frame.
.. versionadded:: 2.0.0
sphpdbs: numpy.ndarray
Alias of :attr:`results.sphpdbs`
Expand All @@ -428,13 +420,6 @@ class HoleAnalysis(AnalysisBase):
This will be removed in MDAnalysis 3.0.0. Please use
:attr:`results.profiles` instead.
.. versionadded:: 1.0
.. versionchanged:: 2.0.0
:attr:`sphpdbs`, :attr:`outfiles` and :attr:`profiles `
are now stored in a :class:`MDAnalysis.analysis.base.Results`
instance.
"""

input_file = '{prefix}hole{i:03d}.inp'
Expand Down
2 changes: 0 additions & 2 deletions mdahole2/analysis/templates.py
Original file line number Diff line number Diff line change
Expand Up @@ -28,8 +28,6 @@
:Year: 2020
:Copyright: GNU Public License v3
.. versionadded:: 1.0
Templates used in :mod:`mdahole2.analysis.hole`
"""

Expand Down
4 changes: 0 additions & 4 deletions mdahole2/analysis/utils.py
Original file line number Diff line number Diff line change
Expand Up @@ -30,8 +30,6 @@
:Year: 2020
:Copyright: GNU Public License v3
.. versionadded:: 1.0
Helper functions used in :mod:`mdahole2.analysis.hole`
"""
import logging
Expand Down Expand Up @@ -308,8 +306,6 @@ def set_up_hole_input(pdbfile,
str
input text to run HOLE
.. versionadded:: 1.0
""".format(IGNORE_RESIDUES)
short_filename = check_and_fix_long_filename(pdbfile, tmpdir=tmpdir)
if vdwradii_file is not None:
Expand Down

0 comments on commit 12e3f1b

Please sign in to comment.