Update changelog

CHANGELOG.md

@@ -1,52 +1,44 @@
-Changes
-=======
-
-1.4 (Jun 30 2023)
------------------
-
-* WISP now throws a more user-friendly error when it can't find a given atom in
-  a given residue (e.g., when trying to calculate paths using CA, but some
-  residues do not have CA atoms).
-* Other minor stylistic updates the the code.
-
-1.3
----
-
-* Minor updates to deal with PDB files that have both ENDMDL and END tags.
-* Formatting improvements to `README.md`.
-* Changed development-branch name to `main`.
-
-1.2
----
-
-* Reformatted code with [Black Formatter](https://github.com/psf/black).
-* Updated email in copyright header.
-* Updated `contact_map_distance_limit` to 4.5 in example scripts, help
-  descriptions, etc., to avoid confusion (given new default, see version 1.1
-  changes).
-* Added download and citation information to the standard output.
-* Investigated Python2/3 differences. In brief, we recently noticed that WISP
-  gives slightly different output when running under Python2 (numpy 1.16.0,
-  networkx 2.2, scipy 1.2.0) vs. Python3 (numpy 1.17.4, networkx 2.2, scipy
-  1.3.1). We believe [differences in the two numpy versions are
-  responsible](https://numpy.org/doc/stable/release/1.17.0-notes.html#float16-subnormal-rounding),
-  though it is possible that similar differences may arise when running on
-  different operating systems, etc. Regardless, the top-ranked paths are the
-  same, but lower-ranked paths sometimes aren't. After some investigation and
-  test updates to the code, we now believe subtle rounding-error differences
-  to be the cause. For consistency's sake, we recommend using the same
-  Python/OS/dependencies when comparing multiple WISP analyses.
-
-1.1
----
-
-* Changed the default `contact_map_distance_limit` to 4.5 so `wisp.py` now
-  matches `Wisp.tcl`.
-* Updated the `README.md` file.
-* Ensured Python2/3 compatibility.
-* Modernized/cleaned up the code.
-
-1.0
----
-
-* The original version.
+# Changelog
+
+The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.1.0/), and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
+
+## [Unreleased]
+
+### Changed
+
+- Modularized code and set up for deploying to PyPI.
+
+## [1.4.0] - 2023-06-30
+
+- WISP now throws a more user-friendly error when it can't find a given atom in a given residue (e.g., when trying to calculate paths using CA, but some residues do not have CA atoms).
+- Other minor stylistic updates the the code.
+
+## [1.3.0]
+
+- Minor updates to deal with PDB files that have both ENDMDL and END tags.
+- Formatting improvements to `README.md`.
+- Changed development-branch name to `main`.
+
+## [1.2.0]
+
+- Reformatted code with [Black Formatter](https://github.com/psf/black).
+- Updated email in copyright header.
+- Updated `contact_map_distance_limit` to 4.5 in example scripts, help descriptions, etc., to avoid confusion (given new default, see version 1.1 changes).
+- Added download and citation information to the standard output.
+- Investigated Python2/3 differences.
+  In brief, we recently noticed that WISP gives slightly different output when running under Python2 (numpy 1.16.0, networkx 2.2, scipy 1.2.0) vs. Python3 (numpy 1.17.4, networkx 2.2, scipy 1.3.1).
+  We believe [differences in the two numpy versions are responsible](https://numpy.org/doc/stable/release/1.17.0-notes.html#float16-subnormal-rounding), though it is possible that similar differences may arise when running on different operating systems, etc.
+  Regardless, the top-ranked paths are the same, but lower-ranked paths sometimes aren't.
+  After some investigation and test updates to the code, we now believe subtle rounding-error differences to be the cause.
+  For consistency's sake, we recommend using the same Python/OS/dependencies when comparing multiple WISP analyses.
+
+## [1.1.0]
+
+- Changed the default `contact_map_distance_limit` to 4.5 so `wisp.py` now matches `Wisp.tcl`.
+- Updated the `README.md` file.
+- Ensured Python2/3 compatibility.
+- Modernized/cleaned up the code.
+
+## [1.0.0]
+
+- The original version.