Cleanup open source force spectroscopy markup.

diff --git a/posts/Open_source_force_spectroscopy.mdwn b/posts/Open_source_force_spectroscopy.mdwn
index 7987ea30b6d0c601b648860208922fa7fd7f41d1..99c10f525836003ca12796672296a4bdbd35b049 100644 (file)
--- a/posts/Open_source_force_spectroscopy.mdwn
+++ b/posts/Open_source_force_spectroscopy.mdwn
@@ -1,16 +1,24 @@
 There are a number of open source packages dealing with aspects of
-single-molecule force spectroscopy.  Here's a list of everything I've
-heard about to date.
-
-=============  ===========  ======================================================
-Package        License      Purpose
-=============  ===========  ======================================================
-[[calibcant]]  GPL v3+      Cantilever thermal calibration
-[fs_kit][]     GPL v2+      Force spectra analysis pattern recognition
-[Hooke][]      LGPL v3+     Force spectra analysis and unfolding force extraction
-[[sawsim]]     GPL v3+      Monte Carlo unfolding/refolding simulation and fitting
-[refolding][]  Apache v2.0  Double-pulse experiment control and analysis
-=============  ===========  ======================================================
+[[single-molecule force spectroscopy|force_spectroscopy]].  Here's a
+list of everything I've heard about to date.
+
+<table>
+       <thead>
+    <tr><th>Package</th><th>License</th><th>Purpose</th></tr>
+  </thead>
+  <tbody>
+    <tr><td>calibcant</td><td>GPL v3+</td>
+        <td>Cantilever thermal calibration</td></tr>
+    <tr><td>fs_kit</td><td>GPL v2+</td>
+        <td>Force spectra analysis pattern recognition</td></tr>
+    <tr><td>Hooke</td><td>LGPL v3+</td>
+        <td>Force spectra analysis and unfolding force extraction</td></tr>
+    <tr><td>sawsim</td><td>GPL v3+</td>
+        <td>Monte Carlo unfolding/refolding simulation and fitting</td></tr>
+    <tr><td>refolding</td><td>Apache v2.0</td>
+        <td>Double-pulse experiment control and analysis</td></tr>
+  </tbody>
+</table>
 
 calibcant
 =========
@@ -27,7 +35,7 @@ fs_kit
 
 [fs_kit][] is a package for force spectra analysis pattern
 recognition.  It was developed by Michael Kuhn and Maurice Hubain at
-Daniel Müller's lab when they were at TU~Dresden
+Daniel Müller's lab when they were at TU Dresden
 ([paper][fs_kit_paper]).  It has an [[Igor]] interface, but the bulk
 of the project is in [[C++]] with a [wxWidgets][] interface.  fs_kit
 is versioned in CVS at `bioinformatics.org`, and you can check out
@@ -38,7 +46,8 @@ their code with:
 The last commit was on 2005/05/16, so it's a bit crusty.  I patched
 things up back in 2008 so it would compile again,
 
-[[!inline pages="./Open_source_force_spectroscopy/*.patch" archive=yes quick=yes]]
+[[!inline pages="./Open_source_force_spectroscopy/*.patch"
+  sort="title" archive=yes quick=yes]]
 
 but when I emailed Michael with the patches I got this:
 
@@ -53,16 +62,16 @@ but when I emailed Michael with the patches I got this:
 
 So, it's a bit of a fixer-upper, but it was the first open source
 package in this field that I know of.  I've put up a [[PDF
-version|fs_kit_tutorial]] of the tutorial Michael sent me in case
+version|fs_kit_tutorial.pdf]] of the tutorial Michael sent me in case
 you're interested.
 
 Hooke
 =====
 
-[Hooke][] is a [[force spectroscopy]] data analysis package written in
+[Hooke][] is a force spectroscopy data analysis package written in
 [[Python]].  It was initially developed by Massimo Sandal, Fabrizio
 Benedetti, Marco Brucale, Alberto Gomez-Casado while at Bruno Samorì's
-lab at U~Bologna ([paper][hooke_paper].  Suprisingly, there are
+lab at U Bologna ([paper][hooke_paper]; surprisingly, there are
 commits by all of the authors except Samorì himself).  Hooke provides
 the interface between your raw data and theory.  It has a drivers for
 reading most force spectroscopy file formats, and a large number of