Merge pull request #122 from stanweer1/master

Unit test for P-bif and fzz, additional option to plot unfiltered PD in fzz, fixed typo in fzz
TeaspoonTDA · Jul 30, 2024 · b1af29d · b1af29d
2 parents 6b9ed64 + fd299a9
commit b1af29d
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Showing 19 changed files with 395 additions and 168 deletions.
diff --git a/.gitignore b/.gitignore
@@ -143,4 +143,6 @@ cython_debug/
 .teaspoonData
 
 # DS_Store
+
+.idea
 */.DS_Store
diff --git a/doc_source/persistence.rst b/doc_source/persistence.rst
@@ -1,8 +1,6 @@
 Persistence
 ============
 
-.. automodule:: teaspoon.TDA.Persistence
-   :members: minPers, maxPers, maxBirth, minBirth, minPersistenceSeries, maxPersistenceSeries, minBirthSeries, maxBirthSeries, removeInfiniteClasses, BettiCurve, CROCKER
 
 The following example computes the minimum and maximum birth times, as well as the maximum persistence::
 
@@ -83,3 +81,8 @@ The following example computes the CROCKER plot for a set of persistence diagram
 
   Crocker = CROCKER(DGMS, 3, 5, plotting=False)
 
+Functions
+---------
+
+.. automodule:: teaspoon.TDA.Persistence
+   :members: minPers, maxPers, maxBirth, minBirth, minPersistenceSeries, maxPersistenceSeries, minBirthSeries, maxBirthSeries, removeInfiniteClasses, BettiCurve, CROCKER, CROCKER_Stack
diff --git a/docs/_modules/teaspoon/TDA/Persistence.html b/docs/_modules/teaspoon/TDA/Persistence.html
diff --git a/docs/_sources/persistence.rst.txt b/docs/_sources/persistence.rst.txt
@@ -1,8 +1,6 @@
 Persistence
 ============
 
-.. automodule:: teaspoon.TDA.Persistence
-   :members: minPers, maxPers, maxBirth, minBirth, minPersistenceSeries, maxPersistenceSeries, minBirthSeries, maxBirthSeries, removeInfiniteClasses, BettiCurve, CROCKER
 
 The following example computes the minimum and maximum birth times, as well as the maximum persistence::
 
@@ -83,3 +81,8 @@ The following example computes the CROCKER plot for a set of persistence diagram
 
   Crocker = CROCKER(DGMS, 3, 5, plotting=False)
 
+Functions
+---------
+
+.. automodule:: teaspoon.TDA.Persistence
+   :members: minPers, maxPers, maxBirth, minBirth, minPersistenceSeries, maxPersistenceSeries, minBirthSeries, maxBirthSeries, removeInfiniteClasses, BettiCurve, CROCKER, CROCKER_Stack
diff --git a/docs/doctrees/environment.pickle b/docs/doctrees/environment.pickle
diff --git a/docs/doctrees/fast_zigzag.doctree b/docs/doctrees/fast_zigzag.doctree
diff --git a/docs/doctrees/persistence.doctree b/docs/doctrees/persistence.doctree
diff --git a/docs/doctrees/stoch_bif.doctree b/docs/doctrees/stoch_bif.doctree
diff --git a/docs/genindex.html b/docs/genindex.html
@@ -209,6 +209,8 @@ <h2 id="C">C</h2>
   </ul></td>
   <td style="width: 33%; vertical-align: top;"><ul>
       <li><a href="persistence.html#teaspoon.TDA.Persistence.CROCKER">CROCKER() (in module teaspoon.TDA.Persistence)</a>
+</li>
+      <li><a href="persistence.html#teaspoon.TDA.Persistence.CROCKER_Stack">CROCKER_Stack() (in module teaspoon.TDA.Persistence)</a>
 </li>
       <li><a href="PointCloud.html#teaspoon.MakeData.PointCloud.Cube">Cube() (in module teaspoon.MakeData.PointCloud)</a>
 </li>

diff --git a/docs/index.html b/docs/index.html
@@ -230,17 +230,7 @@ <h2>Table of Contents<a class="headerlink" href="#table-of-contents" title="Link
 </ul>
 </li>
 <li class="toctree-l3"><a class="reference internal" href="persistence.html">2.3.4. Persistence</a><ul>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.BettiCurve"><code class="docutils literal notranslate"><span class="pre">BettiCurve()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.CROCKER"><code class="docutils literal notranslate"><span class="pre">CROCKER()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.maxBirth"><code class="docutils literal notranslate"><span class="pre">maxBirth()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.maxBirthSeries"><code class="docutils literal notranslate"><span class="pre">maxBirthSeries()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.maxPers"><code class="docutils literal notranslate"><span class="pre">maxPers()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.maxPersistenceSeries"><code class="docutils literal notranslate"><span class="pre">maxPersistenceSeries()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.minBirth"><code class="docutils literal notranslate"><span class="pre">minBirth()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.minBirthSeries"><code class="docutils literal notranslate"><span class="pre">minBirthSeries()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.minPers"><code class="docutils literal notranslate"><span class="pre">minPers()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.minPersistenceSeries"><code class="docutils literal notranslate"><span class="pre">minPersistenceSeries()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="persistence.html#teaspoon.TDA.Persistence.removeInfiniteClasses"><code class="docutils literal notranslate"><span class="pre">removeInfiniteClasses()</span></code></a></li>
+<li class="toctree-l4"><a class="reference internal" href="persistence.html#module-teaspoon.TDA.Persistence">2.3.4.1. Functions</a></li>
 </ul>
 </li>
 <li class="toctree-l3"><a class="reference internal" href="sublevel_set_persistence.html">2.3.5. Zero Dimensional Sublevel Set Persistence (SLSP) Module</a><ul>

diff --git a/docs/objects.inv b/docs/objects.inv