Deploying to gh-pages from @ bcab00f 🚀

_downloads/9911a4d807ac9f1a695f0aa2cf687076/coverage.xml

@@ -1,5 +1,5 @@
 <?xml version="1.0" ?>
-<coverage version="7.5.4" timestamp="1720030053467" lines-valid="1324" lines-covered="435" line-rate="0.3285" branches-covered="0" branches-valid="0" branch-rate="0" complexity="0">
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_modules/mtbp3/statlab/kappa.html

@@ -367,7 +367,6 @@ <h1>Source code for mtbp3.statlab.kappa</h1><div class="highlight"><pre>
         <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_rater</span> <span class="o">==</span> <span class="mi">2</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">y_count_sq</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">y_count_sq</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="bp">self</span><span class="o">.</span><span class="n">y_count_sq</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">y_count_sq</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
             <span class="n">categories</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">y_count_sq</span><span class="o">.</span><span class="n">columns</span>
             <span class="n">n_categories</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">categories</span><span class="p">)</span>
-            <span class="n">max_size_ratio</span> <span class="o">=</span> <span class="n">max_size_ratio</span> <span class="k">if</span> <span class="n">max_size_ratio</span> <span class="o">&gt;=</span> <span class="mi">1</span> <span class="k">else</span> <span class="nb">max</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span><span class="nb">int</span><span class="p">(</span><span class="mi">150</span> <span class="o">/</span> <span class="n">n_categories</span><span class="p">))</span>
 
             <span class="n">r1</span> <span class="o">=</span> <span class="p">[]</span> 
             <span class="n">r2</span> <span class="o">=</span> <span class="p">[]</span>
@@ -378,6 +377,7 @@ <h1>Source code for mtbp3.statlab.kappa</h1><div class="highlight"><pre>
                     <span class="n">r2</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">c2</span><span class="p">)</span>
                     <span class="n">sizes</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">y_count_sq</span><span class="o">.</span><span class="n">iloc</span><span class="p">[</span><span class="n">i1</span><span class="p">,</span> <span class="n">i2</span><span class="p">])</span>
             <span class="n">df0</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">DataFrame</span><span class="p">({</span><span class="s1">&#39;r1&#39;</span><span class="p">:</span> <span class="n">r1</span><span class="p">,</span> <span class="s1">&#39;r2&#39;</span><span class="p">:</span> <span class="n">r2</span><span class="p">,</span> <span class="s1">&#39;sizes&#39;</span><span class="p">:</span> <span class="n">sizes</span><span class="p">})</span>
+            <span class="n">max_size_ratio</span> <span class="o">=</span> <span class="n">max_size_ratio</span> <span class="k">if</span> <span class="n">max_size_ratio</span> <span class="o">&gt;=</span> <span class="mi">1</span> <span class="k">else</span> <span class="nb">max</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span><span class="nb">int</span><span class="p">((</span><span class="mi">6000</span><span class="o">/</span><span class="nb">max</span><span class="p">(</span><span class="n">sizes</span><span class="p">))</span> <span class="o">/</span> <span class="n">n_categories</span><span class="p">))</span>
             <span class="k">if</span> <span class="n">hist</span><span class="p">:</span>
                 <span class="n">sns</span><span class="o">.</span><span class="n">jointplot</span><span class="p">(</span>
                     <span class="n">data</span><span class="o">=</span><span class="n">df0</span><span class="p">,</span> <span class="n">x</span><span class="o">=</span><span class="s2">&quot;r1&quot;</span><span class="p">,</span> <span class="n">y</span><span class="o">=</span><span class="s2">&quot;r2&quot;</span><span class="p">,</span> <span class="n">kind</span><span class="o">=</span><span class="s2">&quot;scatter&quot;</span><span class="p">,</span> 

_static/reports/coverage/coverage.xml

@@ -1,5 +1,5 @@
 <?xml version="1.0" ?>
-<coverage version="7.5.4" timestamp="1720030053467" lines-valid="1324" lines-covered="435" line-rate="0.3285" branches-covered="0" branches-valid="0" branch-rate="0" complexity="0">
+<coverage version="7.5.4" timestamp="1720030465436" lines-valid="1324" lines-covered="435" line-rate="0.3285" branches-covered="0" branches-valid="0" branch-rate="0" complexity="0">
 	<!-- Generated by coverage.py: https://coverage.readthedocs.io/en/7.5.4 -->
 	<!-- Based on https://raw.githubusercontent.com/cobertura/web/master/htdocs/xml/coverage-04.dtd -->
 	<sources>
@@ -751,7 +751,7 @@
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 						<line number="270" hits="0"/>
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+						<line number="272" hits="0"/>
 						<line number="273" hits="0"/>
 						<line number="274" hits="0"/>
 						<line number="275" hits="0"/>

_static/reports/junit/junit.xml

@@ -1 +1 @@
-<?xml version="1.0" encoding="utf-8"?><testsuites><testsuite name="pytest" errors="0" failures="0" skipped="0" tests="27" time="6.720" timestamp="2024-07-03T18:07:21.925150" hostname="fv-az1532-451"><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_1df_invalid_input" time="0.002" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_1df_missing_column" time="0.001" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_1df_with_difference" time="0.005" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_1df_without_difference" time="0.002" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_2df_with_existing_column" time="0.010" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_2df_with_non_existing_column" time="0.001" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_2df_with_non_existing_group" time="0.001" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_2df_with_same_group_and_column" time="0.001" /><testcase classname="tests.test_emt.TestEmt" name="test_expected_file_lists" time="0.004" /><testcase classname="tests.test_emt.TestEmt" name="test_find_files" time="0.005" /><testcase classname="tests.test_emt.TestEmt" name="test_find_hlgt" time="0.004" /><testcase classname="tests.test_emt.TestEmt" name="test_find_hlt" time="0.004" /><testcase classname="tests.test_emt.TestEmt" name="test_find_llt" time="0.008" /><testcase classname="tests.test_emt.TestEmt" name="test_find_pt" time="0.004" /><testcase classname="tests.test_emt.TestEmt" name="test_find_pt_given_soc" time="0.006" /><testcase classname="tests.test_emt.TestEmt" name="test_find_pt_given_soc_primary_only" time="0.006" /><testcase classname="tests.test_emt.TestEmt" name="test_find_soc" time="0.004" /><testcase classname="tests.test_emt.TestEmt" name="test_list_files" time="0.026" /><testcase classname="tests.test_kappa.TestKappaCalculator" name="test_bootstrap_cohen_ci" time="0.233" /><testcase classname="tests.test_kappa.TestKappaCalculator" name="test_cohen" time="0.069" /><testcase classname="tests.test_kappa.TestKappaCalculator" name="test_fleiss_kappa" time="0.068" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_dataframe" time="0.001" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_json" time="0.001" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_list" time="0.001" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_string" time="0.000" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_tree" time="0.014" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_tree2" time="0.008" /></testsuite></testsuites>
+<?xml version="1.0" encoding="utf-8"?><testsuites><testsuite name="pytest" errors="0" failures="0" skipped="0" tests="27" time="8.566" timestamp="2024-07-03T18:14:12.115530" hostname="fv-az1240-302"><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_1df_invalid_input" time="0.002" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_1df_missing_column" time="0.001" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_1df_with_difference" time="0.005" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_1df_without_difference" time="0.002" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_2df_with_existing_column" time="0.010" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_2df_with_non_existing_column" time="0.001" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_2df_with_non_existing_group" time="0.001" /><testcase classname="tests.test_cdt.TestCdt" name="test_diff_2cols_in_2df_with_same_group_and_column" time="0.001" /><testcase classname="tests.test_emt.TestEmt" name="test_expected_file_lists" time="0.004" /><testcase classname="tests.test_emt.TestEmt" name="test_find_files" time="0.005" /><testcase classname="tests.test_emt.TestEmt" name="test_find_hlgt" time="0.004" /><testcase classname="tests.test_emt.TestEmt" name="test_find_hlt" time="0.004" /><testcase classname="tests.test_emt.TestEmt" name="test_find_llt" time="0.008" /><testcase classname="tests.test_emt.TestEmt" name="test_find_pt" time="0.004" /><testcase classname="tests.test_emt.TestEmt" name="test_find_pt_given_soc" time="0.006" /><testcase classname="tests.test_emt.TestEmt" name="test_find_pt_given_soc_primary_only" time="0.006" /><testcase classname="tests.test_emt.TestEmt" name="test_find_soc" time="0.004" /><testcase classname="tests.test_emt.TestEmt" name="test_list_files" time="0.026" /><testcase classname="tests.test_kappa.TestKappaCalculator" name="test_bootstrap_cohen_ci" time="0.229" /><testcase classname="tests.test_kappa.TestKappaCalculator" name="test_cohen" time="0.071" /><testcase classname="tests.test_kappa.TestKappaCalculator" name="test_fleiss_kappa" time="0.070" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_dataframe" time="0.001" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_json" time="0.001" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_list" time="0.001" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_string" time="0.000" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_tree" time="0.013" /><testcase classname="tests.test_lsr.TestLsrTree" name="test_list_files_tree2" time="0.008" /></testsuite></testsuites>

example_cdtg.html

@@ -115,15 +115,15 @@ <h1>U/Graph/Categorical Plots Using catPlotter<a class="headerlink" href="#u-gra
 </div>
 </div>
 <div class="cell_output docutils container">
-<div class="output stderr highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>/home/runner/.cache/pypoetry/virtualenvs/mtbp3-STzYEG9e-py3.10/lib/python3.10/site-packages/seaborn/categorical.py:3399: UserWarning: 11.1% of the points cannot be placed; you may want to decrease the size of the markers or use stripplot.
+<div class="output stderr highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>/home/runner/.cache/pypoetry/virtualenvs/mtbp3-STzYEG9e-py3.10/lib/python3.10/site-packages/seaborn/categorical.py:3399: UserWarning: 33.3% of the points cannot be placed; you may want to decrease the size of the markers or use stripplot.
   warnings.warn(msg, UserWarning)
-/home/runner/.cache/pypoetry/virtualenvs/mtbp3-STzYEG9e-py3.10/lib/python3.10/site-packages/seaborn/categorical.py:3399: UserWarning: 25.0% of the points cannot be placed; you may want to decrease the size of the markers or use stripplot.
+/home/runner/.cache/pypoetry/virtualenvs/mtbp3-STzYEG9e-py3.10/lib/python3.10/site-packages/seaborn/categorical.py:3399: UserWarning: 45.0% of the points cannot be placed; you may want to decrease the size of the markers or use stripplot.
   warnings.warn(msg, UserWarning)
-/home/runner/.cache/pypoetry/virtualenvs/mtbp3-STzYEG9e-py3.10/lib/python3.10/site-packages/seaborn/categorical.py:3399: UserWarning: 20.0% of the points cannot be placed; you may want to decrease the size of the markers or use stripplot.
+/home/runner/.cache/pypoetry/virtualenvs/mtbp3-STzYEG9e-py3.10/lib/python3.10/site-packages/seaborn/categorical.py:3399: UserWarning: 35.0% of the points cannot be placed; you may want to decrease the size of the markers or use stripplot.
   warnings.warn(msg, UserWarning)
 </pre></div>
 </div>
-<img alt="_images/5feef2e3fc6b677fabc5a9beeb3af441ca30645ef1d3e972e2d356866062aff5.png" src="_images/5feef2e3fc6b677fabc5a9beeb3af441ca30645ef1d3e972e2d356866062aff5.png" />
+<img alt="_images/c5c58431f62d04ee0efb152b9c7655a8e70ddead2a6bd7d8dd283e1089e2ad69.png" src="_images/c5c58431f62d04ee0efb152b9c7655a8e70ddead2a6bd7d8dd283e1089e2ad69.png" />
 </div>
 </div>
 <p>To create a line plot:</p>
@@ -135,7 +135,7 @@ <h1>U/Graph/Categorical Plots Using catPlotter<a class="headerlink" href="#u-gra
 </div>
 </div>
 <div class="cell_output docutils container">
-<img alt="_images/59cdc54381b086ce69ef438ca62047e0aaa214ec39d12118eb364b92e1d2a589.png" src="_images/59cdc54381b086ce69ef438ca62047e0aaa214ec39d12118eb364b92e1d2a589.png" />
+<img alt="_images/60afa482d7519de79fa51c5cfb4b8c3729187fa81d46be51d4a238411ce2126e.png" src="_images/60afa482d7519de79fa51c5cfb4b8c3729187fa81d46be51d4a238411ce2126e.png" />
 </div>
 </div>
 </section>