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<h3>

Alexandre Mestiashvili pushed to branch upstream

at <a href="https://salsa.debian.org/med-team/pycorrfit">Debian Med / pycorrfit</a>

</h3>

<h4>

Commits:

</h4>

<ul>

<li>

<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/a26dafc8c0c5601591761217cafa70096b25e962">a26dafc8</a></strong>

<div>

<span>by Alexandre Mestiashvili</span>

<i>at 2018-09-26T11:13:34Z</i>

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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.1.4+dfsg</pre>

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<h4>7 changed files:</h4>

<ul>

<li class="file-stats">

<a href="#1c497fbb3a46b78edf04cc2a2fa33f67e3ffbe2a">

CHANGELOG

</a>

</li>

<li class="file-stats">

<a href="#561b88e19de321ca62c7590bbb350765fb110905">

README.rst

</a>

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<a href="#254a2da7a740675e537439eb88e32083b9ea4771">

docs/conf.py

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<a href="#a1eb4f1c2cf77c35445baef1f2218a82e46ca728">

docs/extensions/github_changelog.py

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<li class="file-stats">

<a href="#99782a7ca02e701843952476a0cf1dfb4cccc59b">

docs/sec_about.rst

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<li class="file-stats">

<a href="#1ce7a7561b518f4b2fc5dcc91ef54e036685afea">

docs/sec_getting_started.rst

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<a href="#0f19a08c88e9ad980ff8aba895fd5f38823795dd">

pycorrfit/fit.py

</a>

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<h4>Changes:</h4>

<li id="1c497fbb3a46b78edf04cc2a2fa33f67e3ffbe2a">

<a href="https://salsa.debian.org/med-team/pycorrfit/commit/a26dafc8c0c5601591761217cafa70096b25e962#1c497fbb3a46b78edf04cc2a2fa33f67e3ffbe2a"><strong>CHANGELOG</strong></a>

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1

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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">1.1.2</span>

</pre>

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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"> - ci: Automated release to PyPI with appveyor and travis-ci</span>

</pre>

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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> - fix: support lmfit >= 0.9.11</span>

</pre>

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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">1.1.1</span>

</pre>

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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> - Fix plotting error with LaTeX (thanks @toubol) (#179)</span>

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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"> - Update documentation</span>

</pre>

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<br>

</li>

<li id="561b88e19de321ca62c7590bbb350765fb110905">

<a href="https://salsa.debian.org/med-team/pycorrfit/commit/a26dafc8c0c5601591761217cafa70096b25e962#561b88e19de321ca62c7590bbb350765fb110905"><strong>README.rst</strong></a>

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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">|PyCorrFit|</span>

</pre>

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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">===========</span>

</pre>

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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext">|PyPI Version| |Build Status Win| |Build Status Travis| |Coverage Status|</span>

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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">|PyPI Version| |Build Status Win| |Build Status Travis| |Coverage Status|<span class="idiff left right"> |Docs Status|</span></span>

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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"></span>

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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">Documentation</span>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="25" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>

<td class="diff-line-num unfold js-unfold new_line" data-linenumber="25" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>

<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -25,3 +25,5 @@ at the `issues page <https://github.com/FCS-analysis/PyCorrFit/wiki/Creating-a-n</td>

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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext">   :target: https://travis-ci.org/FCS-analysis/PyCorrFit</span>

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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext">.. |Coverage Status| image:: https://img.shields.io/codecov/c/github/FCS-analysis/PyCorrFit/master.svg</span>

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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext">   :target: https://codecov.io/gh/FCS-analysis/PyCorrFit</span>

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<pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext">.. |Docs Status| image:: https://readthedocs.org/projects/pycorrfit/badge/?version=latest</span>

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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext">   :target: https://readthedocs.org/projects/pycorrfit/builds/</span></pre>

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</li>

<li id="254a2da7a740675e537439eb88e32083b9ea4771">

<a href="https://salsa.debian.org/med-team/pycorrfit/commit/a26dafc8c0c5601591761217cafa70096b25e962#254a2da7a740675e537439eb88e32083b9ea4771"><strong>docs/conf.py</strong></a>

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<pre style="margin: 0;"> <span id="LC81" class="line" lang="python"></span>

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<pre style="margin: 0;"> <span id="LC82" class="line" lang="python"><span class="c" style="color: #998; font-style: italic;"># General information about the project.</span></span>

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<pre style="margin: 0;"> <span id="LC83" class="line" lang="python"><span class="n" style="color: #333;">project</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'PyCorrFit'</span></span>

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<pre style="margin: 0;">+<span id="LC84" class="line" lang="python"><span class="n" style="color: #333;">github_project</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'FCS-analysis/'</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">project</span></span>

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<pre style="margin: 0;"> <span id="LC85" class="line" lang="python"><span class="n" style="color: #333;">copyright</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'2014, Paul Müller'</span></span>

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<pre style="margin: 0;"> <span id="LC86" class="line" lang="python"><span class="n" style="color: #333;">author</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'Paul Müller'</span></span>

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<pre style="margin: 0;"> <span id="LC87" class="line" lang="python"></span>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="184" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>

<td class="diff-line-num unfold js-unfold new_line" data-linenumber="185" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>

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<pre style="margin: 0;"> <span id="LC185" class="line" lang="python"><span class="c" style="color: #998; font-style: italic;">#  dir menu entry, description, category)</span></span>

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<pre style="margin: 0;"> <span id="LC186" class="line" lang="python"><span class="n" style="color: #333;">texinfo_documents</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span></span>

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<pre style="margin: 0;"> <span id="LC187" class="line" lang="python">    <span class="p">(</span><span class="n" style="color: #333;">master_doc</span><span class="p">,</span> <span class="n" style="color: #333;">project</span><span class="p">,</span> <span class="n" style="color: #333;">project</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">' Documentation'</span><span class="p">,</span></span>

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<pre style="margin: 0;">-<span id="LC187" class="line" lang="python">     <span class="n" style="color: #333;">author</span><span class="p">,</span> <span class="n" style="color: #333;">project</span><span class="p">,</span> <span class="s" style="color: #d14;">'<span class="idiff left right">Phase imaging analysis software</span>.'</span><span class="p">,</span></span>

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<pre style="margin: 0;">+<span id="LC188" class="line" lang="python">     <span class="n" style="color: #333;">author</span><span class="p">,</span> <span class="n" style="color: #333;">project</span><span class="p">,</span> <span class="s" style="color: #d14;">'<span class="idiff left right">Curve fitting in FCS</span>.'</span><span class="p">,</span></span>

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<pre style="margin: 0;"> <span id="LC189" class="line" lang="python">     <span class="s" style="color: #d14;">'Scientific'</span><span class="p">),</span></span>

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<pre style="margin: 0;"> <span id="LC190" class="line" lang="python"><span class="p">]</span></span>

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<pre style="margin: 0;"> <span id="LC191" class="line" lang="python"></span>

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</li>

<li id="a1eb4f1c2cf77c35445baef1f2218a82e46ca728">

<a href="https://salsa.debian.org/med-team/pycorrfit/commit/a26dafc8c0c5601591761217cafa70096b25e962#a1eb4f1c2cf77c35445baef1f2218a82e46ca728"><strong>docs/extensions/github_changelog.py</strong></a>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -29,13 +29,13 @@ class IncludeDirective(Directive):</td>

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<td class="diff-line-num old_line" data-linenumber="29" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC29" class="line" lang="python"></span>

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<td class="diff-line-num old_line" data-linenumber="30" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC30" class="line" lang="python">    <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">run</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>

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<td class="diff-line-num old_line" data-linenumber="31" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<td class="diff-line-num new_line" data-linenumber="31" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC31" class="line" lang="python">        <span class="n" style="color: #333;">full_path</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">arguments</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>

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<td class="diff-line-num old old_line" data-linenumber="32" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<td class="diff-line-num new_line old" data-linenumber="32" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC32" class="line" lang="python">        <span class="n" style="color: #333;">project</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">state</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">document</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">settings</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">env</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">project</span></span>

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<td class="diff-line-num new old_line" data-linenumber="33" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<td class="diff-line-num new new_line" data-linenumber="32" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<pre style="margin: 0;">+<span id="LC32" class="line" lang="python">        <span class="n" style="color: #333;">project</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">state</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">document</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">settings</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">env</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;"><span class="idiff left right">github_</span>project</span></span>

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<td class="diff-line-num old_line" data-linenumber="33" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC33" class="line" lang="python"></span>

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<td class="diff-line-num old_line" data-linenumber="34" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<td class="diff-line-num new_line" data-linenumber="34" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC34" class="line" lang="python">        <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">insert_github_link</span><span class="p">(</span><span class="n" style="color: #333;">reobj</span><span class="p">):</span></span>

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<td class="diff-line-num old_line" data-linenumber="35" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<td class="diff-line-num new_line" data-linenumber="35" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC35" class="line" lang="python">            <span class="n" style="color: #333;">line</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">reobj</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">string</span></span>

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<td class="diff-line-num old_line" data-linenumber="36" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC36" class="line" lang="python">            <span class="n" style="color: #333;">instr</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">line</span><span class="p">[</span><span class="n" style="color: #333;">reobj</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">start</span><span class="p">():</span><span class="n" style="color: #333;">reobj</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">end</span><span class="p">()]</span></span>

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<td class="diff-line-num old_line" data-linenumber="37" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC37" class="line" lang="python">            <span class="n" style="color: #333;">issue</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">instr</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">(</span><span class="s" style="color: #d14;">"#()"</span><span class="p">)</span></span>

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<td class="diff-line-num old old_line" data-linenumber="38" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<td class="diff-line-num new_line old" data-linenumber="38" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC38" class="line" lang="python">            <span class="n" style="color: #333;">link</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"https://github.com/<span class="idiff left right">RI-imaging/</span>{}/issues/"</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">format</span><span class="p">(</span><span class="n" style="color: #333;">project</span><span class="p">)</span></span>

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<td class="diff-line-num new old_line" data-linenumber="39" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<td class="diff-line-num new new_line" data-linenumber="38" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<pre style="margin: 0;">+<span id="LC38" class="line" lang="python">            <span class="n" style="color: #333;">link</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"https://github.com/{}/issues/"</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">format</span><span class="p">(</span><span class="n" style="color: #333;">project</span><span class="p">)</span></span>

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<td class="diff-line-num new_line" data-linenumber="39" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC39" class="line" lang="python">            <span class="n" style="color: #333;">rstlink</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"(`#{issue} <{link}{issue}>`_)"</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">format</span><span class="p">(</span><span class="n" style="color: #333;">issue</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">issue</span><span class="p">,</span></span>

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<td class="diff-line-num new_line" data-linenumber="40" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC40" class="line" lang="python">                                                             <span class="n" style="color: #333;">link</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">link</span><span class="p">)</span></span>

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<td class="diff-line-num old_line" data-linenumber="41" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<td class="diff-line-num new_line" data-linenumber="41" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC41" class="line" lang="python">            <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">rstlink</span></span>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="70" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>

<td class="diff-line-num unfold js-unfold new_line" data-linenumber="70" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>

<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -70,5 +70,6 @@ class IncludeDirective(Directive):</td>

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<pre style="margin: 0;"> <span id="LC70" class="line" lang="python"></span>

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<pre style="margin: 0;"> <span id="LC71" class="line" lang="python"></span>

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<pre style="margin: 0;"> <span id="LC72" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">setup</span><span class="p">(</span><span class="n" style="color: #333;">app</span><span class="p">):</span></span>

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<td class="diff-line-num new old_line" data-linenumber="73" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<pre style="margin: 0;">+<span id="LC73" class="line" lang="python">    <span class="n" style="color: #333;">app</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">add_config_value</span><span class="p">(</span><span class="s" style="color: #d14;">'github_project'</span><span class="p">,</span> <span class="s" style="color: #d14;">"user/project"</span><span class="p">,</span> <span class="s" style="color: #d14;">'html'</span><span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC74" class="line" lang="python">    <span class="n" style="color: #333;">app</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">add_directive</span><span class="p">(</span><span class="s" style="color: #d14;">'include_changelog'</span><span class="p">,</span> <span class="n" style="color: #333;">IncludeDirective</span><span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC75" class="line" lang="python">    <span class="k" style="font-weight: 600;">return</span> <span class="p">{</span><span class="s" style="color: #d14;">'version'</span><span class="p">:</span> <span class="s" style="color: #d14;">'0.1'</span><span class="p">}</span>   <span class="c" style="color: #998; font-style: italic;"># identifies the version of our extension</span></span></pre>

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<li id="99782a7ca02e701843952476a0cf1dfb4cccc59b">

<a href="https://salsa.debian.org/med-team/pycorrfit/commit/a26dafc8c0c5601591761217cafa70096b25e962#99782a7ca02e701843952476a0cf1dfb4cccc59b"><strong>docs/sec_about.rst</strong></a>

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<pre style="margin: 0;"> <span id="LC52" class="line" lang="plaintext">Müller, P., Schwille, P., and Weidemann, T.</span>

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<pre style="margin: 0;"> <span id="LC53" class="line" lang="plaintext">*PyCorrFit - generic data evaluation for fluorescence correlation spectroscopy.*</span>

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<pre style="margin: 0;"> <span id="LC54" class="line" lang="plaintext">Bioinformatics 30(17):2532-2533 (2014).</span>

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<pre style="margin: 0;">-<span id="LC55" class="line" lang="plaintext"><span class="idiff left right">DOI</span>:`10.1093/bioinformatics/btu328 <http://dx.doi.org/10.1093/bioinformatics/btu328>`_</span>

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<pre style="margin: 0;">+<span id="LC55" class="line" lang="plaintext"><span class="idiff left right">doi</span>:`10.1093/bioinformatics/btu328 <http://dx.doi.org/10.1093/bioinformatics/btu328>`_</span>

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<pre style="margin: 0;"> <span id="LC56" class="line" lang="plaintext"></span></pre>

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<li id="1ce7a7561b518f4b2fc5dcc91ef54e036685afea">

<a href="https://salsa.debian.org/med-team/pycorrfit/commit/a26dafc8c0c5601591761217cafa70096b25e962#1ce7a7561b518f4b2fc5dcc91ef54e036685afea"><strong>docs/sec_getting_started.rst</strong></a>

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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"></span>

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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Installation</span>

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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">------------</span>

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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">- Installers for PyCorrFit are available at the `release page <https://github.com/FCS-analysis/PyCorrFit/releases>`_.</span>

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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">- Windows installers for PyCorrFit are available at the `release page <https://github.com/FCS-analysis/PyCorrFit/releases>`_.</span>

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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">- On Debian-based systems, install via ``apt-get install pycorrfit``.</span>

</pre>

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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">- If you have Python 3.6 installed, you may install PyCorrFit via ``pip install pycorrfit[GUI]``.</span>

</pre>

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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">  After the installation, type ``pycorrfit`` in a command shell to start PyCorrFit.</span>

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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"></span>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -12,7 +13,7 @@ Installation</td>

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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Documentation</span>

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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">-------------</span>

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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">The documentation is in the process of being transferred entirely to</span>

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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext">readthedocs.org. Currently, <span class="idiff left right">the </span>it is scattered across several</span>

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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">readthedocs.org. Currently, it is scattered across several</span>

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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">places and it is most-likely outdated:</span>

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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"></span>

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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">- Original LaTeX-based PDF file (outdated): https://github.com/FCS-analysis/PyCorrFit/wiki/PyCorrFit_doc.pdf</span>

</pre>

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<br>

</li>

<li id="0f19a08c88e9ad980ff8aba895fd5f38823795dd">

<a href="https://salsa.debian.org/med-team/pycorrfit/commit/a26dafc8c0c5601591761217cafa70096b25e962#0f19a08c88e9ad980ff8aba895fd5f38823795dd"><strong>pycorrfit/fit.py</strong></a>

<hr>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="870" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>

<td class="diff-line-num unfold js-unfold new_line" data-linenumber="870" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>

<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -870,12 +870,18 @@ class Fit(object):</td>

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<pre style="margin: 0;"> <span id="LC870" class="line" lang="python">        <span class="c" style="color: #998; font-style: italic;"># Only allow physically correct parameters</span></span>

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<pre style="margin: 0;"> <span id="LC871" class="line" lang="python">        <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fit_parm</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">check_parms</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fit_parm</span><span class="p">)</span></span>

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<td class="diff-line-num old_line" data-linenumber="872" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<td class="diff-line-num new_line" data-linenumber="872" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

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<pre style="margin: 0;"> <span id="LC872" class="line" lang="python">        <span class="c" style="color: #998; font-style: italic;"># Compute error estimates for fit (Only "Lev-Mar")</span></span>

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<pre style="margin: 0;">-<span id="LC873" class="line" lang="python">        <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fit_algorithm</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"Lev-Mar"</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">success</span><span class="p">:</span></span>

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<pre style="margin: 0;">+<span id="LC873" class="line" lang="python">        <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fit_algorithm</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"Lev-Mar"</span></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="874" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

874

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<pre style="margin: 0;">+<span id="LC874" class="line" lang="python">            <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">success</span></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="874" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

</td>

<td class="diff-line-num new new_line" data-linenumber="875" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

875

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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC875" class="line" lang="python">            <span class="c" style="color: #998; font-style: italic;"># If the covariance matrix cannot be computed in</span></span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="874" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

</td>

<td class="diff-line-num new new_line" data-linenumber="876" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

876

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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC876" class="line" lang="python">            <span class="c" style="color: #998; font-style: italic;"># - lmfit <= 0.9.10: result.covar is None</span></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="874" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

</td>

<td class="diff-line-num new new_line" data-linenumber="877" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

877

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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC877" class="line" lang="python">            <span class="c" style="color: #998; font-style: italic;"># - lmfit >= 0.9.11: result.covar is not set</span></span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="874" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

</td>

<td class="diff-line-num new new_line" data-linenumber="878" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

878

</td>

<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC878" class="line" lang="python">            <span class="ow" style="font-weight: 600;">and</span> <span class="nb" style="color: #0086b3;">hasattr</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">,</span> <span class="s" style="color: #d14;">"covar"</span><span class="p">)</span></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="874" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

</td>

<td class="diff-line-num new new_line" data-linenumber="879" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

879

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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC879" class="line" lang="python">            <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">covar</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">):</span></span>

</pre>

</td>

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<td class="diff-line-num old_line" data-linenumber="874" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

874

</td>

<td class="diff-line-num new_line" data-linenumber="880" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

880

</td>

<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC880" class="line" lang="python">            <span class="c" style="color: #998; font-style: italic;"># This is the standard way to minimize the data. Therefore,</span></span>

</pre>

</td>

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<td class="diff-line-num old_line" data-linenumber="875" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

875

</td>

<td class="diff-line-num new_line" data-linenumber="881" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

881

</td>

<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC881" class="line" lang="python">            <span class="c" style="color: #998; font-style: italic;"># we are a little bit more verbose.</span></span>

</pre>

</td>

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<td class="diff-line-num old old_line" data-linenumber="876" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

876

</td>

<td class="diff-line-num new_line old" data-linenumber="882" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC876" class="line" lang="python">            <span class="bp" style="color: #999;"><span class="idiff left">self</span></span><span class="o" style="font-weight: 600;"><span class="idiff right">.</span></span><span class="n" style="color: #333;">covar</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">covar</span></span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="877" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

</td>

<td class="diff-line-num new new_line" data-linenumber="882" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

882

</td>

<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC882" class="line" lang="python">            <span class="n" style="color: #333;">covar</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">covar</span></span>

</pre>

</td>

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<td class="diff-line-num old_line" data-linenumber="877" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

877

</td>

<td class="diff-line-num new_line" data-linenumber="883" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

883

</td>

<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC883" class="line" lang="python">            <span class="k" style="font-weight: 600;">try</span><span class="p">:</span></span>

</pre>

</td>

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<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="diff-line-num old old_line" data-linenumber="878" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

878

</td>

<td class="diff-line-num new_line old" data-linenumber="884" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC878" class="line" lang="python">                <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">parmoptim_error</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">diag</span><span class="p">(</span><span class="bp" style="color: #999;"><span class="idiff left">self</span></span><span class="o" style="font-weight: 600;"><span class="idiff right">.</span></span><span class="n" style="color: #333;">covar</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="879" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

</td>

<td class="diff-line-num new new_line" data-linenumber="884" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

884

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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC884" class="line" lang="python">                <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">parmoptim_error</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">diag</span><span class="p">(</span><span class="n" style="color: #333;">covar</span><span class="p">)</span></span>

</pre>

</td>

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<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="879" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

879

</td>

<td class="diff-line-num new_line" data-linenumber="885" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

885

</td>

<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC885" class="line" lang="python">            <span class="k" style="font-weight: 600;">except</span><span class="p">:</span></span>

</pre>

</td>

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<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="880" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

880

</td>

<td class="diff-line-num new_line" data-linenumber="886" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

886

</td>

<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC886" class="line" lang="python">                <span class="n" style="color: #333;">warnings</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">warn</span><span class="p">(</span><span class="s" style="color: #d14;">"PyCorrFit Warning: Error estimate not "</span><span class="o" style="font-weight: 600;">+</span>\</span>

</pre>

</td>

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<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="881" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

881

</td>

<td class="diff-line-num new_line" data-linenumber="887" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

887

</td>

<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC887" class="line" lang="python">                              <span class="s" style="color: #d14;">"possible, because we could not "</span><span class="o" style="font-weight: 600;">+</span>\</span>

</pre>

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