Deploy PR #95 preview [skip ci]

Author: github-actions[bot]

pr-95/API.html

@@ -30,7 +30,7 @@
   <link href="_static/styles/theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 <link href="_static/styles/pydata-sphinx-theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 
-    <link rel="stylesheet" type="text/css" href="_static/pygments.css?v=fa44fd50" />
+    <link rel="stylesheet" type="text/css" href="_static/pygments.css?v=03e43079" />
     <link rel="stylesheet" type="text/css" href="_static/copybutton.css?v=76b2166b" />
     <link rel="stylesheet" type="text/css" href="_static/custom.css?v=9b4a1398" />
     <link rel="stylesheet" type="text/css" href="_static/sg_gallery.css?v=d2d258e8" />

pr-95/Data Formatting/Data Formatting.html

@@ -30,7 +30,7 @@
   <link href="../_static/styles/theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 <link href="../_static/styles/pydata-sphinx-theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 
-    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=fa44fd50" />
+    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=03e43079" />
     <link rel="stylesheet" type="text/css" href="../_static/copybutton.css?v=76b2166b" />
     <link rel="stylesheet" type="text/css" href="../_static/custom.css?v=9b4a1398" />
     <link rel="stylesheet" type="text/css" href="../_static/sg_gallery.css?v=d2d258e8" />

pr-95/Data Formatting/alphatims.html

@@ -30,7 +30,7 @@
   <link href="../_static/styles/theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 <link href="../_static/styles/pydata-sphinx-theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 
-    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=fa44fd50" />
+    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=03e43079" />
     <link rel="stylesheet" type="text/css" href="../_static/copybutton.css?v=76b2166b" />
     <link rel="stylesheet" type="text/css" href="../_static/custom.css?v=9b4a1398" />
     <link rel="stylesheet" type="text/css" href="../_static/sg_gallery.css?v=d2d258e8" />
@@ -510,9 +510,9 @@ <h2>Download test data<a class="headerlink" href="#Download-test-data" title="Li
 <div class="prompt highlight-none notranslate"><div class="highlight"><pre><span></span>[2]:
 </pre></div>
 </div>
-<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">requests</span>
-<span class="kn">import</span> <span class="nn">zipfile</span>
-<span class="kn">import</span> <span class="nn">os</span>
+<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span><span class="w"> </span><span class="nn">requests</span>
+<span class="kn">import</span><span class="w"> </span><span class="nn">zipfile</span>
+<span class="kn">import</span><span class="w"> </span><span class="nn">os</span>
 
 <span class="c1"># # Define the URL and file name</span>
 <span class="n">url</span> <span class="o">=</span> <span class="s1">&#39;https://github.com/MannLabs/alphatims/releases/download/0.1.210317/20201207_tims03_Evo03_PS_SA_HeLa_200ng_EvoSep_prot_DDA_21min_8cm_S1-C10_1_22476.d.zip&#39;</span>
@@ -555,7 +555,7 @@ <h2>Load <code class="docutils literal notranslate"><span class="pre">.d</span><
 <div class="prompt highlight-none notranslate"><div class="highlight"><pre><span></span>[9]:
 </pre></div>
 </div>
-<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">alphatims.bruker</span>
+<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span><span class="w"> </span><span class="nn">alphatims.bruker</span>
 
 <span class="n">bruker_dia_d_folder_name</span> <span class="o">=</span> <span class="s2">&quot;./20201207_tims03_Evo03_PS_SA_HeLa_200ng_EvoSep_prot_DDA_21min_8cm_S1-C10_1_22476.d&quot;</span>
 <span class="n">dda_data</span> <span class="o">=</span> <span class="n">alphatims</span><span class="o">.</span><span class="n">bruker</span><span class="o">.</span><span class="n">TimsTOF</span><span class="p">(</span><span class="n">bruker_dia_d_folder_name</span><span class="p">)</span>

pr-95/Data Formatting/pymzml.html

@@ -30,7 +30,7 @@
   <link href="../_static/styles/theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 <link href="../_static/styles/pydata-sphinx-theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 
-    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=fa44fd50" />
+    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=03e43079" />
     <link rel="stylesheet" type="text/css" href="../_static/copybutton.css?v=76b2166b" />
     <link rel="stylesheet" type="text/css" href="../_static/custom.css?v=9b4a1398" />
     <link rel="stylesheet" type="text/css" href="../_static/sg_gallery.css?v=d2d258e8" />
@@ -507,8 +507,8 @@ <h2>Install pymzml<a class="headerlink" href="#Install-pymzml" title="Link to th
 <div class="prompt highlight-none notranslate"><div class="highlight"><pre><span></span>[2]:
 </pre></div>
 </div>
-<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">pandas</span> <span class="k">as</span> <span class="nn">pd</span>
-<span class="kn">import</span> <span class="nn">pymzml</span>
+<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span><span class="w"> </span><span class="nn">pandas</span><span class="w"> </span><span class="k">as</span><span class="w"> </span><span class="nn">pd</span>
+<span class="kn">import</span><span class="w"> </span><span class="nn">pymzml</span>
 </pre></div>
 </div>
 </div>
@@ -520,7 +520,7 @@ <h2>Download the test file<a class="headerlink" href="#Download-the-test-file" t
 </pre></div>
 </div>
 <div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="c1"># # Download test file</span>
-<span class="kn">import</span> <span class="nn">requests</span>
+<span class="kn">import</span><span class="w"> </span><span class="nn">requests</span>
 
 <span class="n">url</span> <span class="o">=</span> <span class="s1">&#39;https://raw.githubusercontent.com/levitsky/pyteomics/master/tests/test.mzML&#39;</span>
 <span class="n">file_name</span> <span class="o">=</span> <span class="s1">&#39;test.mzML&#39;</span>

pr-95/Data Formatting/pyopenms.html

@@ -30,7 +30,7 @@
   <link href="../_static/styles/theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 <link href="../_static/styles/pydata-sphinx-theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 
-    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=fa44fd50" />
+    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=03e43079" />
     <link rel="stylesheet" type="text/css" href="../_static/copybutton.css?v=76b2166b" />
     <link rel="stylesheet" type="text/css" href="../_static/custom.css?v=9b4a1398" />
     <link rel="stylesheet" type="text/css" href="../_static/sg_gallery.css?v=d2d258e8" />
@@ -507,7 +507,7 @@ <h2>Install pyopenms<a class="headerlink" href="#Install-pyopenms" title="Link t
 <div class="prompt highlight-none notranslate"><div class="highlight"><pre><span></span>[4]:
 </pre></div>
 </div>
-<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">requests</span>
+<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span><span class="w"> </span><span class="nn">requests</span>
 
 <span class="n">url</span> <span class="o">=</span> <span class="s1">&#39;https://raw.githubusercontent.com/levitsky/pyteomics/master/tests/test.mzML&#39;</span>
 <span class="n">file_name</span> <span class="o">=</span> <span class="s1">&#39;test.mzML&#39;</span>
@@ -538,7 +538,7 @@ <h2>Load <code class="docutils literal notranslate"><span class="pre">.mzML</spa
 <div class="prompt highlight-none notranslate"><div class="highlight"><pre><span></span>[8]:
 </pre></div>
 </div>
-<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">pyopenms</span> <span class="k">as</span> <span class="nn">oms</span>
+<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span><span class="w"> </span><span class="nn">pyopenms</span><span class="w"> </span><span class="k">as</span><span class="w"> </span><span class="nn">oms</span>
 <span class="n">input_file</span> <span class="o">=</span> <span class="s2">&quot;./test.mzML&quot;</span>
 
 <span class="c1"># open mzML file</span>

pr-95/Data Formatting/pyteomics.html

@@ -30,7 +30,7 @@
   <link href="../_static/styles/theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 <link href="../_static/styles/pydata-sphinx-theme.css?digest=8878045cc6db502f8baf" rel="stylesheet" />
 
-    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=fa44fd50" />
+    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=03e43079" />
     <link rel="stylesheet" type="text/css" href="../_static/copybutton.css?v=76b2166b" />
     <link rel="stylesheet" type="text/css" href="../_static/custom.css?v=9b4a1398" />
     <link rel="stylesheet" type="text/css" href="../_static/sg_gallery.css?v=d2d258e8" />
@@ -520,8 +520,8 @@ <h2>Install pyteomics<a class="headerlink" href="#Install-pyteomics" title="Link
 <div class="prompt highlight-none notranslate"><div class="highlight"><pre><span></span>[4]:
 </pre></div>
 </div>
-<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">pandas</span> <span class="k">as</span> <span class="nn">pd</span>
-<span class="kn">from</span> <span class="nn">pyteomics</span> <span class="kn">import</span> <span class="n">mzml</span>
+<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span><span class="w"> </span><span class="nn">pandas</span><span class="w"> </span><span class="k">as</span><span class="w"> </span><span class="nn">pd</span>
+<span class="kn">from</span><span class="w"> </span><span class="nn">pyteomics</span><span class="w"> </span><span class="kn">import</span> <span class="n">mzml</span>
 </pre></div>
 </div>
 </div>
@@ -532,7 +532,7 @@ <h2>Download Data<a class="headerlink" href="#Download-Data" title="Link to this
 <div class="prompt highlight-none notranslate"><div class="highlight"><pre><span></span>[2]:
 </pre></div>
 </div>
-<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">requests</span>
+<div class="input_area highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span><span class="w"> </span><span class="nn">requests</span>
 
 <span class="n">url</span> <span class="o">=</span> <span class="s1">&#39;https://raw.githubusercontent.com/levitsky/pyteomics/master/tests/test.mzML&#39;</span>
 <span class="n">file_name</span> <span class="o">=</span> <span class="s1">&#39;test.mzML&#39;</span>