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<h1>All modules for which code is available</h1>
<ul><li><a href="nd2reader/common.html">nd2reader.common</a></li>
<ul><li><a href="nd2reader/artificial.html">nd2reader.artificial</a></li>
<li><a href="nd2reader/common.html">nd2reader.common</a></li>
<li><a href="nd2reader/exceptions.html">nd2reader.exceptions</a></li>
<li><a href="nd2reader/label_map.html">nd2reader.label_map</a></li>
<li><a href="nd2reader/legacy.html">nd2reader.legacy</a></li>
<li><a href="nd2reader/parser.html">nd2reader.parser</a></li>
<li><a href="nd2reader/raw_metadata.html">nd2reader.raw_metadata</a></li>
<li><a href="nd2reader/reader.html">nd2reader.reader</a></li>
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<h1>Source code for nd2reader.artificial</h1><div class="highlight"><pre>
<span></span><span class="sd">&quot;&quot;&quot;Functions to create artificial nd2 data for testing purposes</span>
<span class="sd">&quot;&quot;&quot;</span>
<span class="kn">import</span> <span class="nn">six</span>
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
<span class="kn">import</span> <span class="nn">struct</span>


<div class="viewcode-block" id="ArtificialND2"><a class="viewcode-back" href="../../nd2reader.html#nd2reader.artificial.ArtificialND2">[docs]</a><span class="k">class</span> <span class="nc">ArtificialND2</span><span class="p">(</span><span class="nb">object</span><span class="p">):</span>
<span class="sd">&quot;&quot;&quot;Artificial ND2 class (for testing purposes)</span>
<span class="sd"> &quot;&quot;&quot;</span>

<span class="k">def</span> <span class="nf">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">file</span><span class="p">):</span>
<span class="bp">self</span><span class="o">.</span><span class="n">_fh</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">file</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
<span class="bp">self</span><span class="o">.</span><span class="n">write_version</span><span class="p">()</span>

<span class="k">def</span> <span class="nf">__enter__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
<span class="k">return</span> <span class="bp">self</span>

<span class="k">def</span> <span class="nf">__exit__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">exc_type</span><span class="p">,</span> <span class="n">exc_value</span><span class="p">,</span> <span class="n">traceback</span><span class="p">):</span>
<span class="bp">self</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>

<span class="nd">@property</span>
<span class="k">def</span> <span class="nf">file_handle</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
<span class="sd">&quot;&quot;&quot;The file handle to the binary file</span>

<span class="sd"> Returns:</span>
<span class="sd"> file: the file handle</span>

<span class="sd"> &quot;&quot;&quot;</span>
<span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_fh</span>

<div class="viewcode-block" id="ArtificialND2.close"><a class="viewcode-back" href="../../nd2reader.html#nd2reader.artificial.ArtificialND2.close">[docs]</a> <span class="k">def</span> <span class="nf">close</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
<span class="sd">&quot;&quot;&quot;Correctly close the file handle</span>
<span class="sd"> &quot;&quot;&quot;</span>
<span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_fh</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
<span class="bp">self</span><span class="o">.</span><span class="n">_fh</span><span class="o">.</span><span class="n">close</span><span class="p">()</span></div>

<div class="viewcode-block" id="ArtificialND2.write_version"><a class="viewcode-back" href="../../nd2reader.html#nd2reader.artificial.ArtificialND2.write_version">[docs]</a> <span class="k">def</span> <span class="nf">write_version</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
<span class="sd">&quot;&quot;&quot;Write file header</span>
<span class="sd"> &quot;&quot;&quot;</span>
<span class="c1"># write 16 empty bytes</span>
<span class="bp">self</span><span class="o">.</span><span class="n">_fh</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="nb">bytearray</span><span class="p">(</span><span class="mi">16</span><span class="p">))</span>

<span class="c1"># write version info</span>
<span class="n">version_info</span> <span class="o">=</span> <span class="n">six</span><span class="o">.</span><span class="n">b</span><span class="p">(</span><span class="s1">&#39;ND2 FILE SIGNATURE CHUNK NAME01!Ver3.0&#39;</span><span class="p">)</span>
<span class="bp">self</span><span class="o">.</span><span class="n">_fh</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">version_info</span><span class="p">)</span></div>

<span class="nd">@staticmethod</span>
<div class="viewcode-block" id="ArtificialND2.create_label_map_bytes"><a class="viewcode-back" href="../../nd2reader.html#nd2reader.artificial.ArtificialND2.create_label_map_bytes">[docs]</a> <span class="k">def</span> <span class="nf">create_label_map_bytes</span><span class="p">():</span>
<span class="sd">&quot;&quot;&quot;Construct a binary label map</span>

<span class="sd"> Returns:</span>
<span class="sd"> tuple: (binary data, dictionary data)</span>

<span class="sd"> &quot;&quot;&quot;</span>
<span class="n">raw_text</span> <span class="o">=</span> <span class="n">six</span><span class="o">.</span><span class="n">b</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
<span class="n">labels</span> <span class="o">=</span> <span class="p">{</span>
<span class="s1">&#39;image_attributes&#39;</span><span class="p">:</span> <span class="s2">&quot;ImageAttributesLV!&quot;</span><span class="p">,</span>
<span class="s1">&#39;image_text_info&#39;</span><span class="p">:</span> <span class="s2">&quot;ImageTextInfoLV!&quot;</span><span class="p">,</span>
<span class="s1">&#39;image_metadata&#39;</span><span class="p">:</span> <span class="s2">&quot;ImageMetadataLV!&quot;</span><span class="p">,</span>
<span class="s1">&#39;image_metadata_sequence&#39;</span><span class="p">:</span> <span class="s2">&quot;ImageMetadataSeqLV|0!&quot;</span><span class="p">,</span>
<span class="s1">&#39;image_calibration&#39;</span><span class="p">:</span> <span class="s2">&quot;ImageCalibrationLV|0!&quot;</span><span class="p">,</span>
<span class="s1">&#39;x_data&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|X!&quot;</span><span class="p">,</span>
<span class="s1">&#39;y_data&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|Y!&quot;</span><span class="p">,</span>
<span class="s1">&#39;z_data&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|Z!&quot;</span><span class="p">,</span>
<span class="s1">&#39;roi_metadata&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|RoiMetadata_v1!&quot;</span><span class="p">,</span>
<span class="s1">&#39;pfs_status&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|PFS_STATUS!&quot;</span><span class="p">,</span>
<span class="s1">&#39;pfs_offset&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|PFS_OFFSET!&quot;</span><span class="p">,</span>
<span class="s1">&#39;guid&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|GUIDStore!&quot;</span><span class="p">,</span>
<span class="s1">&#39;description&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|CustomDescriptionV1_0!&quot;</span><span class="p">,</span>
<span class="s1">&#39;camera_exposure_time&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|Camera_ExposureTime1!&quot;</span><span class="p">,</span>
<span class="s1">&#39;camera_temp&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|CameraTemp1!&quot;</span><span class="p">,</span>
<span class="s1">&#39;acquisition_times&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|AcqTimesCache!&quot;</span><span class="p">,</span>
<span class="s1">&#39;acquisition_times_2&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|AcqTimes2Cache!&quot;</span><span class="p">,</span>
<span class="s1">&#39;acquisition_frames&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomData|AcqFramesCache!&quot;</span><span class="p">,</span>
<span class="s1">&#39;lut_data&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomDataVar|LUTDataV1_0!&quot;</span><span class="p">,</span>
<span class="s1">&#39;grabber_settings&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomDataVar|GrabberCameraSettingsV1_0!&quot;</span><span class="p">,</span>
<span class="s1">&#39;custom_data&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomDataVar|CustomDataV2_0!&quot;</span><span class="p">,</span>
<span class="s1">&#39;app_info&#39;</span><span class="p">:</span> <span class="s2">&quot;CustomDataVar|AppInfo_V1_0!&quot;</span><span class="p">,</span>
<span class="s1">&#39;image_frame_0&#39;</span><span class="p">:</span> <span class="s2">&quot;ImageDataSeq|0!&quot;</span>
<span class="p">}</span>
<span class="n">data</span> <span class="o">=</span> <span class="p">{}</span>

<span class="c1"># generate random positions and lengths</span>
<span class="n">lengths</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">random_integers</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="mi">999</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">labels</span><span class="p">))</span>
<span class="n">positions</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">subtract</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">(</span><span class="n">lengths</span><span class="p">),</span> <span class="n">lengths</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>

<span class="k">for</span> <span class="n">length</span><span class="p">,</span> <span class="n">pos</span><span class="p">,</span> <span class="n">label</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">lengths</span><span class="p">,</span> <span class="n">positions</span><span class="p">,</span> <span class="n">labels</span><span class="p">):</span>
<span class="n">raw_text</span> <span class="o">+=</span> <span class="n">six</span><span class="o">.</span><span class="n">b</span><span class="p">(</span><span class="n">labels</span><span class="p">[</span><span class="n">label</span><span class="p">])</span>
<span class="n">raw_text</span> <span class="o">+=</span> <span class="n">struct</span><span class="o">.</span><span class="n">pack</span><span class="p">(</span><span class="s1">&#39;QQ&#39;</span><span class="p">,</span> <span class="n">pos</span><span class="p">,</span> <span class="n">length</span><span class="p">)</span>
<span class="n">data</span><span class="p">[</span><span class="n">label</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="n">pos</span><span class="p">,</span> <span class="n">length</span><span class="p">)</span>

<span class="k">return</span> <span class="n">raw_text</span><span class="p">,</span> <span class="n">data</span></div></div>
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