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classVictre_1_1Pipeline_1_1Pipeline.html
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<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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 <span id="projectnumber">0.0.1</span>
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<li class="navelem"><a class="el" href="namespaceVictre.html">Victre</a></li><li class="navelem"><a class="el" href="namespaceVictre_1_1Pipeline.html">Pipeline</a></li><li class="navelem"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html">Pipeline</a></li> </ul>
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<div class="title">Victre.Pipeline.Pipeline Class Reference</div> </div>
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<p><a class="el" href="namespaceVictre.html">Victre</a> <a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html" title="Victre Pipeline class. ">Pipeline</a> class.
<a href="classVictre_1_1Pipeline_1_1Pipeline.html#details">More...</a></p>
<table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-methods"></a>
Public Member Functions</h2></td></tr>
<tr class="memitem:a45627045131474e1dc8c218655aee2b2"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#a45627045131474e1dc8c218655aee2b2">__init__</a></td></tr>
<tr class="memdesc:a45627045131474e1dc8c218655aee2b2"><td class="mdescLeft"> </td><td class="mdescRight">Object constructor for the <a class="el" href="namespaceVictre.html">Victre</a> pipeline class. <a href="#a45627045131474e1dc8c218655aee2b2">More...</a><br/></td></tr>
<tr class="separator:a45627045131474e1dc8c218655aee2b2"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a372ba5d565da4224e4768316ac640f99"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#a372ba5d565da4224e4768316ac640f99">project</a></td></tr>
<tr class="memdesc:a372ba5d565da4224e4768316ac640f99"><td class="mdescLeft"> </td><td class="mdescRight">Method that runs MCGPU to project the phantom. <a href="#a372ba5d565da4224e4768316ac640f99">More...</a><br/></td></tr>
<tr class="separator:a372ba5d565da4224e4768316ac640f99"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ab7dbcc6b27ab4e563391e2d76045f609"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#ab7dbcc6b27ab4e563391e2d76045f609">reconstruct</a></td></tr>
<tr class="memdesc:ab7dbcc6b27ab4e563391e2d76045f609"><td class="mdescLeft"> </td><td class="mdescRight">Method that runs the reconstruction code for the DBT volume. <a href="#ab7dbcc6b27ab4e563391e2d76045f609">More...</a><br/></td></tr>
<tr class="separator:ab7dbcc6b27ab4e563391e2d76045f609"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a27d92d6338fea609839441a7f644ae41"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#a27d92d6338fea609839441a7f644ae41">get_coordinates_dbt</a></td></tr>
<tr class="memdesc:a27d92d6338fea609839441a7f644ae41"><td class="mdescLeft"> </td><td class="mdescRight">Method to get the corresponding coordinates in the DBT volume from the voxelized coordinates. <a href="#a27d92d6338fea609839441a7f644ae41">More...</a><br/></td></tr>
<tr class="separator:a27d92d6338fea609839441a7f644ae41"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a404619920d58648ef74e6307d8b6a7dc"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#a404619920d58648ef74e6307d8b6a7dc">get_coordinates_dm</a></td></tr>
<tr class="memdesc:a404619920d58648ef74e6307d8b6a7dc"><td class="mdescLeft"> </td><td class="mdescRight">Method to get the corresponding coordinates in the DM volume from the voxelized coordinates. <a href="#a404619920d58648ef74e6307d8b6a7dc">More...</a><br/></td></tr>
<tr class="separator:a404619920d58648ef74e6307d8b6a7dc"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a38cf3bb515b5c52d4010867bc3dfc1d0"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#a38cf3bb515b5c52d4010867bc3dfc1d0">save_DICOM</a></td></tr>
<tr class="memdesc:a38cf3bb515b5c52d4010867bc3dfc1d0"><td class="mdescLeft"> </td><td class="mdescRight">Saves the DBT generated reconstruction (if available) in DICOM format. <a href="#a38cf3bb515b5c52d4010867bc3dfc1d0">More...</a><br/></td></tr>
<tr class="separator:a38cf3bb515b5c52d4010867bc3dfc1d0"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ab41af48a6a0860907671a80d4d1fffd6"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#ab41af48a6a0860907671a80d4d1fffd6">save_ROIs</a></td></tr>
<tr class="memdesc:ab41af48a6a0860907671a80d4d1fffd6"><td class="mdescLeft"> </td><td class="mdescRight">Saves the generated ROIs (absent and present) in RAW and HDF5 formats. <a href="#ab41af48a6a0860907671a80d4d1fffd6">More...</a><br/></td></tr>
<tr class="separator:ab41af48a6a0860907671a80d4d1fffd6"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae6bc9a133eb885f8aa605ff80fc7f784"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#ae6bc9a133eb885f8aa605ff80fc7f784">get_folder_contents</a></td></tr>
<tr class="memdesc:ae6bc9a133eb885f8aa605ff80fc7f784"><td class="mdescLeft"> </td><td class="mdescRight">Gets a list of files in the given folder. <a href="#ae6bc9a133eb885f8aa605ff80fc7f784">More...</a><br/></td></tr>
<tr class="separator:ae6bc9a133eb885f8aa605ff80fc7f784"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:aa63a440812d2bbeec712e6c4f9054f1d"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#aa63a440812d2bbeec712e6c4f9054f1d">generate_spiculated</a></td></tr>
<tr class="memdesc:aa63a440812d2bbeec712e6c4f9054f1d"><td class="mdescLeft"> </td><td class="mdescRight">Generates a spiculated mass using the breastMass software. <a href="#aa63a440812d2bbeec712e6c4f9054f1d">More...</a><br/></td></tr>
<tr class="separator:aa63a440812d2bbeec712e6c4f9054f1d"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:aab8f3f01f7247868aecd5bac81323263"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#aab8f3f01f7247868aecd5bac81323263">insert_lesions</a></td></tr>
<tr class="memdesc:aab8f3f01f7247868aecd5bac81323263"><td class="mdescLeft"> </td><td class="mdescRight">Inserts the specified number of lesions in the phantom. <a href="#aab8f3f01f7247868aecd5bac81323263">More...</a><br/></td></tr>
<tr class="separator:aab8f3f01f7247868aecd5bac81323263"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a6ed9f1e6df840d9a5753860de0312272"><td class="memItemLeft" align="right" valign="top">def </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#a6ed9f1e6df840d9a5753860de0312272">add_absent_ROIs</a></td></tr>
<tr class="memdesc:a6ed9f1e6df840d9a5753860de0312272"><td class="mdescLeft"> </td><td class="mdescRight">Adds the specified number of absent regions of interest. <a href="#a6ed9f1e6df840d9a5753860de0312272">More...</a><br/></td></tr>
<tr class="separator:a6ed9f1e6df840d9a5753860de0312272"><td class="memSeparator" colspan="2"> </td></tr>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-attribs"></a>
Public Attributes</h2></td></tr>
<tr class="memitem:aa252e7c9269262d7c97deb49112caef3"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#aa252e7c9269262d7c97deb49112caef3">seed</a></td></tr>
<tr class="separator:aa252e7c9269262d7c97deb49112caef3"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a43757d24ebee55a97ad659c6e0cb27ad"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#a43757d24ebee55a97ad659c6e0cb27ad">ip</a></td></tr>
<tr class="separator:a43757d24ebee55a97ad659c6e0cb27ad"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a7cbcebfc89ab01d7c2f51cfd39ea3dae"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#a7cbcebfc89ab01d7c2f51cfd39ea3dae">lesion_file</a></td></tr>
<tr class="separator:a7cbcebfc89ab01d7c2f51cfd39ea3dae"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:acf86f8174c970edae18400315e841c16"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#acf86f8174c970edae18400315e841c16">lesions</a></td></tr>
<tr class="separator:acf86f8174c970edae18400315e841c16"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a0fb31f166001c15f1a20349d4679e9a3"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#a0fb31f166001c15f1a20349d4679e9a3">lesion_locations</a></td></tr>
<tr class="separator:a0fb31f166001c15f1a20349d4679e9a3"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a9b64bd35b445bbdf6732b7567910e567"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html#a9b64bd35b445bbdf6732b7567910e567">arguments_mcgpu</a></td></tr>
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<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
<div class="textblock"><p><a class="el" href="namespaceVictre.html">Victre</a> <a class="el" href="classVictre_1_1Pipeline_1_1Pipeline.html" title="Victre Pipeline class. ">Pipeline</a> class. </p>
<p><b>This is all you need!</b> </p>
</div><h2 class="groupheader">Constructor & Destructor Documentation</h2>
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<td class="memname">def Victre.Pipeline.Pipeline.__init__ </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>ip</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>seed</em> = <code>None</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>phantom_file</em> = <code>"phantom/pcl_2132574818_crop.raw.gz"</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>spectrum_file</em> = <code>"./Victre/projection/spectrum/W28kVp_Rh50um_Be1mm.spc"</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>lesion_file</em> = <code>None</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>materials</em> = <code>None</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>arguments_mcgpu</em> = <code>dict()</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>arguments_recon</em> = <code>dict()</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>flatfield_file</em> = <code>None</code> </td>
</tr>
<tr>
<td></td>
<td>)</td>
<td></td><td></td>
</tr>
</table>
</div><div class="memdoc">
<p>Object constructor for the <a class="el" href="namespaceVictre.html">Victre</a> pipeline class. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">ip</td><td>IP address to run the projection (GPU enabled) </td></tr>
<tr><td class="paramname">seed</td><td>Random seed used to generate or read the phantom </td></tr>
<tr><td class="paramname">phantom_file</td><td>Path to file containing the phantom to be loaded </td></tr>
<tr><td class="paramname">spectrum_file</td><td>Path to file containing the spectrum used to project in MCGPU </td></tr>
<tr><td class="paramname">lesion_file</td><td>Path to file containing the lesion to be inserted (in HDF5 format) </td></tr>
<tr><td class="paramname">materials</td><td>Dictionary including the materials to be used during projection </td></tr>
<tr><td class="paramname">arguments_mcgpu</td><td>Arguments to be overridden for the projection in MCGPU </td></tr>
<tr><td class="paramname">arguments_recon</td><td>Arguments to be overridden for the reconstruction algorithm </td></tr>
<tr><td class="paramname">flatfield_file</td><td>Path to the flatfield file for projection </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>None </dd></dl>
</div>
</div>
<h2 class="groupheader">Member Function Documentation</h2>
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<td class="memname">def Victre.Pipeline.Pipeline.add_absent_ROIs </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>lesion_type</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>n</em> = <code>1</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>locations</em> = <code>None</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>roi_sizes</em> = <code>None</code> </td>
</tr>
<tr>
<td></td>
<td>)</td>
<td></td><td></td>
</tr>
</table>
</div><div class="memdoc">
<p>Adds the specified number of absent regions of interest. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">lesion_type</td><td>Constant with the desired lesion type. Check available lesion types and materials in the <a class="el" href="namespaceVictre_1_1Constants.html">Constants</a> file. </td></tr>
<tr><td class="paramname">n</td><td>Number of lesions to be added </td></tr>
<tr><td class="paramname">locations</td><td>List of coordinates in the voxel/phantom space where the lesions will be inserted. If not specified, random locations will be generated. </td></tr>
<tr><td class="paramname">roi_sizes</td><td>Size of the region of interest to be calculated to avoid overlapping with other tissues and check out of bounds locations </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>None. A location file will be saved inside the <code>phantom</code> folder with the corresponding seed. Negative lesion type means absent ROI. </dd></dl>
</div>
</div>
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<td class="memname">def Victre.Pipeline.Pipeline.generate_spiculated </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>seed</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>size</em> </td>
</tr>
<tr>
<td></td>
<td>)</td>
<td></td><td></td>
</tr>
</table>
</div><div class="memdoc">
<p>Generates a spiculated mass using the breastMass software. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">seed</td><td>Seed to be used when generating the mass </td></tr>
<tr><td class="paramname">size</td><td>Size of the mass to be used in the breastMass config file </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>None. The result is saved in the <code>lesions</code> subfolder </dd></dl>
</div>
</div>
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<td class="memname">def Victre.Pipeline.Pipeline.get_coordinates_dbt </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>vx_location</em> </td>
</tr>
<tr>
<td></td>
<td>)</td>
<td></td><td></td>
</tr>
</table>
</div><div class="memdoc">
<p>Method to get the corresponding coordinates in the DBT volume from the voxelized coordinates. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">vx_location</td><td>Coordinates in the voxel/phantom space </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>Coordinates in the DBT space </dd></dl>
</div>
</div>
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<td class="memname">def Victre.Pipeline.Pipeline.get_coordinates_dm </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em>, </td>
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<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>vx_location</em> </td>
</tr>
<tr>
<td></td>
<td>)</td>
<td></td><td></td>
</tr>
</table>
</div><div class="memdoc">
<p>Method to get the corresponding coordinates in the DM volume from the voxelized coordinates. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">vx_location</td><td>Coordinates in the voxel/phantom space </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>Coordinates in the DM space </dd></dl>
</div>
</div>
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<td class="memname">def Victre.Pipeline.Pipeline.get_folder_contents </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>folder</em> </td>
</tr>
<tr>
<td></td>
<td>)</td>
<td></td><td></td>
</tr>
</table>
</div><div class="memdoc">
<p>Gets a list of files in the given folder. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">folder</td><td>Path to the folder to be processed </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>List with files inside the given folder </dd></dl>
</div>
</div>
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<td class="memname">def Victre.Pipeline.Pipeline.insert_lesions </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>lesion_type</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>n</em> = <code>1</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>lesion_file</em> = <code>None</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>locations</em> = <code>None</code>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>roi_sizes</em> = <code>None</code> </td>
</tr>
<tr>
<td></td>
<td>)</td>
<td></td><td></td>
</tr>
</table>
</div><div class="memdoc">
<p>Inserts the specified number of lesions in the phantom. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">lesion_type</td><td>Constant with the desired lesion type. Check available lesion types and materials in the <a class="el" href="namespaceVictre_1_1Constants.html">Constants</a> file. </td></tr>
<tr><td class="paramname">n</td><td>Number of lesions to be added </td></tr>
<tr><td class="paramname">lesion_file</td><td>Path to file including the lesion to be inserted (in HDF5 format). If specified, it will overrite the lesion file specified in the constructor. </td></tr>
<tr><td class="paramname">locations</td><td>List of coordinates in the voxel/phantom space where the lesions will be inserted. If not specified, random locations will be generated. </td></tr>
<tr><td class="paramname">roi_sizes</td><td>Size of the region of interest to be calculated to avoid overlapping with other tissues and check out of bounds locations </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>None. A location file will be saved inside the <code>phantom</code> folder with the corresponding seed. Positive lesion type means absent ROI. </dd></dl>
</div>
</div>
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<td class="memname">def Victre.Pipeline.Pipeline.project </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em></td><td>)</td>
<td></td>
</tr>
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<p>Method that runs MCGPU to project the phantom. </p>
</div>
</div>
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<td class="memname">def Victre.Pipeline.Pipeline.reconstruct </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em></td><td>)</td>
<td></td>
</tr>
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</div><div class="memdoc">
<p>Method that runs the reconstruction code for the DBT volume. </p>
</div>
</div>
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<td class="memname">def Victre.Pipeline.Pipeline.save_DICOM </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em></td><td>)</td>
<td></td>
</tr>
</table>
</div><div class="memdoc">
<p>Saves the DBT generated reconstruction (if available) in DICOM format. </p>
</div>
</div>
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<td class="memname">def Victre.Pipeline.Pipeline.save_ROIs </td>
<td>(</td>
<td class="paramtype"> </td>
<td class="paramname"><em>self</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"> </td>
<td class="paramname"><em>roi_sizes</em> </td>
</tr>
<tr>
<td></td>
<td>)</td>
<td></td><td></td>
</tr>
</table>
</div><div class="memdoc">
<p>Saves the generated ROIs (absent and present) in RAW and HDF5 formats. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">roi_sizes</td><td>Size of the ROIs for the defined lesion types </td></tr>
</table>
</dd>
</dl>
</div>
</div>
<h2 class="groupheader">Member Data Documentation</h2>
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<td class="memname">Victre.Pipeline.Pipeline.materials</td>
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<td class="memname">Victre.Pipeline.Pipeline.seed</td>
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<hr/>The documentation for this class was generated from the following file:<ul>
<li>Victre/<a class="el" href="Pipeline_8py.html">Pipeline.py</a></li>
</ul>
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