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ANTS : antsBenchmarkTest : Benchmark Evaluation Demonstration
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Usage
====================================================================


.. literalinclude:: dynamic/antsBenchmarkTestHelp.txt

Benchmark setup
====================================================================

**Database:**  ``@image_list``

::

  Apple
  Orange
  Banana
  Pear
  Pineapple
  Watermelon

**Test parameters combination:** ``$test_para_combination`` 

.. csv-table::
   :header-rows: 0

   *transformation_type_list*, "[GreedySyN]"
   *total_field_sigma_list*, "[0]"
   *DMMFD_points_list*, "[4x4x4]"
   *deformable_metric_type_list*, "[CC]"
   *regularization_type_list*, "[Gauss]"
   *gradient_sigma_list*, "[0.0, 1.0, 2.0, 4.0, 8.0]"

**Test paramters common:** ``$test_para_common``

.. csv-table::
   :header-rows: 0

   *test_case_name*, UNDEFINED_TEST_CASE
   *deformable_iterations*, 200x200x200x200x50
   *use_recursive_gaussian*, false
    
**Test paramters misc:** ``$test_para_misc``
      
.. csv-table::
   :header-rows: 0

   *gradient_step*, 0.25
   *exp_time_steps*, 8
   *radius*, 2
   *integration_delta*, 0.1
   *number_of_samples*, 50000
   *time_step*, 4

**Global parameters:** ``$global_para``

.. csv-table::
   :header-rows: 0

   *original_lung_directory*, /INPUT/ROOT/image
   *temp_script_path_prefix*, /Users/stnava/code/temp/advants-code/bin/Testing/Benchmark/tmp_EvalDemoTest
   *test_case_prefix*, EvalDemoTest
   *registration_directory*, /Users/stnava/code/temp/advants-code/bin/Testing/Benchmark/Registration
   *registration_script*, /INPUT/ROOT/Script/e10_register.sh
   *original_mask_directory*, /INPUT/ROOT/lungMasks
   *evaluate_result_root*, /Users/stnava/code/temp/advants-code/bin/Testing/Benchmark/Evaluate

Simulated execution on various nodes:
====================================================================

* **compute-0-6.local** => `tmp_EvalDemoTestcompute-0-6.local.sh  </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/tmp_EvalDemoTestcompute-0-6.local.sh>`_
            
  .. literalinclude:: dynamic/tmp_EvalDemoTestcompute-0-6.local.sh
  
* **compute-0-3.local** => `tmp_EvalDemoTestcompute-0-3.local.sh  </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/tmp_EvalDemoTestcompute-0-3.local.sh>`_
            
  .. literalinclude:: dynamic/tmp_EvalDemoTestcompute-0-3.local.sh
  


Simulated tests
====================================================================

* **EvalDemoTest_0**

  .. literalinclude:: dynamic/EvalDemoTest_0_eval.readme

  `EvalDemoTest_0_eval.readme </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_0_eval.readme>`_

  .. csv-table:: EvalDemoTest_0
     :header-rows: 1
     :file: dynamic/EvalDemoTest_0_eval.csv

  `EvalDemoTest_0_eval.csv </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_0_eval.csv>`_

  .. image:: dynamic/EvalDemoTest_0.png
      :width: 500 px
      :align: left
      :alt: EvalDemoTest_0

  `EvalDemoTest_0.png </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_0.png>`_
        
* **EvalDemoTest_1**

  .. literalinclude:: dynamic/EvalDemoTest_1_eval.readme

  `EvalDemoTest_1_eval.readme </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_1_eval.readme>`_

  .. csv-table:: EvalDemoTest_1
     :header-rows: 1
     :file: dynamic/EvalDemoTest_1_eval.csv

  `EvalDemoTest_1_eval.csv </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_1_eval.csv>`_

  .. image:: dynamic/EvalDemoTest_1.png
      :width: 500 px
      :align: left
      :alt: EvalDemoTest_1

  `EvalDemoTest_1.png </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_1.png>`_
        
* **EvalDemoTest_2**

  .. literalinclude:: dynamic/EvalDemoTest_2_eval.readme

  `EvalDemoTest_2_eval.readme </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_2_eval.readme>`_

  .. csv-table:: EvalDemoTest_2
     :header-rows: 1
     :file: dynamic/EvalDemoTest_2_eval.csv

  `EvalDemoTest_2_eval.csv </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_2_eval.csv>`_

  .. image:: dynamic/EvalDemoTest_2.png
      :width: 500 px
      :align: left
      :alt: EvalDemoTest_2

  `EvalDemoTest_2.png </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_2.png>`_
        
* **EvalDemoTest_3**

  .. literalinclude:: dynamic/EvalDemoTest_3_eval.readme

  `EvalDemoTest_3_eval.readme </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_3_eval.readme>`_

  .. csv-table:: EvalDemoTest_3
     :header-rows: 1
     :file: dynamic/EvalDemoTest_3_eval.csv

  `EvalDemoTest_3_eval.csv </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_3_eval.csv>`_

  .. image:: dynamic/EvalDemoTest_3.png
      :width: 500 px
      :align: left
      :alt: EvalDemoTest_3

  `EvalDemoTest_3.png </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_3.png>`_
        
* **EvalDemoTest_4**

  .. literalinclude:: dynamic/EvalDemoTest_4_eval.readme

  `EvalDemoTest_4_eval.readme </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_4_eval.readme>`_

  .. csv-table:: EvalDemoTest_4
     :header-rows: 1
     :file: dynamic/EvalDemoTest_4_eval.csv

  `EvalDemoTest_4_eval.csv </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_4_eval.csv>`_

  .. image:: dynamic/EvalDemoTest_4.png
      :width: 500 px
      :align: left
      :alt: EvalDemoTest_4

  `EvalDemoTest_4.png </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/EvalDemoTest_4.png>`_
        
Comparison of all test parameters:
====================================================================

**FirstOrderStatistics-mean**

.. csv-table:: FirstOrderStatistics-mean
   :header-rows: 1
   :file: dynamic/FirstOrderStatistics_mean_eval.csv

`FirstOrderStatistics_mean_eval.csv </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/FirstOrderStatistics_mean_eval.csv>`_

.. image:: dynamic/FirstOrderStatistics_mean_eval.png
   :width: 500 px
   :align: left
   :alt: FirstOrderStatistics-mean

`FirstOrderStatistics_mean_eval.png </Users/stnava/code/temp/advants-code/bin/Documentation/source/dynamic/FirstOrderStatistics_mean_eval.png>`_