ENH: Relocate contents in test_run.py to tests

bin/tests/test_wm_cluster_from_atlas.py

@@ -4,3 +4,21 @@
 def test_help_option(script_runner):
     ret = script_runner.run(["wm_cluster_from_atlas.py", "--help"])
     assert ret.success
+
+
+# def test_execution(script_runner):
+    # length = 40
+    # in_tractography_fname = (
+    #    "registered_subject_output/bundle/output_tractography/bundle_reg.vtk"
+    # )
+    # in_atlas_dirname = "ORG-800FC-100HCP"
+    # out_dirname = "subject_cluster_output"
+    # ret = script_runner.run(
+    #    "wm_cluster_from_atlas.py",
+    #    "-l",
+    #    length,
+    #    in_tractography_fname,
+    #    in_atlas_dirname,
+    #    out_dirname,
+    # )
+    # assert ret.success

bin/tests/test_wm_cluster_remove_outliers.py

@@ -0,0 +1,19 @@
+#!/usr/bin/env python
+# -*- coding: utf-8 -*-
+
+def test_help_option(script_runner):
+    ret = script_runner.run(["wm_cluster_remove_outliers.py", "--help"])
+    assert ret.success
+
+
+# def test_execution(script_runner):
+    # in_tractography_fname = "subject_cluster_output/bundle_reg"
+    # in_atlas_fname = "ORG-800FC-100HCP"
+    # out_dirname = "ORG-800FC-100HCP"
+    # ret = script_runner.run(
+    #    "wm_cluster_remove_outliers.py",
+    #    in_tractography_fname,
+    #    in_atlas_fname,
+    #    out_dirname,
+    # )
+    # assert ret.success

bin/tests/test_wm_quality_control_tractography.py

@@ -1,6 +1,16 @@
 #!/usr/bin/env python
 # -*- coding: utf-8 -*-
 
+
 def test_help_option(script_runner):
     ret = script_runner.run(["wm_quality_control_tractography.py", "--help"])
     assert ret.success
+
+
+# def test_execution(script_runner):
+    # in_dirname = "input_tractography"
+    # out_dirname = "qc_output"
+    # ret = script_runner.run(
+    #    "wm_quality_control_tractography.py", in_dirname, out_dirname,
+    # )
+    # assert ret.success

bin/tests/test_wm_register_to_atlas_new.py

@@ -4,3 +4,22 @@
 def test_help_option(script_runner):
     ret = script_runner.run(["wm_register_to_atlas_new.py", "--help"])
     assert ret.success
+
+
+# def test_execution(script_runner):
+    # length = 40
+    # mode = "affine"
+    # in_tractography_fname = "input_tractography/bundle.vtk"
+    # in_atlas_fname = "ORG-RegAtlas-100HCP/registration_atlas.vtk"
+    # out_dirname = "registered_subject_output"
+    # ret = script_runner.run(
+    #     "wm_register_to_atlas_new.py",
+    #     "-l",
+    #     length,
+    #     "-mode",
+    #     mode,
+    #     in_tractography_fname,
+    #     in_atlas_fname,
+    #     out_dirname,
+    # )
+    # assert ret.success

bin/tests/test_wm_separate_clusters_by_hemisphere.py

@@ -4,3 +4,14 @@
 def test_help_option(script_runner):
     ret = script_runner.run(["wm_separate_clusters_by_hemisphere.py", "--help"])
     assert ret.success
+
+
+# def test_execution(script_runner):
+    # in_dirname = "subject_cluster_outlier_removed_output"
+    # out_dirname = "subject_cluster_separated_output"
+    # ret = script_runner.run(
+    #    "wm_separate_clusters_by_hemisphere.py",
+    #    in_dirname,
+    #    out_dirname,
+    # )
+    # assert ret.success

setup.py

@@ -45,6 +45,5 @@
     scripts=list(chain.from_iterable([
         glob.glob("bin/[a-zA-Z]*.py"),
         glob.glob("utilities/[a-zA-Z]*.py"),
-        # ['testing/test_run.py']
         ]))
 )