update doctest

Author: yibeichan

pydra/tasks/fsl/model/cluster.py

@@ -228,7 +228,7 @@ class Cluster(ShellCommandTask):
     >>> task.inputs.threshold = 2.3
     >>> task.inputs.use_mm = True
     >>> task.cmdline
-    'cluster --in=zstat1.nii.gz --thresh=2.3000000000 --mm'
+    'cluster --in=zstat1.nii.gz --thresh=2.3000000000 --mm' # doctest: +ELLIPSIS
     """
 
     input_spec = Cluster_input_spec

pydra/tasks/fsl/model/glm.py

@@ -186,7 +186,7 @@ class GLM(ShellCommandTask):
     >>> task.inputs.in_file = "test.nii.gz"
     >>> task.inputs.design = "confounds_regressors.tsv"
     >>> task.cmdline
-    'fsl_glm -i test.nii.gz -d confounds_regressors.tsv'
+    'fsl_glm -i test.nii.gz -d confounds_regressors.tsv' # doctest: +ELLIPSIS
     """
 
     input_spec = GLM_input_spec

pydra/tasks/fsl/utils/filterregressor.py

@@ -83,7 +83,7 @@ class FilterRegressor(ShellCommandTask):
     >>> task.inputs.filter_columns = "1,2,3"
     >>> task.inputs.out_file = "test_filtered.nii.gz"
     >>> task.cmdline
-    'fsl_regfilt -i test.nii.gz -o test_filtered.nii.gz -d design -f '1,2,3''
+    'fsl_regfilt -i test.nii.gz -o test_filtered.nii.gz -d design -f 1,2,3'
     """
 
     input_spec = FilterRegressor_input_spec

specs/fsl_model_param.yml

@@ -24,7 +24,7 @@ Cluster:
     in_file: zstat1.nii.gz
     threshold: 2.3
     use_mm: True
-    cmdline: cluster --in=zstat1.nii.gz --thresh=2.3000000000 --mm
+    cmdline: cluster --in=zstat1.nii.gz --thresh=2.3000000000 --mm # doctest: +ELLIPSIS
   tests_inputs:
     - in_file: zstat1.nii.gz
       threshold: 2.3
@@ -224,7 +224,7 @@ GLM:
   doctest:
     in_file: test.nii.gz
     design: confounds_regressors.tsv
-    cmdline: fsl_glm -i test.nii.gz -d confounds_regressors.tsv
+    cmdline: fsl_glm -i test.nii.gz -d confounds_regressors.tsv # doctest: +ELLIPSIS
   tests_inputs:
     - in_file: test.nii.gz
       design: confounds_regressors.tsv

specs/fsl_utils_param.yml

@@ -46,7 +46,7 @@ ConvertWarp: # needs more test data
     reference: test.nii.gz
     relwarp: True
     out_file: test_concatwarp.nii.gz
-    cmdline: convertwarp --ref=test.nii.gz --warp1=warpfield.nii --rel --out=test_concatwarp.nii.gz
+    cmdline: convertwarp --ref=test.nii.gz --warp1=warpfield.nii --rel --out=test_concatwarp.nii.gz 
   tests_inputs:
     -
   tests_outputs:
@@ -118,7 +118,7 @@ FilterRegressor:
     design_file: design
     filter_columns: 1,2,3
     out_file: test_filtered.nii.gz
-    cmdline: fsl_regfilt -i test.nii.gz -o test_filtered.nii.gz -d design -f '1,2,3'
+    cmdline: fsl_regfilt -i test.nii.gz -o test_filtered.nii.gz -d design -f 1,2,3
   tests_inputs:
     -
   tests_outputs: