ENH: ICA_AROMA: make current working directory default output directory

Author: jdkent

nipype/interfaces/fsl/ICA_AROMA.py

@@ -17,7 +17,8 @@
     File,
     Directory,
     traits,
-    OutputMultiPath
+    OutputMultiPath,
+    isdefined
 )
 import os
 
@@ -31,7 +32,7 @@ class ICA_AROMAInputSpec(CommandLineInputSpec):
     in_file = File(exists=True, mandatory=True,
                    argstr='-i %s', xor=['feat_dir'],
                    desc='volume to be denoised')
-    out_dir = Directory('out', mandatory=True,
+    out_dir = Directory('out', genfile=True,
                         argstr='-o %s',
                         desc='output directory')
     mask = File(exists=True, argstr='-m %s', xor=['feat_dir'],
@@ -108,6 +109,10 @@ class ICA_AROMA(CommandLine):
 
     def _list_outputs(self):
         outputs = self.output_spec().get()
+        if isdefined(self.inputs.out_dir):
+            outputs['out_dir'] = os.path.abspath(self.inputs.out_dir)
+        else:
+            outputs['out_dir'] = self._gen_filename("out_dir")
         out_dir = os.path.abspath(self.inputs.out_dir)
         outputs['out_dir'] = out_dir
 
@@ -116,4 +121,8 @@ def _list_outputs(self):
         if self.inputs.denoise_type in ('nonaggr', 'both'):
             outputs['nonaggr_denoised_file'] = os.path.join(out_dir, 'denoised_func_data_nonaggr.nii.gz')
 
+    def _gen_filename(self, name):
+        if name == "out_dir":
+            return os.getcwd()
+
         return outputs