Merge pull request #3554 from pvelasco/issue-3553_add_mvecs_to_Dcm2niix

Issue 3553 add mvecs to dcm2niix

Author: effigies

.zenodo.json

@@ -849,6 +849,11 @@
       "name": "Pannetier, Nicolas",
       "orcid": "0000-0002-0744-5155"
     },
+    {
+      "affiliation": "Flywheel.io, Minneapolis, MN, USA.",
+      "name": "Velasco, Pablo",
+      "orcid": "0000-0002-5749-6049"
+    },
     {
       "affiliation": "Max Planck Institute for Human Cognitive and Brain Sciences",
       "name": "Numssen, Ole",

nipype/interfaces/dcm2nii.py

@@ -380,6 +380,7 @@ class Dcm2niixInputSpec(CommandLineInputSpec):
 class Dcm2niixOutputSpec(TraitedSpec):
     converted_files = OutputMultiPath(File(exists=True))
     bvecs = OutputMultiPath(File(exists=True))
+    mvecs = OutputMultiPath(File(exists=True))
     bvals = OutputMultiPath(File(exists=True))
     bids = OutputMultiPath(File(exists=True))
 
@@ -459,8 +460,8 @@ def _parse_stdout(self, stdout):
         return filenames
 
     def _parse_files(self, filenames):
-        outfiles, bvals, bvecs, bids = [], [], [], []
-        outtypes = [".bval", ".bvec", ".json", ".txt"]
+        outfiles, bvals, bvecs, mvecs, bids = [], [], [], [], []
+        outtypes = [".bval", ".bvec", ".mvec", ".json", ".txt"]
         if self.inputs.to_nrrd:
             outtypes += [".nrrd", ".nhdr", ".raw.gz"]
         else:
@@ -480,10 +481,13 @@ def _parse_files(self, filenames):
                     bvals.append(fl)
                 elif fl.endswith(".bvec"):
                     bvecs.append(fl)
+                elif fl.endswith(".mvec"):
+                    mvecs.append(fl)
                 elif fl.endswith(".json") or fl.endswith(".txt"):
                     bids.append(fl)
         self.output_files = outfiles
         self.bvecs = bvecs
+        self.mvecs = mvecs
         self.bvals = bvals
         self.bids = bids
 
@@ -492,6 +496,7 @@ def _list_outputs(self):
         outputs["converted_files"] = self.output_files
         outputs["bvecs"] = self.bvecs
         outputs["bvals"] = self.bvals
+        outputs["mvecs"] = self.mvecs
         outputs["bids"] = self.bids
         return outputs
 

nipype/interfaces/tests/test_auto_Dcm2niix.py

@@ -95,6 +95,7 @@ def test_Dcm2niix_outputs():
         bvals=dict(),
         bvecs=dict(),
         converted_files=dict(),
+        mvecs=dict(),
     )
     outputs = Dcm2niix.output_spec()