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fix: allow full path parsing in rename #699

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merged 1 commit into from
Oct 25, 2013
+18 −6
Merged

fix: allow full path parsing in rename #699

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24 changes: 18 additions & 6 deletions nipype/interfaces/utility.py
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Original file line number Diff line number Diff line change
Expand Up @@ -143,10 +143,15 @@ def _list_outputs(self):
class RenameInputSpec(DynamicTraitedSpec):

in_file = File(exists=True, mandatory=True, desc="file to rename")
keep_ext = traits.Bool(desc="Keep in_file extension, replace non-extension component of name")
keep_ext = traits.Bool(desc=("Keep in_file extension, replace "
"non-extension component of name"))
format_string = traits.String(mandatory=True,
desc="Python formatting string for output template")
parse_string = traits.String(desc="Python regexp parse string to define replacement inputs")
desc=("Python formatting string for output "
"template"))
parse_string = traits.String(desc=("Python regexp parse string to define "
"replacement inputs"))
use_fullpath = traits.Bool(False, use_default=True,
desc="Use full path as input to regex parser")


class RenameOutputSpec(TraitedSpec):
Expand Down Expand Up @@ -210,22 +215,29 @@ def __init__(self, format_string=None, **inputs):
def _rename(self):
fmt_dict = dict()
if isdefined(self.inputs.parse_string):
m = re.search(self.inputs.parse_string, os.path.split(self.inputs.in_file)[1])
if isdefined(self.inputs.use_fullpath) and self.inputs.use_fullpath:
m = re.search(self.inputs.parse_string,
self.inputs.in_file)
else:
m = re.search(self.inputs.parse_string,
os.path.split(self.inputs.in_file)[1])
if m:
fmt_dict.update(m.groupdict())
for field in self.fmt_fields:
val = getattr(self.inputs, field)
if isdefined(val):
fmt_dict[field] = getattr(self.inputs, field)
if self.inputs.keep_ext:
fmt_string = "".join([self.inputs.format_string, split_filename(self.inputs.in_file)[2]])
fmt_string = "".join([self.inputs.format_string,
split_filename(self.inputs.in_file)[2]])
else:
fmt_string = self.inputs.format_string
return fmt_string % fmt_dict

def _run_interface(self, runtime):
runtime.returncode = 0
_ = copyfile(self.inputs.in_file, os.path.join(os.getcwd(), self._rename()))
_ = copyfile(self.inputs.in_file, os.path.join(os.getcwd(),
self._rename()))
return runtime

def _list_outputs(self):
Expand Down