def _run_interface(self, runtime):
from niworkflows.viz.plots import fMRIPlot
self._results["out_file"] = fname_presuffix(
self.inputs.in_func,
suffix="_fmriplot.svg",
use_ext=False,
newpath=runtime.cwd,
)
dataframe = pd.read_csv(
self.inputs.confounds_file,
sep="\t",
index_col=None,
dtype="float32",
na_filter=True,
na_values="n/a",
)
headers = []
units = {}
names = {}
for conf_el in self.inputs.confounds_list:
if isinstance(conf_el, (list, tuple)):
headers.append(conf_el[0])
if conf_el[1] is not None:
units[conf_el[0]] = conf_el[1]
if len(conf_el) > 2 and conf_el[2] is not None:
names[conf_el[0]] = conf_el[2]
else:
headers.append(conf_el)
if not headers:
data = None
units = None
else:
data = dataframe[headers]
colnames = data.columns.ravel().tolist()
for name, newname in list(names.items()):
colnames[colnames.index(name)] = newname
data.columns = colnames
fig = fMRIPlot(
self.inputs.in_func,
mask_file=self.inputs.in_mask
if isdefined(self.inputs.in_mask) else None,
seg_file=(self.inputs.in_segm
if isdefined(self.inputs.in_segm) else None),
tr=self.inputs.tr,
data=data,
units=units,
).plot()
fig.savefig(self._results["out_file"], bbox_inches="tight")
return runtime
def _run_interface(self, runtime):
self._results['out_file'] = fname_presuffix(
self.inputs.in_func,
suffix='_fmriplot.svg',
use_ext=False,
newpath=runtime.cwd)
dataframe = pd.read_csv(
self.inputs.confounds_file,
sep="\t", index_col=None, dtype='float32',
na_filter=True, na_values='n/a')
headers = []
units = {}
names = {}
for conf_el in self.inputs.confounds_list:
if isinstance(conf_el, (list, tuple)):
headers.append(conf_el[0])
if conf_el[1] is not None:
units[conf_el[0]] = conf_el[1]
if len(conf_el) > 2 and conf_el[2] is not None:
names[conf_el[0]] = conf_el[2]
else:
headers.append(conf_el)
if not headers:
data = None
units = None
else:
data = dataframe[headers]
colnames = data.columns.ravel().tolist()
for name, newname in list(names.items()):
colnames[colnames.index(name)] = newname
data.columns = colnames
fig = fMRIPlot(
self.inputs.in_func,
mask_file=self.inputs.in_mask,
seg_file=(self.inputs.in_segm
if isdefined(self.inputs.in_segm) else None),
tr=self.inputs.tr,
data=data,
units=units,
).plot()
fig.savefig(self._results['out_file'], bbox_inches='tight')
return runtime