DOC: Error on warnings; FIX: Py3.6 compatibility

Author: effigies

.circleci/config.yml

@@ -321,7 +321,7 @@ jobs:
           command: python -m pip install ".[doc]"
       - run:
           name: Build documentation
-          command: make -C docs html
+          command: make SPHINXOPTS="-W" -C docs html
       - store_artifacts:
           path: /tmp/src/fmriprep/docs/_build/html
 

docs/workflows.rst

@@ -20,9 +20,9 @@ is presented below:
 
     from fmriprep.workflows.base import init_single_subject_wf
     from collections import namedtuple
-    BIDSLayout = namedtuple('BIDSLayout', ['root'], defaults='.')
+    BIDSLayout = namedtuple('BIDSLayout', ['root'])
     wf = init_single_subject_wf(
-        layout=BIDSLayout(),
+        layout=BIDSLayout('.'),
         subject_id='test',
         name='single_subject_wf',
         task_id='',
@@ -273,7 +273,7 @@ BOLD preprocessing
     :simple_form: yes
 
     from collections import namedtuple
-    BIDSLayout = namedtuple('BIDSLayout', ['root'], defaults='.')
+    BIDSLayout = namedtuple('BIDSLayout', ['root'])
     from fmriprep.workflows.bold import init_func_preproc_wf
     wf = init_func_preproc_wf(
         '/completely/made/up/path/sub-01_task-nback_bold.nii.gz',
@@ -287,7 +287,7 @@ BOLD preprocessing
         force_syn=True,
         freesurfer=True,
         ignore=[],
-        layout=BIDSLayout(),
+        layout=BIDSLayout('.'),
         low_mem=False,
         medial_surface_nan=False,
         omp_nthreads=1,

fmriprep/workflows/base.py

@@ -52,10 +52,10 @@ def init_fmriprep_wf(layout, subject_list, task_id, echo_idx, run_uuid, work_dir
 
         import os
         from collections import namedtuple
-        BIDSLayout = namedtuple('BIDSLayout', ['root'], defaults='.')
+        BIDSLayout = namedtuple('BIDSLayout', ['root'])
         from fmriprep.workflows.base import init_fmriprep_wf
         os.environ['FREESURFER_HOME'] = os.getcwd()
-        wf = init_fmriprep_wf(layout=BIDSLayout(),
+        wf = init_fmriprep_wf(layout=BIDSLayout('.'),
                               subject_list=['fmripreptest'],
                               task_id='',
                               echo_idx=None,
@@ -255,8 +255,8 @@ def init_single_subject_wf(layout, subject_id, task_id, echo_idx, name, reportle
 
         from fmriprep.workflows.base import init_single_subject_wf
         from collections import namedtuple
-        BIDSLayout = namedtuple('BIDSLayout', ['root'], defaults='.')
-        wf = init_single_subject_wf(layout=BIDSLayout(),
+        BIDSLayout = namedtuple('BIDSLayout', ['root'])
+        wf = init_single_subject_wf(layout=BIDSLayout('.'),
                                     subject_id='test',
                                     task_id='',
                                     echo_idx=None,

fmriprep/workflows/bold/base.py

@@ -62,7 +62,7 @@ def init_func_preproc_wf(bold_file, ignore, freesurfer,
 
         from fmriprep.workflows.bold import init_func_preproc_wf
         from collections import namedtuple
-        BIDSLayout = namedtuple('BIDSLayout', ['root'], defaults='.')
+        BIDSLayout = namedtuple('BIDSLayout', ['root'])
         wf = init_func_preproc_wf('/completely/made/up/path/sub-01_task-nback_bold.nii.gz',
                                   omp_nthreads=1,
                                   ignore=[],
@@ -88,7 +88,7 @@ def init_func_preproc_wf(bold_file, ignore, freesurfer,
                                   err_on_aroma_warn=False,
                                   aroma_melodic_dim=-200,
                                   num_bold=1,
-                                  layout=BIDSLayout())
+                                  layout=BIDSLayout('.'))
 
     **Parameters**