FIX: Remove --topup-max-vols flag

SDCFlows now averages any 4D input into a single 3D volume.

Author: mgxd

nibabies/cli/parser.py

@@ -450,12 +450,6 @@ def _slice_time_ref(value, parser):
         default=True,
         help="do not remove median (within mask) from fieldmap",
     )
-    g_fmap.add_argument(
-        "--topup-max-vols",
-        default=5,
-        type=int,
-        help="maximum number of volumes to use with TOPUP, per-series (EPI or BOLD)",
-    )
 
     # SyN-unwarp options
     g_syn = parser.add_argument_group("Specific options for SyN distortion correction")

nibabies/workflows/base.py

@@ -548,9 +548,6 @@ def init_single_subject_wf(subject_id, session_id=None):
                 fmap_wf_inputs = getattr(fmap_wf.inputs, f"in_{estimator.bids_id}")
                 fmap_wf_inputs.in_data = [str(s.path) for s in estimator.sources]
                 fmap_wf_inputs.metadata = [s.metadata for s in estimator.sources]
-
-                flatten = fmap_wf.get_node(f"wf_{estimator.bids_id}.flatten")
-                flatten.inputs.max_trs = config.workflow.topup_max_vols
             else:
                 raise NotImplementedError(
                     "Sophisticated PEPOLAR schemes (e.g., using DWI+EPI) are unsupported."