ENH: Add --me-output-echos CLI flag (#174)

Author: effigies

nibabies/cli/parser.py

@@ -277,6 +277,14 @@ def _slice_time_ref(value, parser):
 any spatial references. For further details, please check out \
 https://fmriprep.readthedocs.io/en/latest/spaces.html""",
     )
+    g_conf.add_argument(
+        "--me-output-echos",
+        action="store_true",
+        default=False,
+        help="""\
+Output individual echo time series with slice, motion and susceptibility correction. \
+Useful for further Tedana processing post-NiBabies.""",
+    )
 
     g_conf.add_argument(
         "--bold2t1w-init",

nibabies/config.py

@@ -378,6 +378,8 @@ class execution(_Config):
     """Do not monitor *nibabies* using Sentry.io."""
     output_dir = None
     """Folder where derivatives will be stored."""
+    me_output_echos = False
+    """Output individual echo time series with slice, motion and susceptibility correction"""
     output_layout = None
     """Layout of derivatives within output_dir."""
     output_spaces = None