Remove elements that don't appear necessary.

.gitmodules

@@ -1,5 +0,0 @@
-[submodule "tests/data/ds000005-fmriprep"]
-	path = tests/data/ds000005-fmriprep
-	url = https://gin.g-node.org/nipreps-data/ds000005-fmriprep
-	datalad-id = 92e566e4-1c80-434e-a4d7-5bf9fb483d76
-	datalad-url = https://gin.g-node.org/nipreps-data/ds000005-fmriprep

.zenodo.json

@@ -10,7 +10,7 @@
   ],
   "creators": [
     {
-      "affiliation": "Department of Psychology, Florida International University",
+      "affiliation": "University of Pennsylvania",
       "name": "Salo, Taylor",
       "orcid": "0000-0001-9813-3167"
     },

README.rst

@@ -31,6 +31,11 @@ Here are a few of the key features:
         In this case, the fMRIPost-AROMA workflow will pull a transform from MNI152NLin2009cAsym
         to MNI152NLin6Asym from TemplateFlow and apply it,
         along with the boldref-to-MNI152NLin2009cAsym transform, to the boldref-space derivatives.
+    -   fMRIPrep with ``--level full`` and raw BOLD data.
+        In this case, the fMRIPost workflow will apply minimal preprocessing steps internally
+        to generate the required derivatives.
+        This will rarely be used, but may be useful for fMRIPost workflows that require raw data,
+        like fMRIPost-phase.
 
     .. warning::
 
@@ -40,3 +45,20 @@ Here are a few of the key features:
 
 4.  General NiPreps infrastructure for running a BIDS App, such as a config file,
     a command-line interface, and tools to generate HTML reports.
+
+
+*****
+Usage
+*****
+
+If you use this template to create a new fMRIPost workflow, you will need to:
+
+1.  Replace all instances of ``fmripost_template`` with the name of your new workflow.
+2.  Replace all instances of ``fMRIPost-template`` with the name of your new workflow.
+3.  Modify the workflows and interfaces to apply your desired processing steps.
+4.  Update the documentation to reflect the new workflow.
+
+Please also include something like the following in your boilerplate:
+
+> Data were postprocessed using *fMRIPost-<name>*,
+> which is based on *fMRIPost-template* ([cite fMRIPost-template version and DOI here]).

src/fmripost_template/cli/__init__.py

@@ -1,13 +1,36 @@
-# SPDX-FileCopyrightText: 2023-present Chris Markiewicz <[email protected]>
+# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
+# vi: set ft=python sts=4 ts=4 sw=4 et:
 #
-# SPDX-License-Identifier: Apache-2.0
-import click
-
-from .. import __version__
-
+# Copyright 2024 The NiPreps Developers <[email protected]>
+#
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+#
+#     http://www.apache.org/licenses/LICENSE-2.0
+#
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+#
+# We support and encourage derived works from this project, please read
+# about our expectations at
+#
+#     https://www.nipreps.org/community/licensing/
+#
+"""Command-line interface modules for fMRIPost-template."""
+from . import (
+    parser,
+    run,
+    version,
+    workflow,
+)
 
-@click.group(context_settings={'help_option_names': ['-h', '--help']}, invoke_without_command=True)
-@click.version_option(version=__version__, prog_name='fmripost-template')
-@click.pass_context
-def fmripost_template(ctx: click.Context):
-    click.echo('Hello world!')
+__all__ = [
+    'parser',
+    'run',
+    'version',
+    'workflow',
+]