Rename fMRIPrep to fMRIPost-AROMA again.

.github/pull_request_template.md

@@ -7,11 +7,11 @@ beginning "Welcome, new contributors!".
 ## Changes proposed in this pull request
 
 <!--
-Please describe here the main features / changes proposed for review and integration in fMRIPrep
+Please describe here the main features / changes proposed for review and integration in fMRIPost-AROMA
 If this PR addresses some existing problem, please use GitHub's citing tools
 (eg. ref #, closes # or fixes #).
 If there is not an existing issue open describing the problem, please consider opening a new
-issue first and then link it from here (so the *fMRIPrep* community has a better understanding
+issue first and then link it from here (so the *fMRIPost-AROMA* community has a better understanding
 of ongoing development efforts and possible overlaps between contributions).
 -->
 
@@ -27,7 +27,7 @@ Please summarize here the main changes to the documentation that the reviewers s
 Welcome, new contributors!
 
 We ask you to read through the Contributing Guide:
-https://github.com/nipreps/fmriprep/blob/master/CONTRIBUTING.md
+https://github.com/nipreps/fmripost-aroma/blob/master/CONTRIBUTING.md
 
 These are guidelines intended to make communication easier by describing a consistent process, but
 don't worry if you don't get it everything exactly "right" on the first try.
@@ -38,9 +38,9 @@ To boil it down, here are some highlights:
    lot of time coding.
 2) Please use descriptive prefixes in your pull request title, such as "ENH:" for an enhancement or "FIX:" for a bug fix.
    (See the Contributing guide for the full set.) And consider adding a "WIP" tag for works-in-progress.
-3) Any code you submit will be licensed under the same terms (Apache License 2.0) as the rest of fMRIPrep.
+3) Any code you submit will be licensed under the same terms (Apache License 2.0) as the rest of fMRIPost-AROMA.
 4) We invite every contributor to add themselves to the `.zenodo.json` file
-   (https://github.com/nipreps/fmriprep/blob/master/.zenodo.json), which will result in your being listed as an author
+   (https://github.com/nipreps/fmripost-aroma/blob/master/.zenodo.json), which will result in your being listed as an author
    at the next release. Please add yourself as the next-to-last entry, just above Russ.
 
 A pull request is a conversation. We may ask you to make some changes before accepting your PR,

.github/workflows/pre-release.yml

@@ -56,7 +56,7 @@ jobs:
         run: |
           source .maint/ci/build_archive.sh
           echo "ARCHIVE=$ARCHIVE" >> $GITHUB_ENV
-      - name: Install fMRIPrep
+      - name: Install fMRIPost-AROMA
         run: .maint/ci/install.sh
       - name: Install extras
         run: .maint/ci/install_extras.sh

.github/workflows/stable.yml

@@ -59,7 +59,7 @@ jobs:
         run: |
           source .maint/ci/build_archive.sh
           echo "ARCHIVE=$ARCHIVE" >> $GITHUB_ENV
-      - name: Install fMRIPrep
+      - name: Install fMRIPost-AROMA
         run: .maint/ci/install.sh
       - name: Install extras
         run: .maint/ci/install_extras.sh

Dockerfile_devel

@@ -7,20 +7,20 @@ RUN apt-get update &&\
         net-tools \
         wget
 
-# necessary to find fmriprep in /src/fmriprep
+# necessary to find fmripost_aroma in /src/fmripost_aroma
 ENV PYTHONNOUSERSITE=0
 
-RUN cd /src/fmriprep &&\
+RUN cd /src/fmripost_aroma &&\
     pip install --no-use-pep517 -e .[all] &&\
-    cp -R /src/fmriprep/fmriprep.egg-info /src/
+    cp -R /src/fmripost_aroma/fmripost_aroma.egg-info /src/
 
 # create freesurfer license
 RUN cd /tmp &&\
     echo 'cHJpbnRmICJrcnp5c3p0b2YuZ29yZ29sZXdza2lAZ21haWwuY29tXG41MTcyXG4gKkN2dW12RVYzelRmZ1xuRlM1Si8yYzFhZ2c0RVxuIiA+IGxpY2Vuc2UudHh0Cg==' | base64 -d | sh
 
 ENV FS_LICENSE=/tmp/license.txt
 
-# set the fmriprep development variables
+# set the fmripost_aroma development variables
 ENV FMRIPREP_REGRESSION_SOURCE=/tmp/data/fmriprep_bold_truncated \
     FMRIPREP_REGRESSION_TARGETS=/tmp/data/fmriprep_bold_mask \
     FMRIPREP_REGRESSION_REPORTS=/tmp/data/reports \
@@ -78,13 +78,13 @@ RUN /src/codeserver/code-server --install-extension eamodio.gitlens &&\
     /src/codeserver/code-server --install-extension ms-python.python
 
 
-ENTRYPOINT ["/src/codeserver/code-server", "--auth", "none", "/src/fmriprep"]
+ENTRYPOINT ["/src/codeserver/code-server", "--auth", "none", "/src/fmripost_aroma"]
 
-# usage example (assuming in local fmriprep directory):
+# usage example (assuming in local fmripost_aroma directory):
 #
 # docker run -it \
 # -p 127.0.0.1:8445:8080 \
-# -v ${PWD}:/src/fmriprep \
+# -v ${PWD}:/src/fmripost_aroma \
 # fmriprep_devel:latest
 #
 # then type 127.0.0.1:8445 in your browser address bar

docs/api.rst

@@ -3,17 +3,18 @@
 ================
 Developers - API
 ================
+
 The *NiPreps* community and contributing guidelines
 ---------------------------------------------------
-*fMRIPrep* is a *NiPreps* application, and abides by the
+*fMRIPost-AROMA* is a *NiPreps* application, and abides by the
 `NiPreps Community guidelines <https://www.nipreps.org/community/>`__.
 Please, make sure you have read and understood all the documentation
 provided in the `NiPreps portal <https://www.nipreps.org>`__ before
 you get started.
 
 Setting up your development environment
 ---------------------------------------
-We believe that *fMRIPrep* must be free to use, inspect, and critique.
+We believe that *fMRIPost-AROMA* must be free to use, inspect, and critique.
 Correspondingly, you should be free to modify our software to improve it
 or adapt it to new use cases and we especially welcome contributions to
 improve it or its documentation.

docs/conf.py

@@ -1,4 +1,4 @@
-# fmriprep documentation build configuration file, created by
+# fmripost_aroma documentation build configuration file, created by
 # sphinx-quickstart on Mon May  9 09:04:25 2016.
 #
 # This file is execfile()d with the current directory set to its
@@ -84,7 +84,7 @@
 
 # General information about the project.
 project = 'fMRIPost-AROMA'
-author = 'The fMRIPrep developers'
+author = 'The fMRIPost-AROMA developers'
 copyright = f'2016-, {author}'
 
 # The version info for the project you're documenting, acts as replacement for
@@ -158,7 +158,7 @@
 
 # The name for this set of Sphinx documents.
 # "<project> v<release> documentation" by default.
-# html_title = u'fmriprep vversion'
+# html_title = u'fmripost_aroma vversion'
 
 # A shorter title for the navigation bar.  Default is the same as html_title.
 # html_short_title = None

docs/index.rst

@@ -1,4 +1,4 @@
-.. fmriprep documentation master file, created by
+.. fmripost_aroma documentation master file, created by
    sphinx-quickstart on Mon May  9 09:04:25 2016.
    You can adapt this file completely to your liking, but it should at least
    contain the root `toctree` directive.

docs/license.rst

@@ -1,14 +1,14 @@
 About the *NiPreps* framework licensing
 ---------------------------------------
 Please check https://www.nipreps.org/community/licensing/ for detailed
-information on the criteria we use to license *fMRIPrep* and other
+information on the criteria we use to license *fMRIPost-AROMA* and other
 projects of the framework.
 
 License information
 -------------------
 Copyright (c) the *NiPreps* Developers.
 
-As of the 21.0.x pre-release and release series, *fMRIPrep* is
+As of the 21.0.x pre-release and release series, *fMRIPost-AROMA* is
 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
@@ -20,10 +20,10 @@ 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.
 
-Copyright (c) 2015-2023, the *fMRIPrep* developers and the CRN.
+Copyright (c), the *fMRIPost-AROMA* developers and the CRN.
 All rights reserved.
 
-*fMRIPrep* 20.2 series and earlier are
+*fMRIPost-AROMA* 20.2 series and earlier are
 licensed under the BSD 3-clause license.
 You may obtain a copy of the License at
 https://opensource.org/licenses/BSD-3-Clause

docs/links.rst

@@ -16,7 +16,7 @@
 .. _`HCP Pipelines`: https://humanconnectome.org/software/hcp-mr-pipelines/
 .. _`Docker Engine`: https://www.docker.com/products/container-runtime
 .. _`Docker installation`: https://docs.docker.com/install/
-.. _`Docker Hub`: https://hub.docker.com/r/nipreps/fmriprep/tags
+.. _`Docker Hub`: https://hub.docker.com/r/nipreps/fmripost_aroma/tags
 .. _Singularity: https://github.com/singularityware/singularity
 ..  _SPM: https://www.fil.ion.ucl.ac.uk/spm/software/spm12/
 .. _TACC: https://www.tacc.utexas.edu/