From d4b8ecf072aca13b78c36e3382f58b3b82ce75bf Mon Sep 17 00:00:00 2001
From: Ghislain Vaillant <ghislain.vaillant@icm-institute.org>
Date: Fri, 15 Mar 2024 14:55:18 +0100
Subject: [PATCH] MAINT: Rename package to clinica-pydra-ants

---
 .../workflows/{publish.yaml => release.yaml}   |  4 ++--
 .github/workflows/{ci.yaml => test.yaml}       |  8 ++++----
 README.md                                      | 18 +++++++++++-------
 pyproject.toml                                 | 12 ++++++------
 4 files changed, 23 insertions(+), 19 deletions(-)
 rename .github/workflows/{publish.yaml => release.yaml} (95%)
 rename .github/workflows/{ci.yaml => test.yaml} (92%)

diff --git a/.github/workflows/publish.yaml b/.github/workflows/release.yaml
similarity index 95%
rename from .github/workflows/publish.yaml
rename to .github/workflows/release.yaml
index 18c3ba2..13c43fa 100644
--- a/.github/workflows/publish.yaml
+++ b/.github/workflows/release.yaml
@@ -1,4 +1,4 @@
-name: publish
+name: release
 
 on:
   release:
@@ -13,7 +13,7 @@ concurrency:
   cancel-in-progress: true
 
 jobs:
-  publish:
+  pypi:
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v4
diff --git a/.github/workflows/ci.yaml b/.github/workflows/test.yaml
similarity index 92%
rename from .github/workflows/ci.yaml
rename to .github/workflows/test.yaml
index a0de391..2237011 100644
--- a/.github/workflows/ci.yaml
+++ b/.github/workflows/test.yaml
@@ -1,4 +1,4 @@
-name: ci
+name: test
 
 on:
   push:
@@ -24,10 +24,10 @@ jobs:
           python-version: '3.x'
       - name: Install Hatch
         run: pipx install hatch
-      - name: Run formatter
-        run: hatch fmt
+      - name: Run static analysis
+        run: hatch fmt --check
 
-  test:
+  run:
     strategy:
       fail-fast: false
       matrix:
diff --git a/README.md b/README.md
index 678b8ab..0094728 100644
--- a/README.md
+++ b/README.md
@@ -7,7 +7,7 @@
 
 -----
 
-Pydra tasks for ANTs
+Pydra tasks for ANTs designed for Clinica
 
 [Pydra][pydra] is a dataflow engine which provides
 a set of lightweight abstractions for DAG
@@ -16,6 +16,8 @@ construction, manipulation, and distributed execution.
 [ANTs][ants] is a toolbox for multi-variate image registration,
 segmentation and statistical analysis.
 
+[Clinica][clinica] is a software platform for clinical neuroimaging studies.
+
 **Table of Contents**
 
 - [Available Tasks](#available-tasks)
@@ -61,7 +63,7 @@ hatch run test
 To fix linting issues:
 
 ```console
-hatch run lint:fix
+hatch fmt
 ```
 
 ## License
@@ -76,12 +78,14 @@ This project is distributed under the terms of the [Apache License, Version 2.0]
 
 [pydra]: https://pydra.readthedocs.io/
 
-[pypi-downloads]: https://static.pepy.tech/badge/pydra-ants
+[pypi-downloads]: https://static.pepy.tech/badge/clinica-pydra-ants
+
+[pypi-project]: https://pypi.org/project/clinica-pydra-ants
 
-[pypi-project]: https://pypi.org/project/pydra-ants
+[pypi-pyversions]: https://img.shields.io/pypi/pyversions/clinica-pydra-ants.svg
 
-[pypi-pyversions]: https://img.shields.io/pypi/pyversions/pydra-ants.svg
+[pypi-version]: https://img.shields.io/pypi/v/clinica-pydra-ants.svg
 
-[pypi-version]: https://img.shields.io/pypi/v/pydra-ants.svg
+[status-test]: https://github.com/aramis-lab/clinica-pydra-ants/actions/workflows/test.yaml/badge.svg
 
-[status-test]: https://github.com/aramis-lab/pydra-ants/actions/workflows/test.yaml/badge.svg
+[clinica]: https://www.clinica.run/
diff --git a/pyproject.toml b/pyproject.toml
index 8be0610..e2cf228 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -3,9 +3,9 @@ requires = ["hatchling"]
 build-backend = "hatchling.build"
 
 [project]
-name = "pydra-ants"
-version = "0.0.5"
-description = "Pydra tasks for ANTs"
+name = "clinica-pydra-ants"
+version = "0.1.0"
+description = "Pydra tasks for ANTs designed for Clinica"
 readme = "README.md"
 requires-python = ">=3.8"
 license = "Apache-2.0"
@@ -38,9 +38,9 @@ dependencies = [
 ]
 
 [project.urls]
-Documentation = "https://github.com/aramis-lab/pydra-ants#readme"
-Issues = "https://github.com/aramis-lab/pydra-ants/issues"
-Source = "https://github.com/aramis-lab/pydra-ants"
+Documentation = "https://github.com/aramis-lab/clinica-pydra-ants#readme"
+Issues = "https://github.com/aramis-lab/clinica-pydra-ants/issues"
+Source = "https://github.com/aramis-lab/clinica-pydra-ants"
 
 [tool.hatch.build.targets.wheel]
 only-include = ["src/pydra/tasks/ants"]