Merge pull request #9 from gadgetron/hansenms/conda-build

Adding conda build and publish

.github/workflows/gadgetron_python_conda.yml

@@ -0,0 +1,39 @@
+on:
+  pull_request:
+    branches:    
+      - master
+  release:
+    types:
+      - created
+
+jobs:
+  build-conda-packages:
+    strategy:
+      matrix:
+        os: [ubuntu-latest, macos-latest]
+    runs-on: ${{ matrix.os }}
+    steps:
+      - uses: actions/checkout@2541b1294d2704b0964813337f33b291d3f8596b
+      - uses: conda-incubator/setup-miniconda@e81abac10ce2c37423b54eae5af93aa3b4d3475c
+        with:
+          activate-environment: ismrmrd-python-build
+          environment-file: conda/environment.yml
+          python-version: 3.9
+          auto-activate-base: false
+      - name: Build conda package
+        shell: bash -l {0}
+        working-directory: conda
+        run: |
+          ./package.sh
+          echo "Packages built: $(find build_pkg -name gadgetron-python*.tar.bz2)"
+      - name: Push conda package
+        shell: bash -l {0}
+        if: ${{ github.event_name == 'release' }}
+        env:
+          ANACONDA_TOKEN: ${{ secrets.ANACONDA_TOKEN }}
+        working-directory: conda
+        run: |
+          for p in $(find build_pkg -name gadgetron-python*.tar.bz2)
+          do
+            ./publish_package.sh -u gadgetron -t "$ANACONDA_TOKEN" -p "$p"
+          done

conda/.gitignore

@@ -0,0 +1,3 @@
+build_pkg/
+.pytest_cache/
+__pycache__/

conda/build.sh

@@ -0,0 +1,5 @@
+#!/bin/bash
+
+set -euo pipefail
+
+pip install .

conda/conda_build_config.yaml

@@ -0,0 +1,3 @@
+python:
+    - 3.9
+    - 3.10

conda/environment.yml

@@ -0,0 +1,7 @@
+name: gadgetron-python-build
+channels:
+  - conda-forge
+dependencies:
+  - conda-build
+  - anaconda-client
+

conda/meta.yaml

@@ -0,0 +1,32 @@
+{% set data = load_setup_py_data() %}
+
+package:
+  name: gadgetron-python
+  version: {{ data.get('version') }}
+
+source:
+  path: ../
+
+requirements:
+  build:
+    - python {{ python }}
+    - ismrmrd-python>=1.12.5
+    - numpy>=1.22.0
+    - pyFFTW>=0.11
+    - multimethod>=1.0
+
+  run:
+    - python
+    - numpy>=1.22.0
+    - pyFFTW>=0.11
+    - multimethod>=1.0
+    - ismrmrd-python>=1.12.5
+
+about:
+  home: https://github.com/gadgetron/gadgetron-python
+  license: MIT
+  summary: 'Python interface for Gadgetron'
+  description: |
+    Interface and utilities for the writing Gadgetron applications in Python.
+  dev_url: https://github.com/gadgetron/gadgetron-python
+  doc_url: https://github.com/gadgetron/gadgetron-python

conda/package.sh

@@ -0,0 +1,25 @@
+#!/bin/bash
+set -euo pipefail
+
+usage()
+{
+  cat << EOF
+
+Builds the gadgetron-python conda package.
+
+Usage: $0
+EOF
+}
+
+output_path="$(dirname "$0")/build_pkg"
+
+# Build up channel directives
+channels=(
+  conda-forge
+  ismrmrd
+)
+
+channel_directives=$(printf -- "-c %s " "${channels[@]}")
+
+mkdir -p "$output_path"
+bash -c "conda build --no-anaconda-upload --output-folder $output_path $channel_directives $(dirname "$0")"

conda/publish_package.sh

@@ -0,0 +1,77 @@
+#!/bin/bash
+set -euo pipefail
+
+usage()
+{
+  cat << EOF
+
+Publishes a conda package.
+
+Usage: $0 [options]
+
+Options:
+  -p|--package_path <path>               Path to the package (tar.gz) to push
+  -u|--user <user>                       Anaconda.org channeluser or organization
+  -t|--token <token>                     Token for uploading to anaconda.org
+  -f|--force                             Force push even if package exists
+  -h| --help  Brings up this menu
+EOF
+}
+
+while [[ $# -gt 0 ]]; do
+  key="$1"
+
+  case $key in
+    -p|--package_path)
+      package_path="$2"
+      shift
+      shift
+      ;;
+    -u|--user)
+      user="$2"
+      shift
+      shift
+      ;;
+    -t|--token)
+      token="$2"
+      shift
+      shift
+      ;;
+    --force)
+      force=1
+      shift
+      ;;
+    -h|--help)
+      usage
+      exit
+      ;;
+    *)
+      echo "ERROR: unknown option \"$key\""
+      usage
+      exit 1
+      ;;
+  esac
+done
+
+if [[ -z "${package_path:-}" ]]; then
+  echo "You cannot push to anaconda without a package"
+  echo "Please supply a package path with the --package_path argument"
+  exit 1
+fi
+if [[ -z "${token:-}" ]]; then
+  echo "You cannot push to anaconda without a token"
+  echo "Please supply a token with the --token argument"
+  exit 1
+fi
+if [[ -z "${user:-}" ]]; then
+  echo "You cannot push to anaconda without a user"
+  echo "Please supply a user with the --user argument"
+  exit 1
+fi
+
+force_directive="--skip-existing"
+if [[ -n ${force:-} ]]; then
+  force_directive="--force"
+fi
+
+anaconda -t "$token" upload -u "$user" $force_directive "$package_path"

conda/run_test.py

@@ -0,0 +1,10 @@
+import sys
+
+def ensure_importable():
+    try:
+        import gadgetron      
+    except ModuleNotFoundError or ImportError as ee:
+        print('This dummy test script can only run if gadgetron is importable : {0}'.format(ee.msg), file=sys.stderr)
+        exit(1)
+
+ensure_importable()

gadgetron/version.py

@@ -1,6 +1,6 @@
 
 major = 1
-minor = 3
-build = 6
+minor = 4
+build = 0
 
 version = f"{major}.{minor}.{build}"

setup.py

@@ -22,9 +22,9 @@
     author_email='[email protected]',
     description='',
     install_requires=[
-        'numpy>=1.15.1',
-        'ismrmrd>=1.6.2',
+        'numpy>=1.22',
+        'ismrmrd>=1.12.5',
         'pyFFTW>=0.11',
-        'multimethod >= 1.0'
+        'multimethod>=1.0'
     ]
 )