MAINT: env file & distro updates for rachis name change

Author: lizgehret

.github/workflows/ci.yml

@@ -38,8 +38,8 @@ jobs:
     - name: Set up Conda
       uses: qiime2-cutlery/setup-miniconda@v3
       with:
-        activate-environment: q2-hello-world-qiime2-tiny-dev
-        environment-file: q2-hello-world/environment-files/q2-hello-world-qiime2-tiny-dev.yml
+        activate-environment: q2-hello-world-rachis-tiny-dev
+        environment-file: q2-hello-world/environment-files/q2-hello-world-rachis-tiny-dev.yml
         auto-activate-base: false
 
     - name: Install plugin

copier.yaml

@@ -29,7 +29,7 @@ plugin_short_description:
   help: Shorter description, shown when plugin is presented in a list
 target_distro:
   default: tiny
-  choices: [tiny, amplicon, metagenome]
+  choices: [tiny, qiime2, moshpit, pathogenome]
   help: Target distribution (if you're not sure, stick with the default).
 license:
   default: skip-license

template/{{ package_name }}/.github/workflows/ci.yml

@@ -19,8 +19,8 @@ jobs:
     - name: Set up Conda
       uses: conda-incubator/setup-miniconda@v3
       with:
-        activate-environment: {{ package_name }}-qiime2-{{ target_distro }}-dev
-        environment-file: environment-files/{{ package_name }}-qiime2-{{ target_distro }}-dev.yml
+        activate-environment: {{ package_name }}-rachis-{{ target_distro }}-dev
+        environment-file: environment-files/{{ package_name }}-rachis-{{ target_distro }}-dev.yml
         auto-activate-base: false
 
     - name: Install plugin

template/{{ package_name }}/.github/workflows/release-env.yml

@@ -76,7 +76,7 @@ jobs:
           released_epoch = os.environ['RELEASED_EPOCH']
 
           release_env_path = \
-            f'environment-files/{pkg_name}-qiime2-{target_distro}-release.yml'
+            f'environment-files/{pkg_name}-rachis-{target_distro}-release.yml'
 
           if not os.path.exists(release_env_path):
             raise Exception(f'{release_env_path} not found.')
@@ -128,7 +128,7 @@ jobs:
           if not updated:
             raise ValueError(f'No pip install found for package {pkg_name}.')
 
-          new_env_path = f'environment-files/{pkg_name}-qiime2-{target_distro}-{released_epoch}-release-{os.environ['RELEASE_TAG']}.yml'
+          new_env_path = f'environment-files/{pkg_name}-rachis-{target_distro}-{released_epoch}-release-{os.environ['RELEASE_TAG']}.yml'
           with open(new_env_path, 'w') as fh:
             yaml.safe_dump(env_data, fh, sort_keys=False)
 
@@ -184,7 +184,7 @@ jobs:
         run: |
           set -e
           git checkout automated/release-${{ '{{' }} env.RELEASE_TAG {{ '}}' }}-env-file-updates
-          ENV_PATH="environment-files/${{ '{{' }} env.PACKAGE_NAME {{ '}}' }}-qiime2-${{ '{{' }} env.TARGET_DISTRO {{ '}}' }}-${{ '{{' }} env.RELEASED_EPOCH {{ '}}' }}-release-${{ '{{' }} env.RELEASE_TAG {{ '}}' }}.yml"
+          ENV_PATH="environment-files/${{ '{{' }} env.PACKAGE_NAME {{ '}}' }}-rachis-${{ '{{' }} env.TARGET_DISTRO {{ '}}' }}-${{ '{{' }} env.RELEASED_EPOCH {{ '}}' }}-release-${{ '{{' }} env.RELEASE_TAG {{ '}}' }}.yml"
 
           conda env create -n test-release-env -f "$ENV_PATH"
 

…me }}-qiime2-{{ target_distro }}-dev.yml …me }}-rachis-{{ target_distro }}-dev.ymltemplate/{{ package_name }}/environment-files/{{ package_name }}-qiime2-{{ target_distro }}-dev.yml renamed to template/{{ package_name }}/environment-files/{{ package_name }}-rachis-{{ target_distro }}-dev.yml template/{{ package_name }}/environment-files/{{ package_name }}-qiime2-{{ target_distro }}-dev.yml renamed to template/{{ package_name }}/environment-files/{{ package_name }}-rachis-{{ target_distro }}-dev.yml

@@ -3,7 +3,7 @@ channels:
 - conda-forge
 - bioconda
 dependencies:
-  - qiime2-{{ target_distro }}
+  - rachis-{{ target_distro }}
   # Note 1: Add any additional conda dependencies here.
   - pip
   - pip:

…}-qiime2-{{ target_distro }}-release.yml …}-rachis-{{ target_distro }}-release.ymltemplate/{{ package_name }}/environment-files/{{ package_name }}-qiime2-{{ target_distro }}-release.yml renamed to template/{{ package_name }}/environment-files/{{ package_name }}-rachis-{{ target_distro }}-release.yml template/{{ package_name }}/environment-files/{{ package_name }}-qiime2-{{ target_distro }}-release.yml renamed to template/{{ package_name }}/environment-files/{{ package_name }}-rachis-{{ target_distro }}-release.yml

@@ -3,7 +3,7 @@ channels:
 - conda-forge
 - bioconda
 dependencies:
-  - qiime2-{{ target_distro }}
+  - rachis-{{ target_distro }}
   # Note 1: Add any additional conda dependencies here.
   - pip
   - pip: