fix caching

.devcontainer/Dockerfile

@@ -1,9 +1,11 @@
 FROM scilus/scilus:2.0.2
 
 ARG NFTEST_VERSION
+ARG POETRY_VERSION
 
 ENV NODE_MAJOR=18
 ENV NFTEST_VERSION=${NFTEST_VERSION:-0.9.0-rc1}
+ENV POETRY_VERSION=${POETRY_VERSION:-1.8.*}
 
 RUN apt update && apt install -y \
         curl \
@@ -14,7 +16,7 @@ RUN apt update && apt install -y \
 
 RUN python3 -m pip install pipx && \
     python3 -m pipx ensurepath && \
-    pipx install poetry
+    pipx install poetry==${POETRY_VERSION}
 
 RUN curl -fsSL https://deb.nodesource.com/setup_${NODE_MAJOR}.x | bash - &&\
     apt-get install -y nodejs && \

.devcontainer/devcontainer.json

@@ -3,7 +3,8 @@
     "build": {
         "dockerfile": "Dockerfile",
         "args": {
-            "NFTEST_VERSION": "0.9.0-rc1"
+            "NFTEST_VERSION": "0.9.0-rc1",
+            "POETRY_VERSION": "1.8.*"
         }
     },
     "forwardPorts": [3000],

.github/workflows/checks.yml

@@ -128,7 +128,6 @@ jobs:
       type: "module"
       component: ${{ matrix.module }}
       nextflow_version: ${{ inputs.nextflow_version }}
-      nf_core_version: ${{ inputs.nf_core_version }}
     secrets: inherit
 
   lint-subworkflows:
@@ -146,7 +145,6 @@ jobs:
       type: "subworkflow"
       component: ${{ matrix.subworkflow }}
       nextflow_version: ${{ inputs.nextflow_version }}
-      nf_core_version: ${{ inputs.nf_core_version }}
     secrets: inherit
 
   nf-test:

.github/workflows/lint_module.yml

@@ -19,11 +19,6 @@ on:
         required: false
         type: string
         default: "24.04.4"
-      nf_core_version:
-        description: "nf-core version to use"
-        required: false
-        type: string
-        default: "2.14.*"
   workflow_call:
     inputs:
       component:
@@ -39,11 +34,6 @@ on:
         required: false
         type: string
         default: "24.04.4"
-      nf_core_version:
-        description: "nf-core version to use"
-        required: false
-        type: string
-        default: "2.14.*"
 
 run-name: Lint ${{ inputs.component }}
 jobs:
@@ -57,6 +47,9 @@ jobs:
         with:
           python-version: "3.11"
           cache: 'pip'
+      - uses: abatilo/actions-poetry@v2
+        with:
+          poetry-version: "1.8.*"
       - uses: actions/setup-java@v4
         with:
           distribution: "temurin"
@@ -65,13 +58,9 @@ jobs:
       - uses: nf-core/setup-nextflow@v2
         with:
           version: ${{ inputs.nextflow_version }}
-
-      - name: Upgrade pip
-        run: python -m pip install --upgrade pip
-
       - name: Install nf-core tools
         run: |
-          python -m pip install --upgrade --force-reinstall nf-core==${{ inputs.nf_core_version }}
+          poetry install --no-root
 
       - name: Lint ${{ inputs.type }} ${{ inputs.component }}
         env:

.github/workflows/publish_extension.yml

@@ -28,6 +28,7 @@ jobs:
         with:
           node-version: 20
           cache: "npm"
+          cache-dependency-path: nf-scil-extensions/${{ inputs.name }}/package-lock.json
 
       - name: npm clean install
         working-directory: nf-scil-extensions/${{ inputs.name }}

README.md

@@ -138,7 +138,7 @@ run the following commands :
 ```bash
 pip install pipx
 pipx ensurepath
-pipx install poetry
+pipx install poetry==1.8.*
 ```
 
 > [!NOTE]