Merge pull request #10 from fractal-analytics-platform/9-update-dependency-on-fractal-tasks-core

Switch to fractal-task-tools

Author: lorenzocerrone

.github/workflows/build_and_test.yml

@@ -31,18 +31,9 @@ jobs:
         with:
           pixi-version: v0.44.0
 
-      - name: re-create manifest
-        run: pixi run -e dev python src/ilastik_tasks/dev/create_manifest.py
-
       - name: Check if manifest has changed
-        run: |
-          if [ -n "$(git diff --exit-code ./src/ilastik_tasks/__FRACTAL_MANIFEST__.json)" ]; then
-          echo "__FRACTAL_MANIFEST__.json has changed. Please run 'python src/ilastik_tasks/dev/create_manifest.py' and commit the changes."
-            exit 1
-          else
-            echo "__FRACTAL_MANIFEST__.json has not changed."
-          fi
-
+        run: pixi run fractal-manifest check --package ilastik-tasks
+        
       - name: Run tests
         run: pixi run -e dev pytest
 

pyproject.toml

@@ -117,4 +117,5 @@ pydantic = "==2.8.2"
 docstring_parser = "==0.15"
 ilastik-core = ">=1.4.2a1,<2"
 vigra = ">=1.12.1,<2"
-fractal-tasks-core = "==1.4.3"
+fractal-tasks-core = "==1.5.3"
+fractal-task-tools = "==0.0.12"

src/ilastik_tasks/__FRACTAL_MANIFEST__.json

@@ -8,6 +8,7 @@
         "Pixel Classifier"
       ],
       "docs_info": "### Purpose\n\nThis task is used to apply a ilastik pixel classifier to an image.\n\n### Outputs\n\n- The `ilastik_pixel_classification_segmentation`: Generates a new label image named `output_label_name`.\n\n### Limitations\n\n- The task can only be used with single and dual channels pixel classifiers models.",
+      "type": "parallel",
       "executable_parallel": "ilastik_pixel_classification_segmentation.py",
       "meta_parallel": {
         "cpus_per_task": 8,

src/ilastik_tasks/dev/create_manifest.py

@@ -1,6 +1,9 @@
 """Contains the list of tasks available to fractal."""
 
-from fractal_tasks_core.dev.task_models import ParallelTask
+from fractal_task_tools.task_models import ParallelTask
+
+AUTHORS = "Lorenzo Cerrone"
+DOCS_LINK = "https://github.com/fractal-analytics-platform/fractal-ilastik-tasks"
 
 TASK_LIST = [
     ParallelTask(

src/ilastik_tasks/dev/task_list.py

@@ -576,7 +576,7 @@ def check_ilastik_model_channels(shell) -> int:
 
 
 if __name__ == "__main__":
-    from fractal_tasks_core.tasks._utils import run_fractal_task
+    from fractal_task_tools.task_wrapper import run_fractal_task
 
     run_fractal_task(
         task_function=ilastik_pixel_classification_segmentation,