From ade957e825ff654e43d316e83260609dc0cbbbbe Mon Sep 17 00:00:00 2001
From: Kai Waldrant <kai@data-intuitive.com>
Date: Thu, 11 Jul 2024 20:28:59 +0200
Subject: [PATCH] add process_datasets workflow config

---
 .../process_datasets/config.vsh.yaml          | 34 +++++++++++++++++++
 1 file changed, 34 insertions(+)
 create mode 100644 src/workflows/process_datasets/config.vsh.yaml

diff --git a/src/workflows/process_datasets/config.vsh.yaml b/src/workflows/process_datasets/config.vsh.yaml
new file mode 100644
index 0000000..10d9a36
--- /dev/null
+++ b/src/workflows/process_datasets/config.vsh.yaml
@@ -0,0 +1,34 @@
+name: process_datasets
+namespace: workflows
+argument_groups:
+  - name: Inputs
+    arguments:
+      - name: "--input"
+        __merge__: /src/api/file_common_dataset.yaml
+        required: true
+        direction: input
+  - name: Outputs
+    arguments:
+      - name: "--output_train"
+        __merge__: /src/api/file_train_h5ad.yaml
+        required: true
+        direction: output
+      - name: "--output_test"
+        __merge__: /src/api/file_test_h5ad.yaml
+        required: true
+        direction: output
+      - name: "--output_solution"
+        __merge__: /src/api/file_solution.yaml
+        required: true
+        direction: output
+resources:
+  - type: nextflow_script
+    path: main.nf
+    entrypoint: run_wf
+  - path: /common/nextflow_helpers/helper.nf
+dependencies:
+  - name: common/check_dataset_schema
+  - name: common/extract_metadata
+  - name: predict_modality/process_dataset
+runners:
+  - type: nextflow
\ No newline at end of file