From f763df05e1f3870d15c15dd0e6d16397991c0141 Mon Sep 17 00:00:00 2001
From: Kai Waldrant <kai@data-intuitive.com>
Date: Wed, 10 Jul 2024 17:15:14 +0200
Subject: [PATCH] Create working components [WIP]: Update file test api

---
 src/api/file_test_h5ad.yaml | 53 ++++++++++++++++++-------------------
 1 file changed, 26 insertions(+), 27 deletions(-)

diff --git a/src/api/file_test_h5ad.yaml b/src/api/file_test_h5ad.yaml
index d373b84..908add2 100644
--- a/src/api/file_test_h5ad.yaml
+++ b/src/api/file_test_h5ad.yaml
@@ -1,6 +1,6 @@
 #TODO: Change to the required and/or optional fields of the anndata
 type: file
-example: "resources_test/denoising/pancreas/test.h5ad"
+example: "resources_test/task_template/cxg_mouse_pancreas_atlas/test.h5ad"
 info:
   label: "Test data"
   summary: The subset of molecules used for the test dataset
@@ -10,36 +10,35 @@ info:
         name: counts
         description: Raw counts
         required: true
+      - type: double
+        name: normalized
+        description: Normalized counts
+        required: true
+    obs:
+      - type: string
+        name: batch
+        description: Batch information
+        required: true
+    var:
+      - type: boolean
+        name: hvg
+        description: Whether or not the feature is considered to be a 'highly variable gene'
+        required: true
+      - type: double
+        name: hvg_score
+        description: A ranking of the features by hvg.
+        required: true
+    obsm:
+      - type: double
+        name: X_pca
+        description: The resulting PCA embedding.
+        required: true
     uns:
       - type: string
         name: dataset_id
         description: "A unique identifier for the dataset"
         required: true
-      - name: dataset_name
-        type: string
-        description: Nicely formatted name.
-        required: true
       - type: string
-        name: dataset_url
-        description: Link to the original source of the dataset.
-        required: false
-      - name: dataset_reference
-        type: string
-        description: Bibtex reference of the paper in which the dataset was published.
-        required: false
-      - name: dataset_summary
-        type: string
-        description: Short description of the dataset.
-        required: true
-      - name: dataset_description
-        type: string
-        description: Long description of the dataset.
-        required: true
-      - name: dataset_organism
-        type: string
-        description: The organism of the sample in the dataset.
-        required: false
-      - name: train_sum
-        type: integer
-        description: The total number of counts in the training dataset.
+        name: normalization_id
+        description: "Which normalization was used"
         required: true
\ No newline at end of file