Fix dataset processing dependencies and update common

* fix for components that were moved from main openproblems repo to datasets repo

* update submodule

Author: rcannood

_viash.yaml

@@ -72,3 +72,7 @@ repositories:
     type: github
     repo: openproblems-bio/openproblems
     tag: build/main
+  - name: datasets
+    type: github
+    repo: openproblems-bio/datasets
+    tag: build/main

common

@@ -108,16 +108,16 @@ resources:
 
 dependencies:
   - name: datasets/loaders/allen_brain_cell_atlas
-  - name: datasets/processors/subsample
-    repository: openproblems
-  - name: datasets/normalization/log_cp
-    repository: openproblems
-  - name: datasets/processors/pca
-    repository: openproblems
-  - name: datasets/processors/hvg
-    repository: openproblems
-  - name: datasets/processors/knn
-    repository: openproblems
+  - name: processors/subsample
+    repository: datasets
+  - name: normalization/log_cp
+    repository: datasets
+  - name: processors/pca
+    repository: datasets
+  - name: processors/hvg
+    repository: datasets
+  - name: processors/knn
+    repository: datasets
   - name: utils/extract_uns_metadata
     repository: openproblems
 

src/datasets/workflows/process_allen_brain_cell_atlas/config.vsh.yaml

@@ -67,12 +67,12 @@ resources:
 
 dependencies:
   - name: datasets/loaders/ganier_human_skin_sc
-  - name: datasets/processors/pca
-    repository: openproblems
-  - name: datasets/processors/hvg
-    repository: openproblems
-  - name: datasets/processors/knn
-    repository: openproblems
+  - name: processors/pca
+    repository: datasets
+  - name: processors/hvg
+    repository: datasets
+  - name: processors/knn
+    repository: datasets
   - name: utils/extract_uns_metadata
     repository: openproblems
 

src/datasets/workflows/process_ganier_human_skin_sc/config.vsh.yaml

@@ -67,14 +67,14 @@ resources:
 
 dependencies:
   - name: datasets/loaders/lee_human_colon_cancer_sc
-  - name: datasets/normalization/log_cp
-    repository: openproblems
-  - name: datasets/processors/pca
-    repository: openproblems
-  - name: datasets/processors/hvg
-    repository: openproblems
-  - name: datasets/processors/knn
-    repository: openproblems
+  - name: normalization/log_cp
+    repository: datasets
+  - name: processors/pca
+    repository: datasets
+  - name: processors/hvg
+    repository: datasets
+  - name: processors/knn
+    repository: datasets
   - name: utils/extract_uns_metadata
     repository: openproblems
 

src/datasets/workflows/process_lee_human_colon_cancer_sc/config.vsh.yaml

@@ -67,14 +67,14 @@ resources:
 
 dependencies:
   - name: datasets/loaders/lu_human_liver_cancer_sc
-  - name: datasets/normalization/log_cp
-    repository: openproblems
-  - name: datasets/processors/pca
-    repository: openproblems
-  - name: datasets/processors/hvg
-    repository: openproblems
-  - name: datasets/processors/knn
-    repository: openproblems
+  - name: normalization/log_cp
+    repository: datasets
+  - name: processors/pca
+    repository: datasets
+  - name: processors/hvg
+    repository: datasets
+  - name: processors/knn
+    repository: datasets
   - name: utils/extract_uns_metadata
     repository: openproblems
 

src/datasets/workflows/process_lu_human_liver_cancer_sc/config.vsh.yaml

@@ -80,14 +80,14 @@ dependencies:
   - name: datasets/loaders/wu_human_breast_cancer_sc
 #  - name: datasets/processors/subsample
 #    repository: openproblems
-  - name: datasets/normalization/log_cp
-    repository: openproblems
-  - name: datasets/processors/pca
-    repository: openproblems
-  - name: datasets/processors/hvg
-    repository: openproblems
-  - name: datasets/processors/knn
-    repository: openproblems
+  - name: normalization/log_cp
+    repository: datasets
+  - name: processors/pca
+    repository: datasets
+  - name: processors/hvg
+    repository: datasets
+  - name: processors/knn
+    repository: datasets
   - name: utils/extract_uns_metadata
     repository: openproblems
 #  - name: h5ad/extract_uns_metadata

src/datasets/workflows/process_wu_human_breast_cancer_sc/config.vsh.yaml

@@ -76,14 +76,14 @@ dependencies:
   - name: datasets/loaders/zuani_human_nsclc_sc
 #  - name: datasets/processors/subsample
 #    repository: openproblems
-  - name: datasets/normalization/log_cp
-    repository: openproblems
-  - name: datasets/processors/pca
-    repository: openproblems
-  - name: datasets/processors/hvg
-    repository: openproblems
-  - name: datasets/processors/knn
-    repository: openproblems
+  - name: normalization/log_cp
+    repository: datasets
+  - name: processors/pca
+    repository: datasets
+  - name: processors/hvg
+    repository: datasets
+  - name: processors/knn
+    repository: datasets
   - name: utils/extract_uns_metadata
     repository: openproblems
 

src/datasets/workflows/process_zuani_human_nsclc_sc/config.vsh.yaml

@@ -67,14 +67,14 @@ resources:
 
 dependencies:
   - name: datasets/loaders/travaglini_human_lung_sc
-  - name: datasets/normalization/log_cp
-    repository: openproblems
-  - name: datasets/processors/pca
-    repository: openproblems
-  - name: datasets/processors/hvg
-    repository: openproblems
-  - name: datasets/processors/knn
-    repository: openproblems
+  - name: normalization/log_cp
+    repository: datasets
+  - name: processors/pca
+    repository: datasets
+  - name: processors/hvg
+    repository: datasets
+  - name: processors/knn
+    repository: datasets
   - name: utils/extract_uns_metadata
     repository: openproblems