move from reconstruction to cell morphology

Author: bilalesi

src/api/entitycore/guards.ts

@@ -22,7 +22,7 @@ export function hasAssets(
 export function isReconstructionMorphology(
   entity: EntityCoreObjectTypes
 ): entity is IReconstructionMorphology {
-  return entity.type === EntityTypeEnum.ReconstructionMorphology;
+  return entity.type === EntityTypeEnum.CellMorphology;
 }
 
 export function isElectricalCellRecording(

src/api/entitycore/queries/experimental/cell-morphology.ts

@@ -0,0 +1,70 @@
+import { entityCoreApi, getEntityCoreContext } from '@/api/entitycore/utils';
+import type {
+  ExpandCellMorphologyParm,
+  CellMorphologyFilter,
+  ICellMorphology,
+  ICellMorphologyExpanded,
+} from '@/api/entitycore/types/entities/cell-morphology';
+import type { EntityCoreResponse } from '@/api/entitycore/types/shared/response';
+import type { WorkspaceContext } from '@/types/common';
+
+const baseUri = '/cell-morphology';
+/**
+ * Retrieves a list of cell morphologies from the EntityCoreAPI.
+ *
+ * @param {Object} options - The options object
+ * @param {CellMorphologyFilter} [options.filters] - Optional filters to apply to the query
+ * @returns {Promise<EntityCoreResponse<ICellMorphology>>} A promise that resolves to the list of cell morphologies
+ */
+export async function getCellMorphologies({
+  withFacets,
+  filters,
+  context,
+}: {
+  withFacets?: boolean;
+  filters?: CellMorphologyFilter;
+  context?: WorkspaceContext | null;
+}) {
+  const api = await entityCoreApi();
+  return await api.get<EntityCoreResponse<ICellMorphology | ICellMorphologyExpanded>>(baseUri, {
+    queryParams: {
+      ...filters,
+      with_facets: withFacets,
+    },
+    headers: {
+      accept: 'application/json',
+      'content-type': 'application/json',
+      ...getEntityCoreContext(context).headers,
+    },
+  });
+}
+
+/**
+ * Retrieves a specific cell morphology by its ID from the EntityCoreAPI.
+ *
+ * @param {Object} params - The parameters object
+ * @param {string} params.id - The unique identifier of the cell morphology to retrieve
+ * @param {ExpandCellMorphologyParm} params.expand - Parameter to specify if the morphology should be expanded
+ * @returns {Promise<ICellMorphology | ICellMorphologyExpanded>} A promise that resolves to the requested cell morphology
+ */
+export async function getCellMorphology({
+  id,
+  expand,
+  context,
+}: {
+  id: string;
+  expand?: ExpandCellMorphologyParm;
+  context?: WorkspaceContext | null;
+}) {
+  const api = await entityCoreApi();
+  return await api.get<ICellMorphology | ICellMorphologyExpanded>(`${baseUri}/${id}`, {
+    queryParams: {
+      expand,
+    },
+    headers: {
+      accept: 'application/json',
+      'content-type': 'application/json',
+      ...getEntityCoreContext(context).headers,
+    },
+  });
+}

src/api/entitycore/queries/experimental/reconstruction-morphology.ts

@@ -1,4 +1,4 @@
-export * from '@/api/entitycore/queries/experimental/reconstruction-morphology';
+export * from '@/api/entitycore/queries/experimental/cell-morphology';
 export * from '@/api/entitycore/queries/experimental/electrical-cell-recording';
 export * from '@/api/entitycore/queries/experimental/synapses-per-connection';
 export * from '@/api/entitycore/queries/experimental/neuron-density';

src/api/entitycore/queries/index.ts

@@ -5,9 +5,8 @@ import type {
   SharedFilter,
   ContributionFilter,
   BrainRegionFilter,
-  SpeciesFilter,
-  StainFilter,
   MtypeFilter,
+  SubjectFilter,
 } from '@/api/entitycore/types/shared/request';
 import type { IExperimentalDensity } from '@/api/entitycore/types/shared/density';
 
@@ -21,7 +20,6 @@ export type ExperimentalBoutonDensityFilter = Partial<
     PaginationFilter &
     ContributionFilter &
     BrainRegionFilter &
-    SpeciesFilter &
-    StainFilter &
-    MtypeFilter
+    MtypeFilter &
+    SubjectFilter
 >;