Update the collection page table with the latest dynamic data table options

pydatalab/src/pydatalab/routes/v0_1/collections.py

@@ -419,3 +419,44 @@ def add_items_to_collection(collection_id):
         )
 
     return (jsonify({"status": "success"}), 200)
+
+
+@COLLECTIONS.route("/collections/<collection_id>/items", methods=["DELETE"])
+def remove_items_from_collection(collection_id):
+    data = request.get_json()
+    refcodes = data.get("refcodes", [])
+
+    collection = flask_mongo.db.collections.find_one(
+        {"collection_id": collection_id, **get_default_permissions()}, projection={"_id": 1}
+    )
+
+    if not collection:
+        return jsonify({"error": "Collection not found"}), 404
+
+    if not refcodes:
+        return jsonify({"error": "No refcodes provided"}), 400
+
+    update_result = flask_mongo.db.items.update_many(
+        {"refcode": {"$in": refcodes}, **get_default_permissions()},
+        {
+            "$pull": {
+                "relationships": {
+                    "immutable_id": ObjectId(collection["_id"]),
+                    "type": "collections",
+                }
+            }
+        },
+    )
+
+    if update_result.matched_count == 0:
+        return jsonify({"status": "error", "message": "No matching items found."}), 404
+
+    elif update_result.matched_count != len(refcodes):
+        return jsonify(
+            {
+                "status": "partial-success",
+                "message": f"Only {update_result.matched_count} items updated",
+            }
+        ), 207
+
+    return jsonify({"status": "success", "removed_count": update_result.modified_count}), 200

pydatalab/tests/server/test_samples.py

@@ -750,3 +750,186 @@ def test_add_items_to_collection_success(client, default_collection, example_ite
     child_refcodes = [item["refcode"] for item in collection_data["child_items"]]
 
     assert all(refcode in child_refcodes for refcode in refcodes)
+
+
+@pytest.mark.dependency()
+def test_remove_items_from_collection_success(
+    client, database, default_sample_dict, default_collection
+):
+    """Test successfully removing items from a collection."""
+    sample_1_dict = default_sample_dict.copy()
+    sample_1_dict["item_id"] = "test_sample_remove_1"
+    sample_1_dict["collections"] = []
+
+    sample_2_dict = default_sample_dict.copy()
+    sample_2_dict["item_id"] = "test_sample_remove_2"
+    sample_2_dict["collections"] = []
+
+    for sample_dict in [sample_1_dict, sample_2_dict]:
+        response = client.post("/new-sample/", json=sample_dict)
+        assert response.status_code == 201
+
+    collection_dict = default_collection.dict()
+    collection_dict["collection_id"] = "test_collection_remove"
+    response = client.put("/collections", json={"data": collection_dict})
+    assert response.status_code == 201
+
+    collection_from_db = database.collections.find_one({"collection_id": "test_collection_remove"})
+    collection_object_id = collection_from_db["_id"]
+
+    item_ids = [sample_1_dict["item_id"], sample_2_dict["item_id"]]
+
+    for item_id in item_ids:
+        database.items.update_one(
+            {"item_id": item_id},
+            {
+                "$push": {
+                    "relationships": {
+                        "type": "collections",
+                        "immutable_id": collection_object_id,
+                    }
+                }
+            },
+        )
+
+    for item_id in item_ids:
+        item = database.items.find_one({"item_id": item_id})
+        assert item is not None
+        collection_relationships = [
+            rel for rel in item.get("relationships", []) if rel.get("type") == "collections"
+        ]
+        assert len(collection_relationships) == 1
+
+    item_1_refcode = client.get(f"/get-item-data/{sample_1_dict['item_id']}").json["item_data"][
+        "refcode"
+    ]
+    item_2_refcode = client.get(f"/get-item-data/{sample_2_dict['item_id']}").json["item_data"][
+        "refcode"
+    ]
+    refcodes = [item_1_refcode, item_2_refcode]
+
+    response = client.delete(
+        "/collections/test_collection_remove/items", json={"refcodes": refcodes}
+    )
+
+    assert response.status_code == 200
+    data = response.get_json()
+    assert data["status"] == "success"
+    assert data["removed_count"] == 2
+
+    for item_id in item_ids:
+        item = database.items.find_one({"item_id": item_id})
+        assert item is not None
+        collection_relationships = [
+            rel for rel in item.get("relationships", []) if rel.get("type") == "collections"
+        ]
+        assert len(collection_relationships) == 0
+
+
+@pytest.mark.dependency()
+def test_remove_items_from_collection_not_found(client):
+    """Test removing items from non-existent collection."""
+    response = client.delete(
+        "/collections/nonexistent_collection/items", json={"refcodes": ["refcode1", "refcode2"]}
+    )
+
+    assert response.status_code == 404
+    data = response.get_json()
+    assert data["error"] == "Collection not found"
+
+
+@pytest.mark.dependency()
+def test_remove_items_from_collection_no_items_provided(client, default_collection):
+    """Test removing with no item IDs provided."""
+    collection_dict = default_collection.dict()
+    collection_dict["collection_id"] = "test_collection_empty_items"
+    response = client.put("/collections", json={"data": collection_dict})
+    assert response.status_code == 201
+
+    collection_id = collection_dict["collection_id"]
+    response = client.delete(f"/collections/{collection_id}/items", json={"refcodes": []})
+
+    assert response.status_code == 400
+    data = response.get_json()
+    assert data["error"] == "No refcodes provided"
+
+
+@pytest.mark.dependency()
+def test_remove_items_from_collection_no_matching_items(client, default_collection):
+    """Test removing items that don't exist."""
+    collection_dict = default_collection.dict()
+    collection_dict["collection_id"] = "test_collection_no_match"
+    response = client.put("/collections", json={"data": collection_dict})
+    assert response.status_code == 201
+
+    collection_id = collection_dict["collection_id"]
+    response = client.delete(
+        f"/collections/{collection_id}/items",
+        json={"refcodes": ["nonexistent_refcode_1", "nonexistent_refcode_2"]},
+    )
+
+    assert response.status_code == 404
+    data = response.get_json()
+    assert data["status"] == "error"
+    assert data["message"] == "No matching items found."
+
+
+@pytest.mark.dependency()
+def test_remove_items_from_collection_partial_success(
+    client, database, default_sample_dict, default_collection
+):
+    """Test removing items where some exist in collection and some don't."""
+    sample_dict = default_sample_dict.copy()
+    sample_dict["item_id"] = "test_sample_partial"
+    sample_dict["collections"] = []
+
+    response = client.post("/new-sample/", json=sample_dict)
+    assert response.status_code == 201
+
+    collection_dict = default_collection.dict()
+    collection_dict["collection_id"] = "test_collection_partial"
+    response = client.put("/collections", json={"data": collection_dict})
+    assert response.status_code == 201
+
+    collection_from_db = database.collections.find_one({"collection_id": "test_collection_partial"})
+    collection_object_id = collection_from_db["_id"]
+
+    item_id = sample_dict["item_id"]
+
+    database.items.update_one(
+        {"item_id": item_id},
+        {
+            "$push": {
+                "relationships": {
+                    "type": "collections",
+                    "immutable_id": collection_object_id,
+                }
+            }
+        },
+    )
+
+    item = database.items.find_one({"item_id": item_id})
+    collection_relationships = [
+        rel for rel in item.get("relationships", []) if rel.get("type") == "collections"
+    ]
+    assert len(collection_relationships) == 1
+
+    item_refcode = client.get(f"/get-item-data/{sample_dict['item_id']}").json["item_data"][
+        "refcode"
+    ]
+
+    response = client.delete(
+        "/collections/test_collection_partial/items",
+        json={"refcodes": [item_refcode, "nonexistent_refcode"]},
+    )
+
+    assert response.status_code == 207
+    data = response.get_json()
+    assert data["status"] == "partial-success"
+    assert "Only 1 items updated" in data["message"]
+
+    item = database.items.find_one({"item_id": item_id})
+    collection_relationships = [
+        rel for rel in item.get("relationships", []) if rel.get("type") == "collections"
+    ]
+    assert len(collection_relationships) == 0

webapp/src/components/CollectionInformation.vue

@@ -38,16 +38,18 @@
     <DynamicDataTable
       :data="children"
       :columns="collectionTableColumns"
-      :data-type="'samples'"
+      :data-type="'collectionItems'"
       :global-filter-fields="[
         'item_id',
         'name',
         'refcode',
-        'chemform',
         'blocks',
+        'chemform',
         'characteristic_chemical_formula',
       ]"
-      :show-buttons="false"
+      :show-buttons="true"
+      :collection-id="collection_id"
+      @remove-selected-items-from-collection="handleItemsRemovedFromCollection"
     />
   </div>
 </template>
@@ -115,6 +117,9 @@ export default {
           this.fetchError = true;
         });
     },
+    handleItemsRemovedFromCollection() {
+      this.getCollectionChildren();
+    },
   },
 };
 </script>

webapp/src/components/CollectionSelect.vue

@@ -39,7 +39,11 @@
 <script>
 import vSelect from "vue-select";
 import FormattedCollectionName from "@/components/FormattedCollectionName.vue";
-import { searchCollections, createNewCollection } from "@/server_fetch_utils.js";
+import {
+  searchCollections,
+  createNewCollection,
+  removeItemsFromCollection,
+} from "@/server_fetch_utils.js";
 import { validateEntryID } from "@/field_utils.js";
 import { debounceTime } from "@/resources.js";
 
@@ -65,6 +69,7 @@ export default {
       collections: [],
       isSearchFetchError: false,
       searchQuery: "",
+      pendingRemovals: [],
     };
   },
   computed: {
@@ -74,6 +79,14 @@ export default {
         return this.modelValue;
       },
       set(newValue) {
+        const oldIds = this.modelValue?.map((c) => c.collection_id) || [];
+        const newIds = newValue?.map((c) => c.collection_id) || [];
+        const removedIds = oldIds.filter((id) => !newIds.includes(id));
+
+        if (removedIds.length > 0) {
+          this.pendingRemovals.push(...removedIds);
+        }
+
         this.$emit("update:modelValue", newValue);
       },
     },
@@ -151,6 +164,19 @@ export default {
         }
       }
     },
+    async processPendingRemovals() {
+      if (this.pendingRemovals.length > 0) {
+        const item_id = this.item_id;
+        for (const collection_id of this.pendingRemovals) {
+          try {
+            await removeItemsFromCollection(collection_id, [item_id]);
+          } catch (error) {
+            console.error("Error removing item from collection:", error);
+          }
+        }
+        this.pendingRemovals = [];
+      }
+    },
   },
 };
 </script>

webapp/src/components/DynamicDataTable.vue

@@ -45,6 +45,7 @@
           :show-buttons="showButtons"
           :available-columns="availableColumns"
           :selected-columns="selectedColumns"
+          :collection-id="collectionId"
           @update:filters="updateFilters"
           @update:selected-columns="onToggleColumns"
           @open-create-item-modal="createItemModalIsOpen = true"
@@ -54,6 +55,7 @@
           @open-create-equipment-modal="createEquipmentModalIsOpen = true"
           @open-add-to-collection-modal="addToCollectionModalIsOpen = true"
           @delete-selected-items="deleteSelectedItems"
+          @remove-selected-items-from-collection="removeSelectedItemsFromCollection"
           @reset-table="handleResetTable"
         />
       </template>
@@ -322,7 +324,13 @@ export default {
       required: false,
       default: "edit",
     },
+    collectionId: {
+      type: String,
+      required: false,
+      default: null,
+    },
   },
+  emits: ["remove-selected-items-from-collection"],
   data() {
     return {
       createItemModalIsOpen: false,
@@ -711,6 +719,10 @@ export default {
     deleteSelectedItems() {
       this.itemsSelected = [];
     },
+    removeSelectedItemsFromCollection() {
+      this.itemsSelected = [];
+      this.$emit("remove-selected-items-from-collection");
+    },
     handleItemsUpdated() {
       this.itemsSelected = [];
     },