Remove logic function layer (#17697)

## Remove logic function layer

Package.json and yarn.lock are now on the application entity, so the
logic function layer is no longer used except as a legacy source for the
1.17 backfill. This PR removes all layer usage outside of that migration
and keeps only the entity for backfill.

### Summary

- **Kept:** `LogicFunctionLayerEntity` and its table, only used by the
1.17 backfill command to read legacy layer data and backfill application
package files.
- **Removed:** All other layer logic: CRUD, cache, resolvers, services,
DTOs, and frontend types. Logic functions now depend only on the
application for package/dependency context.


### Why Dependencies instead of Source for package files

Package.json and yarn.lock are the application’s dependency set and are
stored under the application in **FileFolder.Dependencies**. The build
service and drivers now read them only from Dependencies; nothing is
written to Source for these files.

packages/twenty-server/src/engine/metadata-modules/logic-function/logic-function.entity.ts

@@ -6,16 +6,12 @@ import {
   DeleteDateColumn,
   Entity,
   Index,
-  JoinColumn,
-  ManyToOne,
   PrimaryGeneratedColumn,
-  Relation,
   UpdateDateColumn,
 } from 'typeorm';
 
-import { type JsonbProperty } from 'src/engine/workspace-manager/workspace-migration/universal-flat-entity/types/jsonb-property.type';
-import { LogicFunctionLayerEntity } from 'src/engine/metadata-modules/logic-function-layer/logic-function-layer.entity';
 import { SyncableEntity } from 'src/engine/workspace-manager/types/syncable-entity.interface';
+import { type JsonbProperty } from 'src/engine/workspace-manager/workspace-migration/universal-flat-entity/types/jsonb-property.type';
 
 export type CronTriggerSettings = {
   pattern: string;
@@ -46,7 +42,6 @@ export const DEFAULT_HANDLER_NAME = 'main';
 
 @Entity('logicFunction')
 @Index('IDX_LOGIC_FUNCTION_ID_DELETED_AT', ['id', 'deletedAt'])
-@Index('IDX_LOGIC_FUNCTION_LAYER_ID', ['logicFunctionLayerId'])
 export class LogicFunctionEntity
   extends SyncableEntity
   implements Required<LogicFunctionEntity>
@@ -85,17 +80,6 @@ export class LogicFunctionEntity
   @Column({ nullable: false, default: false })
   isTool: boolean;
 
-  @Column({ nullable: false, type: 'uuid' })
-  logicFunctionLayerId: string;
-
-  @ManyToOne(
-    () => LogicFunctionLayerEntity,
-    (logicFunctionLayer) => logicFunctionLayer.logicFunctions,
-    { nullable: false },
-  )
-  @JoinColumn({ name: 'logicFunctionLayerId' })
-  logicFunctionLayer: Relation<LogicFunctionLayerEntity>;
-
   @Column({ nullable: true, type: 'jsonb' })
   cronTriggerSettings: JsonbProperty<CronTriggerSettings> | null;