fix: add and remove missing database indexes

The database migrations are out of sync with the codebase:

1. The code doesn't know about some of the indexes in the migrations.
2. The code has indexes that don't exist in the migrations.
3. The code has misconfigured indexes; the ORM cannot read them but doesn't error until it tries to apply the broken SQL.

These problems caused a failure in CI as it now checks that no migrations are missing. This change removes the broken and unapplied changes and adds in code for the missing ones to allow CI to pass.

I'm not sure if any of the valid but unapplied indexes would help with performance issues, but they can be revisited later.

Refs #388, #395, #400, d4c18e4

src/backend/models/entities/Badge.ts

@@ -2,7 +2,6 @@ import {
   Collection,
   Entity,
   EntityRepositoryType,
-  Index,
   ManyToMany,
   Property,
   Unique,
@@ -13,7 +12,6 @@ import { BaseEntity } from './BaseEntity';
 import { Persona } from './Persona';
 
 @Entity()
-@Index({ properties: ['personas'] })
 export class Badge extends BaseEntity {
   [EntityRepositoryType]?: BadgeModel;
 

src/backend/models/entities/Community.ts

@@ -2,7 +2,6 @@ import {
   Collection,
   Entity,
   EntityRepositoryType,
-  Index,
   ManyToMany,
   OneToMany,
   Property,
@@ -19,12 +18,6 @@ import { Template } from './Template';
 import { User } from './User';
 
 @Entity()
-@Index({ properties: ['members'] })
-@Index({ properties: ['owners'] })
-@Index({ properties: ['preprints'] })
-@Index({ properties: ['events'] })
-@Index({ properties: ['tags'] })
-@Index({ properties: ['templates'] })
 export class Community extends BaseEntity {
   [EntityRepositoryType]?: CommunityModel;
 

src/backend/models/entities/FullReview.ts

@@ -2,7 +2,6 @@ import {
   Collection,
   Entity,
   EntityRepositoryType,
-  Index,
   ManyToMany,
   ManyToOne,
   OneToMany,
@@ -20,14 +19,6 @@ import { Statement } from './Statement';
 import { createRandomDoi } from '../../utils/ids';
 
 @Entity()
-@Index({ properties: ['drafts'] })
-@Index({ properties: ['mentorInvites'] })
-@Index({ properties: ['mentors'] })
-@Index({ properties: ['authorInvites'] })
-@Index({ properties: ['authors'] })
-@Index({ properties: ['preprint'] })
-@Index({ properties: ['comments'] })
-@Index({ properties: ['statements'] })
 export class FullReview extends BaseEntity {
   [EntityRepositoryType]?: FullReviewModel;
 

src/backend/models/entities/Group.ts

@@ -2,7 +2,6 @@ import {
   Collection,
   Entity,
   EntityRepositoryType,
-  Index,
   ManyToMany,
   Property,
   Unique,
@@ -13,7 +12,6 @@ import { BaseEntity } from './BaseEntity';
 import { User } from './User';
 
 @Entity()
-@Index({ properties: ['members'] })
 export class Group extends BaseEntity {
   [EntityRepositoryType]?: GroupModel;
 

src/backend/models/entities/Persona.ts

@@ -20,16 +20,7 @@ import { Request } from './Request';
 import { User } from './User';
 
 @Entity()
-@Index({ properties: ['identity'] })
-@Index({ properties: ['communities'] })
-@Index({ properties: ['rapidReviews'] })
-@Index({ properties: ['fullReviews'] })
-@Index({ properties: ['invitedToAuthor'] })
-@Index({ properties: ['mentoring'] })
-@Index({ properties: ['invitedToMentor'] })
-@Index({ properties: ['requests'] })
-@Index({ properties: ['badges'] })
-@Index({ properties: ['expertises'] })
+@Index({ name: 'persona_trgm', properties: ['name', 'bio'] })
 export class Persona extends BaseEntity {
   [EntityRepositoryType]?: PersonaModel;
 

src/backend/models/entities/Preprint.ts

@@ -19,11 +19,10 @@ import { Tag } from './Tag';
 import { createRandomDoi } from '../../utils/ids';
 
 @Entity()
-@Index({ properties: ['rapidReviews'] })
-@Index({ properties: ['fullReviews'] })
-@Index({ properties: ['requests'] })
-@Index({ properties: ['communities'] })
-@Index({ properties: ['tags'] })
+@Index({
+  name: 'preprint_trgm',
+  properties: ['title', 'handle', 'abstractText', 'authors'],
+})
 export class Preprint extends BaseEntity {
   [EntityRepositoryType]?: PreprintModel;
 

src/backend/models/entities/Tag.ts

@@ -2,7 +2,6 @@ import {
   Collection,
   Entity,
   EntityRepositoryType,
-  Index,
   ManyToMany,
   Property,
   Unique,
@@ -14,8 +13,6 @@ import { Community } from './Community';
 import { Preprint } from './Preprint';
 
 @Entity()
-@Index({ properties: ['preprints'] })
-@Index({ properties: ['communities'] })
 export class Tag extends BaseEntity {
   [EntityRepositoryType]?: TagModel;
 

src/backend/models/entities/User.ts

@@ -2,7 +2,6 @@ import {
   Collection,
   Entity,
   EntityRepositoryType,
-  Index,
   ManyToMany,
   OneToMany,
   OneToOne,
@@ -21,13 +20,6 @@ import { Key } from './Key';
 import { createRandomOrcid } from '../../utils/orcid';
 
 @Entity()
-@Index({ properties: ['defaultPersona'] })
-@Index({ properties: ['groups'] })
-@Index({ properties: ['owned'] })
-@Index({ properties: ['personas'] })
-@Index({ properties: ['contacts'] })
-@Index({ properties: ['works'] })
-@Index({ properties: ['keys'] })
 export class User extends BaseEntity {
   [EntityRepositoryType]?: UserModel;