dockerize gephi

README.md

@@ -16,7 +16,8 @@ The map of the fediverse that you always wanted.
 ### Backend
 - `cp example.env .env` and modify environment variables as required
 - `docker-compose build`
-- `docker-compose up -d`
+- `docker-compose up -d django`
+  - if you don't specify `django`, it'll also start `gephi` which should only be run as a regular one-off job
 ### Frontend
 - `cd frontend && yarn install`
 - `yarn start`
@@ -27,7 +28,8 @@ The map of the fediverse that you always wanted.
 After running the backend in Docker:
 
 - `docker-compose exec web python manage.py scrape` scrapes the entire fediverse
-- `docker-compose exec web python manage.py build_graph` uses this information to lay out a graph
+- `docker-compose exec web python manage.py build_edges` aggregates this information into edges with weights
+- `docker-compose run gephi java -Xmx1g -jar build/libs/graphBuilder.jar` lays out the graph
 
 To run in production, use `docker-compose -f docker-compose.yml -f docker-compose.production.yml` instead of just `docker-compose`.
 

backend/scraper/management/commands/build_edges.py

@@ -20,30 +20,19 @@ class Command(BaseCommand):
         edges = []
         while relationships:
             (source_id, target_id), outgoing = relationships.popitem()
-            total_statuses = outgoing.statuses_seen or 0
-            mention_count = outgoing.mention_count or 0
+            total_statuses = outgoing.statuses_seen
+            mention_count = outgoing.mention_count
             incoming = relationships.pop((target_id, source_id), None)
             oldest_data = outgoing.last_updated
             if incoming:
-                total_statuses += (incoming.statuses_seen or 0)
-                mention_count += (incoming.mention_count or 0)
+                total_statuses += (incoming.statuses_seen)
+                mention_count += (incoming.mention_count)
                 oldest_data = min(oldest_data, incoming.last_updated)
             if mention_count == 0 or total_statuses == 0:
+                # don't add edges with weight 0
                 continue
             ratio = float(mention_count)/total_statuses
             edges.append(Edge(source_id=source_id, target_id=target_id, weight=ratio, last_updated=oldest_data))
 
         Edge.objects.all().delete()
         Edge.objects.bulk_create(edges)
-
-        self.stdout.write("Creating layout...")
-        database_config = settings.DATABASES['default']
-        subprocess.call([
-            'java',
-            '-Xmx1g',
-            '-jar',
-            'gephi/build/libs/graphBuilder.jar',
-            database_config['NAME'],
-            database_config['USER'],
-            database_config['PASSWORD'],
-        ])

backend/scraper/migrations/0001_initial.py

@@ -1,4 +1,4 @@
-# Generated by Django 2.1.7 on 2019-02-21 10:37
+# Generated by Django 2.1.7 on 2019-02-21 12:27
 
 from django.db import migrations, models
 import django.db.models.deletion
@@ -41,8 +41,8 @@ class Migration(migrations.Migration):
             name='PeerRelationship',
             fields=[
                 ('id', models.AutoField(auto_created=True, primary_key=True, serialize=False, verbose_name='ID')),
-                ('mention_count', models.IntegerField(blank=True, null=True)),
-                ('statuses_seen', models.IntegerField(blank=True, null=True)),
+                ('mention_count', models.IntegerField(default=0)),
+                ('statuses_seen', models.IntegerField(default=0)),
                 ('first_seen', models.DateTimeField(auto_now_add=True)),
                 ('last_updated', models.DateTimeField(default=django.utils.timezone.now)),
                 ('source', models.ForeignKey(on_delete=django.db.models.deletion.CASCADE, related_name='following_relationship', to='scraper.Instance')),

backend/scraper/models.py

@@ -37,8 +37,8 @@ class PeerRelationship(models.Model):
     target = models.ForeignKey(Instance, related_name="follower_relationships", on_delete=models.CASCADE)
 
     # Interaction stats
-    mention_count = models.IntegerField(blank=True, null=True)
-    statuses_seen = models.IntegerField(blank=True, null=True)  # in case we want mention_count as a ratio
+    mention_count = models.IntegerField(default=0)
+    statuses_seen = models.IntegerField(default=0)  # because we want mention_count as a ratio
 
     # Metadata
     first_seen = models.DateTimeField(auto_now_add=True)
@@ -47,7 +47,7 @@ class PeerRelationship(models.Model):
 
 class Edge(models.Model):
     """
-    This class is automatically generated from PeerRelationship using the build_graph command.
+    This class is automatically generated from PeerRelationship using the build_edges command.
     It aggregates stats from the asymmetrical PeerRelationship to a symmetrical one that's suitable for serving
     to the front-end.
     """

docker-compose.yml

@@ -28,5 +28,18 @@ services:
       - "8000:8000"
     depends_on:
       - db
+  # This is for running the occasional graph layout task. It's in docker-compose.yml so that it's built at the same time
+  # as everything else, but it should be run regularly with a cron job or similar.
+  gephi:
+    environment:
+      - POSTGRES_USER
+      - POSTGRES_PASSWORD
+      - POSTGRES_DB
+    build: ./gephi
+    volumes:
+      - gradle-cache:/code/.gradle
+    depends_on:
+      - db
 volumes:
   pgdata:
+  gradle-cache:

gephi/Dockerfile

@@ -0,0 +1,13 @@
+FROM openjdk:11.0.2-jdk-slim
+
+RUN mkdir /code
+WORKDIR /code
+
+COPY build.gradle gradlew /code/
+COPY gradle /code/gradle
+COPY lib /code/lib
+RUN ./gradlew tasks
+
+COPY src /code/src
+
+RUN ./gradlew shadowJar

gephi/src/main/java/space/fediverse/graph/GraphBuilder.java

@@ -61,14 +61,23 @@ public class GraphBuilder {
         GraphModel graphModel = Lookup.getDefault().lookup(GraphController.class).getGraphModel();
         // AttributeModel?
 
+        // Get config variables
+        String postgresDb = System.getenv("POSTGRES_DB");
+        String postgresUser = System.getenv("POSTGRES_USER");
+        String postgresPassword = System.getenv("POSTGRES_PASSWORD");
+        if (postgresDb == null || postgresUser == null || postgresPassword == null) {
+            throw new RuntimeException(String.format("Incomplete config, canceling. DB: %s, user: %s, pass: %s",
+                                       postgresDb, postgresUser, postgresPassword));
+        }
+
         // Import from database
         EdgeListDatabaseImpl db = new EdgeListDatabaseImpl();
         db.setSQLDriver(new PostgreSQLDriver());
-        db.setHost("localhost");
+        db.setHost("db");
         db.setPort(5432);
-        db.setDBName(args[0]);
-        db.setUsername(args[1]);
-        db.setPasswd(args[2]);
+        db.setDBName(postgresDb);
+        db.setUsername(postgresUser);
+        db.setPasswd(postgresPassword);
         db.setNodeQuery(nodeQuery);
         db.setEdgeQuery(edgeQuery);