fix(docker): resolve docker compose errors

.env.example

@@ -25,7 +25,7 @@ BEACON_NODE_ID="org.anyvlm.gregor"
 # Defaults match compose.anyvar.yaml
 
 # Biocommons services configuration
-UTA_DB_URL=postgresql://anonymous@localhost:5432/uta/uta_20241220
+UTA_DB_URL=postgresql://anonymous@localhost:5433/uta/uta_20241220
 SEQREPO_DATAPROXY_URI=seqrepo+file:///usr/local/share/seqrepo/2024-12-20
 
 # AnyVar storage configuration

README.md

@@ -70,7 +70,7 @@ BEACON_HANDOVER_URL="https://variants.example.org/"
 BEACON_NODE_ID="org.anyvlm.example"
 
 # AnyVar configuration
-UTA_DB_URL=postgresql://anonymous@localhost:5432/uta/uta_20241220
+UTA_DB_URL=postgresql://anonymous@localhost:5433/uta/uta_20241220
 SEQREPO_DATAPROXY_URI=seqrepo+file:///usr/local/share/seqrepo/2024-12-20
 ANYVAR_STORAGE_URI=postgresql://anyvar:anyvar-pw@localhost:5434/anyvar
 

compose.anyvar.yaml

@@ -13,7 +13,7 @@ services:
     environment:
       - SEQREPO_INSTANCE_DIR=/usr/local/share/seqrepo/2024-12-20
       - SEQREPO_DATAPROXY_URI=seqrepo+file:///usr/local/share/seqrepo/2024-12-20
-      - UTA_DB_URL=postgresql://uta_admin:some-password-that-you-make-up@uta:5432/uta/uta_20241220
+      - UTA_DB_URL=postgresql://anonymous@uta:5432/uta/uta_20241220
       - ANYVAR_STORAGE_URI=postgresql://anyvar:anyvar-pw@anyvar_db:5432/anyvar
     ports:
       - 127.0.0.1:8000:8000
@@ -30,7 +30,7 @@ services:
     volumes:
       - uta_vol:/var/lib/postgresql/data
     ports:
-      - 127.0.0.1:5432:5432
+      - 127.0.0.1:5433:5432
 
   anyvar_db:
     image: postgres:17

compose.dev.yaml

@@ -4,7 +4,7 @@ services:
       context: .
       args:
         # NOTE: Makefile sets this to ANYVLM_VERSION=$(git describe --tags --abbrev=0 2>/dev/null || echo 0.0.0)
-        ANYVLM_VERSION:: ${ANYVLM_VERSION:?ANYVLM_VERSION must be set to the AnyVLM version being used}
+        ANYVLM_VERSION: ${ANYVLM_VERSION:?ANYVLM_VERSION must be set to the AnyVLM version being used}
     depends_on:
       anyvlm_db:
         required: true

compose.yaml

@@ -8,6 +8,12 @@ services:
         condition: service_started
     ports:
       - 127.0.0.1:8080:8000
+    environment:
+      - ANYVLM_STORAGE_URI=postgresql://anyvlm:anyvlm-pw@anyvlm_db:5432/anyvlm
+      - HANDOVER_TYPE_ID=GREGoR-NCH
+      - HANDOVER_TYPE_LABEL=GREGoR AnyVLM Reference
+      - BEACON_HANDOVER_URL=https://variants.gregorconsortium.org/
+      - BEACON_NODE_ID=org.anyvlm.gregor
 
   anyvlm_db:
     image: postgres:17

docs/source/configuration/docker_compose.rst

@@ -39,6 +39,25 @@ An example environment file is documented in :doc:`dotenv_example`. The values s
 
 If you are using the example targets documented below, those values can be used as-is.
 
+Beacon / handover configuration
+~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+
+The following environment variables are set in ``compose.yaml`` and ``compose.dev.yaml`` and configure the VLM Spec:
+
+.. code-block:: yaml
+
+   environment:
+     - HANDOVER_TYPE_ID=GREGoR-NCH
+     - HANDOVER_TYPE_LABEL=GREGoR AnyVLM Reference
+     - BEACON_HANDOVER_URL=https://variants.gregorconsortium.org/
+     - BEACON_NODE_ID=org.anyvlm.gregor
+
+These defaults are configured for the GREGoR AnyVLM node.
+
+.. note::
+
+   You can change these values directly in ``compose.yaml`` and/or ``compose.dev.yaml`` if needed.
+
 Volumes
 -------