Lambda-Miner: Current tool status

.github/lambdaminer/build.sql

@@ -51,4 +51,7 @@
 
 \i ./.github/lambdaminer/journal/240325-0_drop-table-ufz-user-role.sql
 \i ./.github/lambdaminer/journal/240508-0_new-calibration-function.sql
+\i ./.github/lambdaminer/journal/240508-1_reverse-new-calibration-function.sql
 \i ./.github/lambdaminer/journal/240521-0_geo-distance-function.sql
+\i ./.github/lambdaminer/journal/241205-0_update-sample-origin-check.sql
+\i ./.github/lambdaminer/journal/241210-0_add-pretty-formula-function.sql

.github/lambdaminer/lmdb_local_config.json.license

@@ -1,3 +1,3 @@
-SPDX-FileCopyrightText: 2024 Helmholtz Centre for Environmental Research GmbH - UFZ
+SPDX-FileCopyrightText: 2025 Helmholtz Centre for Environmental Research GmbH - UFZ
 
 SPDX-License-Identifier: LicenseRef-UFZ-GPL-3.0-or-later

.github/workflows/ci.yaml

@@ -200,10 +200,10 @@ jobs:
     - name: Create a database in the postgres for lambda-miner
       if: steps.filter.outputs.lambdaminer == 'true'
       run: |
-        PGPASSWORD=postgres psql -h localhost -U postgres -c "CREATE DATABASE lmdb;"
-        PGPASSWORD=postgres psql -h localhost -U postgres -d lmdb -q -f ./.github/lambdaminer/build.sql
+        PGPASSWORD=postgres psql -h localhost -U postgres -p 5432 -c "CREATE DATABASE lmdb;"
+        PGPASSWORD=postgres psql -h localhost -U postgres -p 5432 -d lmdb -q -f ./.github/lambdaminer/build.sql
         sleep 10
-        PGPASSWORD=postgres psql -h localhost -U postgres -d lmdb -c "SELECT * FROM public.instrument;"
+        PGPASSWORD=postgres psql -h localhost -U postgres -p 5432 -d lmdb -c "SELECT * FROM public.instrument;"
 
     # Start OMERO
     - name: Start OMERO

.github/workflows/pr.yaml

@@ -340,10 +340,10 @@ jobs:
     - name: Create a database in the postgres for lambda-miner
       if: steps.filter.outputs.lambdaminer == 'true'
       run: |
-        PGPASSWORD=postgres psql -h localhost -U postgres -c "CREATE DATABASE lmdb;"
-        PGPASSWORD=postgres psql -h localhost -U postgres -d lmdb -q -f ./.github/lambdaminer/build.sql
+        PGPASSWORD=postgres psql -h localhost -U postgres -p 5432 -c "CREATE DATABASE lmdb;"
+        PGPASSWORD=postgres psql -h localhost -U postgres -p 5432 -d lmdb -q -f ./.github/lambdaminer/build.sql
         sleep 10
-        PGPASSWORD=postgres psql -h localhost -U postgres -d lmdb -c "SELECT * FROM public.instrument;"
+        PGPASSWORD=postgres psql -h localhost -U postgres -p 5432 -d lmdb -c "SELECT * FROM public.instrument;"
 
       # Start OMERO
     - name: Start OMERO

tools/lambdaminer/.gitignore

@@ -1,2 +1,3 @@
 *credentials.json
-!test_credentials.json
+!test_lmdb_credentials.json
+!test_cflib_credentials.json