Fix database model error

[seallard]

Description

When generating a revision, an error popped up

Alembic: sqlalchemy.exc.CompileError: VARCHAR requires a length on dialect mysql (Family.tickets)

This PR adds a length limit to the Family.tickets field which resolves this error.

Some changes detected when auto generating the revision are fixed in this PR as well. The enum fields are sensitive to ordering, which has changed for family.action, family.data_delivery and flowcell.status. Some of them have chaged from varchar to enum as well.

INFO  [alembic.runtime.migration] Context impl MySQLImpl.
INFO  [alembic.runtime.migration] Will assume non-transactional DDL.
INFO  [alembic.autogenerate.compare] Detected NOT NULL on column 'application.min_sequencing_depth'
INFO  [alembic.autogenerate.compare] Detected type change from ENUM('analyze', 'running', 'hold') to Enum('analyze', 'hold', 'running') on 'family.action'
INFO  [alembic.autogenerate.compare] Detected type change from VARCHAR(length=64) to Enum('analysis', 'analysis-scout', 'fastq', 'fastq-scout', 'fastq_qc', 'fastq-analysis', 'fastq_qc-analysis', 'fastq-analysis-scout', 'nipt-viewer', 'no-delivery', 'scout', 'statina', name='datadelivery') on 'family.data_delivery'
INFO  [alembic.autogenerate.compare] Detected type change from ENUM('ondisk', 'processing', 'removed', 'requested', 'retrieved') to Enum('ondisk', 'removed', 'requested', 'processing', 'retrieved') on 'flowcell.status'
  Generating /Users/sebastianallard/repos/cg/alembic/versions/2023_10_30_b6f00cc615cf_sync_db.py ...  done

Fixed

• Fix column error in Family model
• Sync models with schema

This version is a

• PATCH - when you make backwards compatible bug fixes or documentation/instructions

Implementation Plan

• Apply migrations to stage database.
• Verify it is working by retrieving some data.
• Merge and apply to prod

[islean]

Looks good! Think one part of the alembic script will crash though

[sonarqubecloud]

Kudos, SonarCloud Quality Gate passed!   

0 Bugs
0 Vulnerabilities
0 Security Hotspots
0 Code Smells

No Coverage information
0.0% Duplication

[seallard]

Applied to stage

(cg-env) ➜  cg git:(fix-alembic) ✗ alembic --config ../alembic-stage.ini upgrade head                                     
INFO  [alembic.runtime.migration] Context impl MySQLImpl.
INFO  [alembic.runtime.migration] Will assume non-transactional DDL.
INFO  [alembic.runtime.migration] Running upgrade 392e49db40fc -> b6f00cc615cf, Sync db

Applied to prod

(cg-env) ➜  cg git:(master) alembic --config ../alembic-prod.ini upgrade head                    
INFO  [alembic.runtime.migration] Context impl MySQLImpl.
INFO  [alembic.runtime.migration] Will assume non-transactional DDL.
INFO  [alembic.runtime.migration] Running upgrade 392e49db40fc -> b6f00cc615cf, Sync db