mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-21 05:45:37 +08:00
Sergey Golitsynskiy
537cf5d2aa
- Preserves usage of legacy script while not hiding the Alembic script.
(see manage_db.sh and run_alembic.sh)
- Adds documentation (see top of script files)
- Includes misc. relevant refactorings
- Includes unit tests for testing legacy script handling
54 lines
2.3 KiB
Bash
Executable File
54 lines
2.3 KiB
Bash
Executable File
#!/bin/sh
|
|
|
|
#######
|
|
# Use this script to manage Galaxy and Tool Shed Install migrations.
|
|
# (Use the legacy manage_db.sh script to manage Tool Shed migrations.)
|
|
#
|
|
# NOTE: If your database is empty OR is not under Alembic version control,
|
|
# use create_db.sh instead.
|
|
#
|
|
# We use branch labels to distinguish between the galaxy and the tool_shed_install models,
|
|
# so in most cases you'll need to identify the branch to which your command should be applied.
|
|
# Use these identifiers: `gxy` for galaxy, and `tsi` for tool_shed_install.
|
|
#
|
|
# To create a revision for galaxy:
|
|
# ./run_alembic.sh revision --head=gxy@head -m "your description"
|
|
#
|
|
# To create a revision for tool_shed_install:
|
|
# ./run_alembic.sh revision --head=tsi@head -m "your description"
|
|
#
|
|
# To upgrade:
|
|
# ./run_alembic.sh upgrade gxy@head # upgrade gxy to head revision
|
|
# ./run_alembic.sh upgrade gxy@+1 # upgrade gxy to 1 revision above current
|
|
# ./run_alembic.sh upgrade [revision identifier] # upgrade gxy to a specific revision
|
|
# ./run_alembic.sh upgrade [revision identifier]+1 # upgrade gxy to 1 revision above specific revision
|
|
# ./run_alembic.sh upgrade heads # upgrade gxy and tsi to head revisions
|
|
#
|
|
# To downgrade:
|
|
# ./run_alembic.sh downgrade gxy@base # downgrade gxy to base (empty db with empty alembic table)
|
|
# ./run_alembic.sh downgrade gxy@-1 # downgrade gxy to 1 revision below current
|
|
# ./run_alembic.sh downgrade [revision identifier] # downgrade gxy to a specific revision
|
|
# ./run_alembic.sh downgrade [revision identifier]-1 # downgrade gxy to 1 revision below specific revision
|
|
#
|
|
# To pass a galaxy config file, use `--galaxy-config`
|
|
#
|
|
# You may also override the galaxy database url and/or the
|
|
# tool shed install database url, as well as the database_template
|
|
# and database_encoding configuration options with env vars:
|
|
# GALAXY_CONFIG_OVERRIDE_DATABASE_CONNECTION=my-db-url ./run_alembic.sh ...
|
|
# GALAXY_INSTALL_CONFIG_OVERRIDE_DATABASE_CONNECTION=my-other-db-url ./run_alembic.sh ...
|
|
#
|
|
# For more options, see Alembic's documentation at https://alembic.sqlalchemy.org
|
|
#######
|
|
|
|
ALEMBIC_CONFIG='lib/galaxy/model/migrations/alembic.ini'
|
|
|
|
cd `dirname $0`
|
|
|
|
. ./scripts/common_startup_functions.sh
|
|
|
|
setup_python
|
|
|
|
find lib/galaxy/model/migrations/alembic -name '*.pyc' -delete
|
|
python ./scripts/migrate_db.py --config "$ALEMBIC_CONFIG" "$@"
|