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Source code for galaxy.model.migrate.versions.0086_add_tool_shed_repository_table_columns

"""
Migration script to add the metadata, update_available and includes_datatypes columns to the tool_shed_repository table.
"""
from __future__ import print_function

import logging

from sqlalchemy import (
    Boolean,
    Column,
    MetaData,
    Table
)

from galaxy.model.custom_types import JSONType
from galaxy.model.migrate.versions.util import (
    add_column,
    drop_column,
    engine_false
)

log = logging.getLogger(__name__)
metadata = MetaData()


[docs]def upgrade(migrate_engine): print(__doc__) metadata.bind = migrate_engine metadata.reflect() ToolShedRepository_table = Table("tool_shed_repository", metadata, autoload=True) c = Column("metadata", JSONType(), nullable=True) add_column(c, ToolShedRepository_table, metadata) c = Column("includes_datatypes", Boolean, index=True, default=False) add_column(c, ToolShedRepository_table, metadata, index_name="ix_tool_shed_repository_includes_datatypes") try: migrate_engine.execute("UPDATE tool_shed_repository SET includes_datatypes=%s" % engine_false(migrate_engine)) except Exception: log.exception("Updating column 'includes_datatypes' of table 'tool_shed_repository' failed.") c = Column("update_available", Boolean, default=False) add_column(c, ToolShedRepository_table, metadata) try: migrate_engine.execute("UPDATE tool_shed_repository SET update_available=%s" % engine_false(migrate_engine)) except Exception: log.exception("Updating column 'update_available' of table 'tool_shed_repository' failed.")
[docs]def downgrade(migrate_engine): metadata.bind = migrate_engine metadata.reflect() ToolShedRepository_table = Table("tool_shed_repository", metadata, autoload=True) drop_column('metadata', ToolShedRepository_table) # SQLAlchemy Migrate has a bug when dropping a boolean column in SQLite if migrate_engine.name != 'sqlite': drop_column('includes_datatypes', ToolShedRepository_table) drop_column('update_available', ToolShedRepository_table)