Re: [galaxy-dev] database migration error 79->80 (NameError: name 'BigInteger' is not defined)
Edward Kirton wrote:
> hi, we are getting the following error migrating from 79 to 80.
> curiously, my own galaxy didn't have this problem, but another
> developer here was getting this error. i moved him from sqlite to
> postgres but that didn't help.
> thanks for any assistance,
> ed
Hi Ed,
Is this with the current galaxy-dist version?
--nate
>
> Migrating 79 -> 80...
> galaxy.model.migrate.check INFO 2011-08-31 13:15:31,446
> Traceback (most recent call last):
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-jeff/lib/galaxy/web/buildapp.py",
> line 82, in app_factory
> app = UniverseApplication( global_conf = global_conf, **kwargs )
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-jeff/lib/galaxy/app.py",
> line 32, in __init__
> create_or_verify_database( db_url, kwargs.get( 'global_conf', {}
> ).get( '__file__', None ), self.config.database_engine_options )
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-jeff/lib/galaxy/model/migrate/check.py",
> line 67, in create_or_verify_database
> migrate_to_current_version( engine, db_schema )
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-jeff/lib/galaxy/model/migrate/check.py",
> line 125, in migrate_to_current_version
> schema.runchange( ver, change, changeset.step )
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/schema.py",
> line 184, in runchange
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/script/py.py",
> line 100, in run
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/script/py.py",
> line 112, in _func
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/script/py.py",
> line 108, in module
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/script/py.py",
> line 65, in verify_module
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/util/importpath.py",
> line 12, in import_path
> File "lib/galaxy/model/migrate/versions/0080_quota_tables.py", line
> 29, in
> Column( "bytes", BigInteger ),
> NameError: name 'BigInteger' is not defined
>
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Re: [galaxy-dev] database migration error 79->80 (NameError: name 'BigInteger' is not defined)
please disregard my previous message, it was the developer's error; he
accidentally had deleted or reverted something in the libs folder.
On Wed, Aug 31, 2011 at 3:36 PM, Edward Kirton wrote:
> hi, we are getting the following error migrating from 79 to 80.
> curiously, my own galaxy didn't have this problem, but another
> developer here was getting this error. i moved him from sqlite to
> postgres but that didn't help.
> thanks for any assistance,
> ed
>
> Migrating 79 -> 80...
> galaxy.model.migrate.check INFO 2011-08-31 13:15:31,446
> Traceback (most recent call last):
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-jeff/lib/galaxy/web/buildapp.py",
> line 82, in app_factory
> app = UniverseApplication( global_conf = global_conf, **kwargs )
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-jeff/lib/galaxy/app.py",
> line 32, in __init__
> create_or_verify_database( db_url, kwargs.get( 'global_conf', {}
> ).get( '__file__', None ), self.config.database_engine_options )
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-jeff/lib/galaxy/model/migrate/check.py",
> line 67, in create_or_verify_database
> migrate_to_current_version( engine, db_schema )
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-jeff/lib/galaxy/model/migrate/check.py",
> line 125, in migrate_to_current_version
> schema.runchange( ver, change, changeset.step )
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/schema.py",
> line 184, in runchange
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/script/py.py",
> line 100, in run
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/script/py.py",
> line 112, in _func
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/script/py.py",
> line 108, in module
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/script/py.py",
> line 65, in verify_module
> File
> "/house/groupdirs/genetic_analysis/jfroula/Projects/Galaxy/galaxy-depot/eggs/sqlalchemy_migrate-0.5.4-py2.6.egg/migrate/versioning/util/importpath.py",
> line 12, in import_path
> File "lib/galaxy/model/migrate/versions/0080_quota_tables.py", line
> 29, in
> Column( "bytes", BigInteger ),
> NameError: name 'BigInteger' is not defined
>
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