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24 lines
974 B
Python
24 lines
974 B
Python
from galaxy import eggs
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import pkg_resources
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pkg_resources.require("SQLAlchemy >= 0.4")
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pkg_resources.require("MySQL_python")
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from sqlalchemy import *
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engine = create_engine( 'mysql://anonymous@ensembldb.ensembl.org:5306', pool_recycle=3600 )
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conn = engine.connect()
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dbs = conn.execute( "SHOW DATABASES LIKE 'ensembl_website_%%'" )
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builds = {}
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lines = []
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for res in dbs:
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dbname = res[0]
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release = dbname.split('_')[-1]
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genomes = conn.execute( "SELECT RS.assembly_code, S.name, S.common_name, %s FROM ensembl_website_%s.release_species RS LEFT JOIN ensembl_website_%s.species S on RS.species_id = S.species_id" % ( release, release, release ) )
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for genome in genomes:
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builds[genome[0]] = dict( release=genome[3], species='%s (%s/%s)' % ( genome[1], genome[2], genome[0] ) )
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for build in builds.items():
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if build[0]:
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lines.append( '\t'.join( [ build[0], '%d' % build[1]['release'], build[1]['species'] ] ) )
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print '\n'.join( lines )
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