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Fix go.py extra (an extension on Steve's PR) #385

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Feb 14, 2018
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4 changes: 3 additions & 1 deletion CGAT/GO.py
Original file line number Diff line number Diff line change
@@ -705,12 +705,14 @@ def GetGOStatement(go_type, database, species):

statement = """SELECT DISTINCTROW
gene.stable_id, xref.dbprimary_acc, go.name, 'NA'
FROM gene, transcript,
FROM gene, transcript, translation,
object_xref as o, xref,
%(go_database)s.term AS go,
%(go_database)s.ontology AS ontology
WHERE gene.gene_id = transcript.gene_id
AND transcript.transcript_id = translation.transcript_id
AND transcript.transcript_id = o.ensembl_id
AND o.ensembl_object_type = 'Transcript'
AND xref.xref_id = o.xref_id
AND go.%(go_field)s = xref.dbprimary_acc
AND go.ontology_id = ontology.ontology_id