old_contents: # -*- coding: utf-8 -*-
  
  """
  Copyright [2009-2017] EMBL-European Bioinformatics Institute
  Licensed under the Apache License, Version 2.0 (the "License");
  you may not use this file except in compliance with the License.
  You may obtain a copy of the License at
  http://www.apache.org/licenses/LICENSE-2.0
  Unless required by applicable law or agreed to in writing, software
  distributed under the License is distributed on an "AS IS" BASIS,
  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
  See the License for the specific language governing permissions and
  limitations under the License.
  """
  
  import operator as op
  import itertools as it
  
  from Bio.UniProt.GOA import gpa_iterator as raw_parser
  
  from . import data
  from . import helpers
  
  
  def as_annotation(record):
      """
      Turn a record into an annotation.
      """
  
      return data.GoTermAnnotation(
          rna_id=helpers.rna_id(record),
          qualifier=helpers.qualifier(record),
          term_id=helpers.go_id(record),
          evidence_code=record['ECO_Evidence_code'],
          extensions=helpers.extensions(record),
          assigned_by=helpers.assigned_by(record),
          publications=helpers.publications(record),
      )
  
  
  def parser(handle):
      """
      Parse the given file to produce an iterable of GoTerm objects to import.
      """
  
      key = op.attrgetter('rna_id', 'qualifier', 'term_id', 'evidence_code',
                          'assigned_by')
  
      records = raw_parser(handle)
      records = list(records)
      records = it.ifilter(lambda r: r['Assigned_by'] != 'RNAcentral', records)
      annotations = list(it.imap(as_annotation, records))
      annotations.sort(key=key)
  
      for _, similar in it.groupby(annotations, key):
          similar = list(similar)
          if len(similar) == 1:
              yield similar[0]
              continue
  
          merged = similar.pop(0)
          for ann in similar:
              merged.publications.extend(ann.publications)
              merged.extensions.extend(ann.extensions)
          yield merged
  
new_contents: # -*- coding: utf-8 -*-
  
  """
  Copyright [2009-2017] EMBL-European Bioinformatics Institute
  Licensed under the Apache License, Version 2.0 (the "License");
  you may not use this file except in compliance with the License.
  You may obtain a copy of the License at
  http://www.apache.org/licenses/LICENSE-2.0
  Unless required by applicable law or agreed to in writing, software
  distributed under the License is distributed on an "AS IS" BASIS,
  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
  See the License for the specific language governing permissions and
  limitations under the License.
  """
  
  import operator as op
  import itertools as it
  
  from Bio.UniProt.GOA import gpa_iterator as raw_parser
  
  from . import data
  from . import helpers
  
  
  def as_annotation(record):
      """
      Turn a record into an annotation.
      """
  
      return data.GoTermAnnotation(
          rna_id=helpers.rna_id(record),
          qualifier=helpers.qualifier(record),
          term_id=helpers.go_id(record),
          evidence_code=record['ECO_Evidence_code'],
          extensions=helpers.extensions(record),
          assigned_by=helpers.assigned_by(record),
          publications=helpers.publications(record),
      )
  
  
  def parser(handle):
      """
      Parse the given file to produce an iterable of GoTerm objects to import.
      """
  
      key = op.attrgetter('rna_id', 'qualifier', 'term_id', 'evidence_code',
                          'assigned_by')
  
      records = raw_parser(handle)
      records = it.ifilter(lambda r: r['Assigned_by'] != 'RNAcentral', records)
      annotations = list(it.imap(as_annotation, records))
      annotations.sort(key=key)
  
      for _, similar in it.groupby(annotations, key):
          similar = list(similar)
          if len(similar) == 1:
              yield similar[0]
              continue
  
          merged = similar.pop(0)
          for ann in similar:
              merged.publications.extend(ann.publications)
              merged.extensions.extend(ann.extensions)
          yield merged
  
subject: Remove intermediate list