old_contents: '''
  module containing constants used by qc reporting tools
  '''
  # GENERIC
  
  LIMIT_ALL_JSON = '&limit=all&format=json'
  
  
  # Only download needed fields.
  EXPERIMENT_FIELDS_QUERY = (
      '&field=@id'
      '&field=accession'
      '&field=status'
      '&field=award.rfa'
      '&field=date_created'
      '&field=target.name'
      '&field=biosample_term_name'
      '&field=biosample_type'
      '&field=replication_type'
      '&field=lab.name'
  )
  
  FILE_FIELDS_QUERY = (
      '&field=@id'
      '&field=accession'
      '&field=date_created'
      '&field=status'
      '&field=dataset'
      '&field=assembly'
      '&field=step_run'
      '&field=quality_metrics'
      '&field=notes'
  )
  
  # HISTONE SPECIFIC
  
  HISTONE_PEAK_FILES_QUERY = (
      '/search/?type=File'
      '&output_type=replicated+peaks'
      '&output_type=stable+peaks'
      '&lab.title=ENCODE+Processing+Pipeline'
      '&file_format=bed'
      '&status=released'
      '&status=in+progress'
      '&status=uploading'
  )
  
  HISTONE_CHIP_EXPERIMENTS_QUERY = (
      '/search/?type=Experiment'
      '&assay_title=ChIP-seq'
      '&target.investigated_as=histone'
      '&award.project=ENCODE'
      '&status=released'
      '&status=in+progress'
      '&status=submitted'
  )
  
  HISTONE_QC_FIELDS = [
      'nreads',
      'nreads_in_peaks',
      'npeak_overlap',
      'Fp',
      'Ft',
      'F1',
      'F2',
      'quality_metric_of'
  ]
  
  
  # RNA SPECIFIC
  
  RNA_EXPERIMENTS_QUERY = (
      '/search/?type=Experiment'
      '&award.project=ENCODE'
      '&assay_slims=Transcription'
      '&assay_title=polyA+RNA-seq'
      '&assay_title=total+RNA-seq'
      '&assay_title=small+RNA-seq'
      '&assay_title=single+cell+RNA-seq'
      '&assay_title=microRNA-seq'
      '&assay_title=CRISPRi+RNA-seq'
      '&assay_title=CRISPR+RNA-seq'
      '&assay_title=polyA+depleted+RNA-seq'
      '&award.project=Roadmap'
  )
  
new_contents: '''
  module containing constants used by qc reporting tools
  '''
  # GENERIC
  
  LIMIT_ALL_JSON = '&limit=all&format=json'
  
  
  # Only download needed fields.
  EXPERIMENT_FIELDS_QUERY = (
      '&field=@id'
      '&field=accession'
      '&field=status'
      '&field=award.rfa'
      '&field=date_created'
      '&field=target.name'
      '&field=biosample_term_name'
      '&field=biosample_type'
      '&field=replication_type'
      '&field=lab.name'
  )
  
  FILE_FIELDS_QUERY = (
      '&field=@id'
      '&field=accession'
      '&field=date_created'
      '&field=status'
      '&field=dataset'
      '&field=assembly'
      '&field=step_run'
      '&field=quality_metrics'
      '&field=notes'
  )
  
  # HISTONE SPECIFIC
  
  HISTONE_PEAK_FILES_QUERY = (
      '/search/?type=File'
      '&output_type=replicated+peaks'
      '&output_type=stable+peaks'
      '&lab.title=ENCODE+Processing+Pipeline'
      '&file_format=bed'
      '&status=released'
      '&status=in+progress'
      '&status=uploading'
  )
  
  HISTONE_CHIP_EXPERIMENTS_QUERY = (
      '/search/?type=Experiment'
      '&assay_title=ChIP-seq'
      '&target.investigated_as=histone'
      '&award.project=ENCODE'
      '&status=released'
      '&status=in+progress'
      '&status=submitted'
  )
  
  HISTONE_QC_FIELDS = [
      'nreads',
      'nreads_in_peaks',
      'npeak_overlap',
      'Fp',
      'Ft',
      'F1',
      'F2',
      'quality_metric_of'
  ]
  
  
  # RNA SPECIFIC
  
  RNA_EXPERIMENTS_QUERY = (
      '/search/?type=Experiment'
      '&award.project=ENCODE'
      '&award.project=Roadmap'
      '&assay_slims=Transcription'
      '&assay_title=polyA+RNA-seq'
      '&assay_title=total+RNA-seq'
      '&assay_title=small+RNA-seq'
      '&assay_title=single+cell+RNA-seq'
      '&assay_title=microRNA-seq'
      '&assay_title=CRISPRi+RNA-seq'
      '&assay_title=CRISPR+RNA-seq'
      '&assay_title=polyA+depleted+RNA-seq'
      '&status=released'
      '&status=in+progress'
      '&status=submitted'
  )
  
  RNA_QUANTIFICATION_FILES_QUERY = (
      '/search/?type=File'
      '&lab.title=ENCODE+Processing+Pipeline'
      '&output_type=gene+quantifications'
      '&status=released'
      '&file_format=tsv'
      '&status=released'
      '&status=in+progress'
      '&status=uploading'
  )
  
subject: Add RNA MQM constants