old_contents: from __future__ import absolute_import
  
  from .bcbio import MultiqcModule
  from multiqc import config
  
  
  # Add search patterns and config options for the things that are used in MultiQC_bcbio
  def multiqc_bcbio_config():
      """ Set up MultiQC config defaults for this package """
      bcbio_search_patterns = {
          'bcbio/metrics': {'fn': '*_bcbio.txt'},
          'bcbio/coverage_dist': {'fn': '*-coverage.mosdepth.dist.txt'},
          'bcbio/coverage_avg': {'fn': '*_bcbio_coverage_avg.txt'},  # deprecated in 1.0.6, replaced with 'bcbio/coverage_dist'
          'bcbio/variants': {'fn': '*_bcbio_variants.txt'},
          'bcbio/target': {'fn': 'target_info.yaml'},
          'bcbio/qsignature': {'fn': '*bcbio_qsignature.ma'},
          'bcbio/vcfstats': {'fn': '*_bcbio_variants_stats.txt'},
          'bcbio/seqbuster': {'contents': 'seqbuster'},
          'bcbio/umi': {'fn': '*_umi_stats.yaml'},
          'bcbio/viral_old': {'fn': '*viral*-counts.txt'},
          'bcbio/viral': {'fn': '*viral*-completeness.txt'},
          'bcbio/damage': {'fn': '*damage.yaml'},
      }
      config.update_dict(config.sp, bcbio_search_patterns)
  
      config.fn_clean_exts.extend([
          {'type': 'regex', 'pattern': '_bcbio.*'},
      ])
      config.fn_clean_trim.extend([
          '-coverage.mosdepth.dist',
      ])
      
      config.update_dict(config.table_columns_visible, {
          'FastQC': {
              'percent_duplicates': False,
              'total_sequences': False,
          },
          'QualiMap': {
              'percentage_aligned': False,
              'median_coverage': False,
          },
          'Samtools Stats': {
              'non-primary_alignments': False,
              'reads_mapped': False,
              'reads_mapped_percent': False,
              'raw_total_sequences': False,
              'error_rate': False,
          },
          'SnpEff': {
              'Change_rate': False,
              'Ts_Tv_ratio': False,
              'Number_of_variants_before_filter': False,
          },
      })
  
new_contents: from __future__ import absolute_import
  
  from .bcbio import MultiqcModule
  from multiqc import config
  
  
  # Add search patterns and config options for the things that are used in MultiQC_bcbio
  def multiqc_bcbio_config():
      """ Set up MultiQC config defaults for this package """
      bcbio_search_patterns = {
          'bcbio/metrics': {'fn': '*_bcbio.txt'},
          'bcbio/coverage_dist': {'fn': '*-coverage.mosdepth.dist.txt'},
          'bcbio/coverage_avg': {'fn': '*_bcbio_coverage_avg.txt'},  # deprecated in 1.0.6, replaced with 'bcbio/coverage_dist'
          'bcbio/variants': {'fn': '*_bcbio_variants.txt'},
          'bcbio/target': {'fn': 'target_info.yaml'},
          'bcbio/qsignature': {'fn': '*qsignature.ma'},
          'bcbio/vcfstats': {'fn': '*_bcbio_variants_stats.txt'},
          'bcbio/seqbuster': {'contents': 'seqbuster'},
          'bcbio/umi': {'fn': '*_umi_stats.yaml'},
          'bcbio/viral_old': {'fn': '*viral*-counts.txt'},
          'bcbio/viral': {'fn': '*viral*-completeness.txt'},
          'bcbio/damage': {'fn': '*damage.yaml'},
      }
      config.update_dict(config.sp, bcbio_search_patterns)
  
      config.fn_clean_exts.extend([
          {'type': 'regex', 'pattern': '_bcbio.*'},
      ])
      config.fn_clean_trim.extend([
          '-coverage.mosdepth.dist',
      ])
      
      config.update_dict(config.table_columns_visible, {
          'FastQC': {
              'percent_duplicates': False,
              'total_sequences': False,
          },
          'QualiMap': {
              'percentage_aligned': False,
              'median_coverage': False,
          },
          'Samtools Stats': {
              'non-primary_alignments': False,
              'reads_mapped': False,
              'reads_mapped_percent': False,
              'raw_total_sequences': False,
              'error_rate': False,
          },
          'SnpEff': {
              'Change_rate': False,
              'Ts_Tv_ratio': False,
              'Number_of_variants_before_filter': False,
          },
      })
  
subject: Fix qsignature