diff --git a/isoquant.py b/isoquant.py index be1e39ca..a4753cb4 100755 --- a/isoquant.py +++ b/isoquant.py @@ -604,15 +604,15 @@ def set_model_construction_options(args): 'reliable': ModelConstructionStrategy(2, 0.5, 20, 5, 0.05, 1, 0.1, 0.1, 2, 4, 8, 0.05, 0.05, 50, True, False, True, True, StrandnessReportingLevel.only_canonical), 'default_pacbio': ModelConstructionStrategy(1, 0.5, 10, 2, 0.02, 1, 0.05, 0.05, 1, 2, 2, 0.02, 0.005, 100, - False, True, False, True, StrandnessReportingLevel.only_stranded), + False, True, False, True, StrandnessReportingLevel.only_canonical), 'sensitive_pacbio':ModelConstructionStrategy(1, 0.5, 5, 2, 0.005, 1, 0.01, 0.02, 1, 2, 2, 0.005, 0.001, 100, False, True, False, False, StrandnessReportingLevel.only_stranded), 'default_ont': ModelConstructionStrategy(1, 0.5, 20, 3, 0.02, 1, 0.05, 0.05, 1, 3, 3, 0.02, 0.02, 10, - False, False, True, True, StrandnessReportingLevel.only_stranded), + False, False, True, True, StrandnessReportingLevel.only_canonical), 'sensitive_ont': ModelConstructionStrategy(1, 0.5, 20, 3, 0.005, 1, 0.01, 0.02, 1, 2, 3, 0.005, 0.005, 10, False, True, False, False, StrandnessReportingLevel.only_stranded), 'fl_pacbio': ModelConstructionStrategy(1, 0.5, 10, 2, 0.02, 1, 0.05, 0.01, 1, 2, 3, 0.02, 0.005, 100, - True, True, False, False, StrandnessReportingLevel.only_stranded), + True, True, False, False, StrandnessReportingLevel.only_canonical), 'all': ModelConstructionStrategy(0, 0.3, 5, 1, 0.002, 1, 0.01, 0.01, 1, 1, 1, 0.002, 0.001, 500, False, True, False, False, StrandnessReportingLevel.all), 'assembly': ModelConstructionStrategy(0, 0.3, 5, 1, 0.05, 1, 0.01, 0.02, 1, 1, 1, 0.05, 0.01, 50,