preprocess_test.py 文件源码

python
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项目:mixemt 作者: svohr 项目源码 文件源码
def setUp(self):
        self.mq = 30
        self.bq = 30
        aln1 = pysam.AlignedSegment()
        aln1.reference_start = 10
        aln1.query_name = 'read1'
        aln1.mapping_quality = 30
        aln1.query_sequence = "AAAAATAAAATAAAAT"
        aln1.query_qualities = [30] * 16
        aln1.cigarstring = '16M'

        aln2 = pysam.AlignedSegment()
        aln2.reference_start = 12
        aln2.query_name = 'read2'
        aln2.mapping_quality = 20
        aln2.query_sequence = "AAAGAAGAAAAG"
        qqual = [33] * 12
        qqual[3] = 20
        aln2.query_qualities = qqual
        aln2.cigarstring = '5M2D7M'

        aln3 = pysam.AlignedSegment()
        aln3.mapping_quality = 0
        aln3.query_name = 'read3'

        self.alns = [aln1, aln2, aln3]
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