基因数据处理10之BWA处理速度太慢

最新推荐文章于 2023-05-10 10:25:25 发布

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最新推荐文章于 2023-05-10 10:25:25 发布

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分类专栏：基因数据处理文章标签： BWA

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基因数据处理10之BWA处理速度太慢：

hadoop@Mcnode1:~/cloud/adam/xubo/data/data_HDFS/GRCH38/GCA_000001405.15_GRCh38/test20160310$ bwa aln GCA_000001405.15_GRCh38/GCA_000001405.15_GRCh38_full_analysis_set.fna SRR003161.fastq >SRR003161.sai
[bwa_aln] 17bp reads: max_diff = 2
[bwa_aln] 38bp reads: max_diff = 3
[bwa_aln] 64bp reads: max_diff = 4
[bwa_aln] 93bp reads: max_diff = 5
[bwa_aln] 124bp reads: max_diff = 6
[bwa_aln] 157bp reads: max_diff = 7
[bwa_aln] 190bp reads: max_diff = 8
[bwa_aln] 225bp reads: max_diff = 9
[bwa_aln_core] calculate SA coordinate... 1058.46 sec
[bwa_aln_core] write to the disk... 0.92 sec
[bwa_aln_core] 262144 sequences have been processed.
[bwa_aln_core] calculate SA coordinate...

运行了一天多，还是在计算SA.....