出现“java.lang.AssertionError: SAM dictionaries are not the same”报错

运行一下程序时出现“java.lang.AssertionError: SAM dictionaries are not the same”报错

java -jar picard.jar SortVcf     I=1000G_phase1.indels.hg19.sites.vcf     O=1000G_phase1.indels.hg19.sites.sorted.vcf     SEQUENCE_DICTIONARY=hg19.dict

　　说明要先更新hg19.dict，在做上步之前，先运行如下命令：

java -jar picard.jar UpdateVcfSequenceDictionary     I=1000G_phase1.indels.hg19.sites.vcf     O=1000G_phase1.indels.hg19.sites.dic.vcf     SEQUENCE_DICTIONARY=hg19.dict

　　运行完后，会得到1000G_phase1.indels.hg19.sites.dic.vcf文件

再输入如下命令：

java -Xmx60g -jar picard.jar SortVcf     I=1000G_phase1.indels.hg19.sites.dic.vcf    O=1000G_phase1.indels.hg19.sites.sorted.vcf     SEQUENCE_DICTIONARY=hg19.dict

　　

时间： 2024-12-10 08:00:23

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