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
本文来自博客园,作者:橙子牛奶糖(陈文燕),转载请注明原文链接:https://www.cnblogs.com/chenwenyan/p/7040852.html