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YuSugihara / MutMap

MutMap pipeline to identify causative mutations responsible for a phenotype
GNU General Public License v3.0
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ERROR: Could not load index. #6

Closed xujiming-zju closed 3 years ago

xujiming-zju commented 3 years ago

I use mutmap to mapping gene from begining.

when calling variants, the following error was generated : bcftools concat -a -o z mutmap.vcf.gz mutmap.*.vcf.gz >> log/bcftools.log 2>&1 Please check below ： Failed to open 30_vcf/mutmap.AAAA02040040.1.vcf.gz : could not load index .

Any ideas what I might be missing or overlooking?

YuSugihara commented 3 years ago

Can you find the index file of 30_vcf/mutmap.AAAA02040040.1.vcf.gz?

If no index file, you can create it by "tabix 30_vcf/mutmap.AAAA02040040.1.vcf.gz". After that, please try the error command, bcftools concat -a -o z mutmap.vcf.gz mutmap.*.vcf.gz >> log/bcftools.log 2>&1 in a proper directory.

Once you get VCF file, you can start from MutPlot.

Good luck