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Couldn't get database name from vcf, please provide it manually #188

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cssulliv opened this issue Mar 26, 2020 · 0 comments
Open

Couldn't get database name from vcf, please provide it manually #188

cssulliv opened this issue Mar 26, 2020 · 0 comments

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@cssulliv
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Hi I am a new to using c-sibelia and sibelia. I had run c-sibelia (shown below) to generate a vcf file. I then ran snpEffAnnotate.py but got a Couldn't get database name from vcf, please provide it manually error.

I am not entirely sure what database name I should provide. I've attached the resulting vcf file onto this query. I look forward to your response and thank you in advance for your help.

Best,
cssulliv

JdFR_B7vA3_csibelliaver1.vcf.zip

C-Sibelia.py -s loose JdFR_1362B_NitroMAG_7.fa JdFR_1362A_NitroMAG_3.fa --variant JdFR_B7vA3_csibelliaver1.vcf --maf JdFR_B7vA3_csibelliaver1.maf --outdir C-SIBELIA_RUNS/ --unmapped unmapped_JdFR_B7vA3_csibelliaver1		
	
snpEffAnnotate.py -i JdFR_B7vA3_csibelliaver1.vcf -o snv_annotation/
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