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sanger-pathogens / seroba

k-mer based Pipeline to identify the Serotype from Illumina NGS reads
https://sanger-pathogens.github.io/seroba/
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Names for forwards and reverse reads does not match. Cannot continue #69

Open kdyoung100 opened 2 years ago

kdyoung100 commented 2 years ago

seroba runSerotyping databases=/data1/tools/seroba_db/database/ read1=1_S1_1.fq.gz read2= 1_S1_2.fq.gz prefix=/home/kdyoung/seroba/

vesion=1.0.2 sample name= 1_S1_1.fq.gz 1_S1_2.fq.gz

what happen?

plz solve

arif-tanmoy commented 1 year ago

Hi @kdyoung100 - pneumocat only accepts the *.fastq.gz format. Just rename the files to 1_S1_1.fastq.gz & 1_S1_2.fastq.gz. It should work.