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parklab / NGSCheckMate

Software program for checking sample matching for NGS data
MIT License
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Cant Open Fastqs #33

Closed sengoku93 closed 4 years ago

sengoku93 commented 4 years ago

Hi,

I am using your alternative fastq method. However, the fastq is not opening:

started reading patternfile finished reading patternfile finished building count array can't open fastq file.

I have modifired permissions, and tried both unzipped and zipped fastqs.

Command: NGSCheckMate/ngscheckmate_fastq --fastq1 ${sample}_R1.fastq --fastq2 ${sample}_R2.fastq NGSCheckMate/SNP/SNP.pt -p 4 > ${sample}.vaf;

Any suggestions? Thanks