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wtsi-hpag / Scaff10X

Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads
MIT License
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buffer overflow detected #4

Open arunprasanna83 opened 5 years ago

arunprasanna83 commented 5 years ago

Hello, I tried to run scaff_reads on my 10X raw data with: scaff_data reads.dat reads_1.fastq reads_2.fastq > try.out Where, my reads.dat file had: q1 = /10X_RAWDATA/S1_L008_R1_001.fastq.gz q2=/10X_RAWDATA/S1_L008_R2_001.fastq.gz

I get the following error:

buffer overflow detected: scaff_reads terminated Aborted (core dumped)

Please let me know, how to solve this issue ? I am running it on 40 core workstation with 125GB RAM. Instead of this, can I use barcoded.fastq.gz file produced by 'longranger basic' ?

Thanks in Advance, AP

longzhangnation commented 4 years ago

@arunprasanna83 you need to specify one scaff10x,and there are two scaff10x in the scaff10x dictory ,one in Scaff10X/src,another in /Scaff10X/src/scaff-bin. You need to use the full path of scaff10X in ' Scaff10X/src'. I hope it could help you .