Closed SergeyPhys closed 5 years ago
Hi Sergey,
I don't impose a maximum limit on the number of BAM files that can be provided, so I suspect this error is produced by your scripting environment/operating system, not HipSTR.
Have you tried doing --bam-files bam_list.txt instead of --bams BAM1,BAM2,BAM3...BAM6000. Here, bam_list.txt would be a text file that contains 6000 lines, one per file name.
Hi Thomas,
Thanks for suggestion! It works!
Hi Thomas,
When I start HipSTR with ~6000 BAM files, I receive the error: "Argument list too long". I found that HipSTR works when number of BAM files is less or about 4000. Could you please change the maximum number of BAM files?
Thanks in advance!
Sergey