Closed YPGG1234 closed 5 years ago
Check open files with https://www.cyberciti.biz/faq/howto-linux-get-list-of-open-files/. Linux often allows for 1024 open files. You can increase that.
Thank you for your answer,but I'm not root user.I split bed file to many small files,and use ulimit -Sn 4096 to increase the open files number,finally it works right.
hi,everyone, i meet a problem when i use “sambamba depth” to handle a bam file.It reports “ _sambamba-depth: Cannot open or create file 'XXX_cleandedup.bam' : Too many open files”. There is only one bam file and i had already dedup with Picard,but when i use “sambamba depth”,it works wrong.I had test “sambamba depth” with other bam files,there are all run correctly.I don't know why.Can somebody help me?