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biod / sambamba

Tools for working with SAM/BAM data
http://thebird.nl/blog/D_Dragon.html
GNU General Public License v2.0
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sambamba-markdup: Range violation #501

Open Cynthia1012 opened 1 year ago

Cynthia1012 commented 1 year ago

The chromosome length of wheat is too long, which exceeds the limit, resulting in this error. Can it be compatible with overlong chromosomes?

Error: sambamba-markdup: Range violation sambamba 0.7.1

sambamba markdup -r\ --overflow-list-size=800000 \ -t 4 \ --tmpdir=./tmp \ sample.bam \ sample.nodup.bam

alexxjss commented 1 year ago

I am having the same issue with Lentil chromosomes. Have you been able to fix it?

saber65535 commented 1 year ago

I am having the same issue with wheat chromosomes, and I meet this issue when using sambamba sort