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set picard markduplicates MAX_RECORDS_IN_RAM #94

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zchatt opened this issue May 21, 2019 · 0 comments
Open

set picard markduplicates MAX_RECORDS_IN_RAM #94

zchatt opened this issue May 21, 2019 · 0 comments
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@sateeshperi
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enhancement New feature or request

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@zchatt
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zchatt commented May 21, 2019 •
edited by ewels
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Hello,

Thank you again for this great tool.

Would it be possible to set set picard markduplicates MAX_RECORDS_IN_RAM? I have noticed that running large .bam files (>200Gb) this step is extremely slow. Some have found that setting this at 250000 records/ Gb is optimal - https://sourceforge.net/p/picard/wiki/Main_Page/

Many thanks

Zac
@ewels ewels added the enhancement New feature or request label May 22, 2019
@sateeshperi sateeshperi added this to the 2.7.0 milestone Sep 21, 2024
@sateeshperi sateeshperi self-assigned this Sep 21, 2024
@sateeshperi sateeshperi removed this from the 2.7.0 milestone Oct 22, 2024
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