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STAR OOM #174

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ihodes opened this issue Mar 22, 2017 · 1 comment
Open

STAR OOM #174

ihodes opened this issue Mar 22, 2017 · 1 comment
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@ihodes
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ihodes commented Mar 22, 2017

STAR needs memory limit some cases

Mar 22 07:03:21 ..... Started sorting BAM
EXITING because of fatal ERROR: not enough memory for BAM sorting: 
SOLUTION: re-run STAR with at least --limitBAMsortRAM 65209053098
Mar 22 07:03:21 ...... FATAL ERROR, exiting
@ihodes ihodes added the bug label Mar 22, 2017
@ihodes ihodes mentioned this issue Mar 22, 2017
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@smondet
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smondet commented Mar 22, 2017

Can't the bam be sorted by Samtools and then STAR be told not to attempt sorting?

Because if STAR keeps trying in-memory sorts this will never end :)

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@ihodes @smondet