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PRISM SV runs on single chromosome only #1

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wyleung opened this issue Jan 6, 2014 · 1 comment
Open

PRISM SV runs on single chromosome only #1

wyleung opened this issue Jan 6, 2014 · 1 comment

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@wyleung
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wyleung commented Jan 6, 2014

The pipeline currently feeds/starts PRISM with a complete reference genome. PRISM however does the analysis only per chromosome.

When it is started with a full reference genome, PRISM will produce segfaults (due memory limit in python with detect_sv.py)

Proposed solution:

Initiate the analysis with PRISM by first dividing the genome in individual chromsomes/contig-files.
Start analysis per contig
Merge results from all contig analyses
Report back to main pipeline.
@wyleung
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wyleung commented Jun 17, 2014

Need to check on this soon.

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@wyleung