sga-bam2de.pl: Fix samtools sort for samtools 1.3

jts / sga

de novo sequence assembler using string graphs

http://genome.cshlp.org/content/22/3/549

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Closed sjackman closed 8 years ago

sjackman commented 8 years ago

Fix the error:

[bam_sort] Use -T PREFIX / -o FILE to specify temporary and final output files

Fixes jts/sga#118.

sjackman commented 8 years ago

Also parallelize samtools sort.

jts commented 8 years ago

thanks!

sjackman commented 8 years ago

Thanks for merging, Jared!