Human Genome Index STAR error killed 9

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2.9 years ago

ryme ▴ 30

Hi guys,

I am trying to run the STAR aligner to create the human genome index before proceeding to the alignment step. After approximately one hour and half the command stopped and showed this: killed 9.

This is my command:

STAR --runMode genomeGenerate --genomeDir ref/Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa --genomeFastaFiles Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa  --sjdbGTFfile Homo_sapiesn.GRch38.105.gtf  --runThreadN 16 (and I also tried runThreadN 1)

Could anyone help me please figuring out what the problem is. I am on Mac sierra (bash terminal).

Thanks.

STAR • 804 views

ADD COMMENT • link updated 2.9 years ago by Ram 44k • written 2.9 years ago by ryme ▴ 30

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What does the STAR log file log.out report?

ADD REPLY • link 2.9 years ago by Ahill ★ 2.0k

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Do not delete posts that have received feedback. Interact with the people that have invested effort into helping you, and work towards providing closure to your post.

ADD REPLY • link 2.9 years ago by Ram 44k

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