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PouletAxel / SIP

SIP: Significant Interaction Peak caller
GNU General Public License v3.0
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Doesn't produce any Result!!!! #23

Closed shadhinaust closed 1 year ago

shadhinaust commented 1 year ago

I used GM12878 primary MAPQ 30 dataset in .hic format.

My cmd java -jar SIP_HiC_v1.6.1.jar hic /home/ubuntu/loop_analyzer/data/GSE63525_GM12878_insitu_primary_30.hic /home/ubuntu/loop_analyzer/data/hg19.chrom.sizes /home/ubuntu/loop_analyzer/data/sip /home/ubuntu/loop_analyzer/data/juicer_tools_1.22.01.jar -cpu 7 -res 5000 -t 9000

It doesn't produce any results. I attached the full log here > log.txt

Could you please help me running this. Thanks.

PouletAxel commented 1 year ago

it could be two things I think. the version of juicer you are using behave weirdly so we advised to use Juicer Tools v1.13 instead (we put this information here : [(https://github.com/PouletAxel/SIP]) in the readme).

The chromosome name between your HiC file and the hg19.chrom.sizes are different.

shadhinaust commented 1 year ago

It works. Thanks