Stampy error while running IMR/DENOM

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7.2 years ago

bruseq ▴ 40

Hello I am using IMR/DENOM for whole genome but while running i get an error "You are running this software in this way: imr easyrun example.t Start at: Mon Feb 13 18:25:46 2017 Script PATH: /home/genomics2/tools/imrdenom-0.4.1/scripts/x86_64/ PICARD PATH: /home/genomics2/tools/imrdenom-0.4.1/external/ Project output folder: /home/genomics2/tools/imrdenom-0.4.1/wgs_results/imr/ALM_trimm_result/ mapper used: stampy Number of Iterations 5 Number of processors used: 6 Please install stampy.py first"

and I already installed stampy in my system. Please guide me .

Thank you Divya

stampy • 1.1k views

ADD COMMENT • link 7.2 years ago by bruseq ▴ 40

0

Entering edit mode

Looks like stampy.py was not installed or not properly installed for that matter.

Can you use stampy without IMR/DENOM?

Or maybe stampy needs to be in your PATH, before it can be used by IMR/DENOM?

ADD REPLY • link 7.2 years ago by Benn 8.3k

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