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miRDeep2
miRDeep2 writes data to the mIRDeep2 installation directory. For this reason, we cannot install miRDeep2 on Artemis in the usual location (/usr/local). Instead, you can install miRDeep2 in your own /home, /project, or /scratch directories. The below commands will install miRDeep2 into a directory called /project/PANDORA/miRDeep2. It includes a hack of the make_html.pl and make_html2.pl files such that they run using the perl in the perl/5.28.0 module instead of /usr/bin/perl.
cd /project/PANDORA module purge module load git module load perl/5.28.0 module load gcc/7.2.0 git clone https://github.com/rajewsky-lab/mirdeep2.git cd mirdeep2 git checkout tags/v0.1.0 perl install.pl source ~/.bash_profile perl install.pl sed -i '1 s_#!/usr/bin/perl_#!/usr/bin/env perl_' bin/make_html.pl sed -i '1 s_#!/usr/bin/perl_#!/usr/bin/env perl_' bin/make_html2.pl