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Running mirdeep2 mapper.pl problems

Hi all!

After locally installing mirdeep2 and its dependencies with the suggested command:

perl install.pl

When I attempted to run the mapper.pl script I was instructed to 'Please run the install.pl script before using the miRDeep2 package'. I now find myself in a loop where I cannot move on with my analysis because the program seems to think it hasn't been installed properly.

When running each of the dependencies separately they all seem installed and the test run 'run_tut.sh' works fine.

Has anyone encountered this error before? Any help would be greatly appreciated.

Thanks!

mirdeep2 rna-seq microrna
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updated by h.mon h.mon • written by lachlan.gray95 • lachlan.gray95

Has the file install_successful been created at the root of the miRDeep2 install folder? Did you try running the install script a second time? Did you open a new terminal to run miRDeep2?

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written by h.mon h.mon

Thank you for your reply.

I have the install_succesful file and I have run the install script multiple times in multiple terminal windows. I think I might just uninstall the program and start over.

EDIT: Reinstalling the program worked. I also did 'source ~/.bashprofile' instead of ~/.bashrc which may have helped.

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written by lachlan.gray95 • lachlan.gray95

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