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nadavbra / firm

FIRM (Functional Impact Rating at the Molecular-level) is a machine-learning model for predicting the functional impact of genetic variants.
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Syntax error in install_firm.sh script #1

Closed KasperFischer closed 3 years ago

KasperFischer commented 3 years ago

Dear @nadavbra

I am installing FIRM to run a PWAS on my dataset. However, I am running into installation issues, which I hoped you could help me with. I am installin FIRM in order to run

firm_determine_extended_gene_effects_and_scores

I install FIRM with the installation script available on this github page. I type in the commands below:

wget https://raw.githubusercontent.com/nadavbra/firm/master/install_firm.sh
chmod a+x install_firm.sh
bash install_firm.sh

I get this syntax error:

install_firm.sh: line 14: syntax error near unexpected token `newline'
install_firm.sh: line 14: `set response = $<'

Do you know what is causing the error?

Best regards,

nadavbra commented 3 years ago

Please notice that this is a tcsh script, not bash. Try to run it with tcsh. If you still get errors, I'd also suggest to try to run it line by line.

KasperFischer commented 3 years ago

Ok, then it makes sense to why I cannot run it. Thank you for your help!