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vagarwal87 / saluki_paper

Saluki, a method to predict mRNA half-lives from sequence
Apache License 2.0
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Error in running generate_training_input.pl #2

Closed tongshiyuan closed 1 year ago

tongshiyuan commented 1 year ago

hi,
Thanks for you script, and that is very informative.
but when I running the script generate_training_input.pl in Fig3_S4, I found the error like 

Can't locate allfxns.pm in @INC (@INC contains: /usr/local/lib64/perl5 /usr/local/share/perl5 /usr/lib64/perl5/vendor_perl /usr/share/perl5/vendor_perl /usr/lib64/perl5 /usr/share/perl5 .) at ./generate_training_input.pl line 3.
BEGIN failed--compilation aborted at ./generate_training_input.pl line 3.

How can I get the allfxns.pm file? I want to generate other genes features by generate_training_input.pl. Thank you very much for your time, I look forward to hearing from you. Warmest regards, Tong

vagarwal87 commented 1 year ago

Thanks for pointing this out Tong. This particular script is one I originally wrote in Xpresso and was a Perl module that helps calculate GC content, etc. It can be found here:

https://github.com/vagarwal87/Xpresso/blob/master/allfxns.pm