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Albert09111 / SNIPR

SNIPR is a software to design single nucleotide specific programmable riboregulator.
GNU General Public License v3.0
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`issame` variable not recognized #2

Open roryjm opened 3 years ago

roryjm commented 3 years ago

I tried running the SNIPR package in MATLAB but ran into the following error message

>> SNIPR
Starting design for BRCA2_6147delT SNIPRs...
### Generating NUPACK design scripts...
### Running the designs with a library size of 10...
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
/bin/bash: line 1: multitubedesign: command not found
### Extracting designs from the BRCA2_6147delT SNIPR library...
Unrecognized function or variable 'issame'.

Error in OutputProcessing (line 58)
        if issame(strand_names{c2},'hairpin') || issame(strand_names{c2},'rep_hairpin') ||
        issame(strand_names{c2},'switch')||issame(strand_names{c2},'hairpin0')||issame(strand_names{c2},'hairpin_seq')

Error in SNIPR (line 36)
    OutputProcessing(name)

It doesn't look like issame is defined in the OutputProcessing.m file. Maybe something went wrong during my setup process too, I'm not sure.

Albert09111 commented 3 years ago

Hi You need to install NUPACK first and then add the NUPACK folder into the environmental variables.