search

Illumina / ExpansionHunter

A tool for estimating repeat sizes
Other
182 stars 51 forks source link

getting Unrecognised option error while using "--min-locus-coverage" argument in ExpansionHunter v5.0.0 #187

Open Arth032 opened 9 months ago

Arth032 commented 9 months ago

getting Unrecognized option error while using "--min-locus-coverage" argument in ExpansionHunter v5.0.0

When running ExapnsionHunter --help command its not showing --min-locus-coverage option in latest version [ 2024-01-30_14-50

andreasssh commented 9 months ago

You should be able to use that argument when you compile EH from source and use this instead of the pre-compiled binary.

Arth032 commented 9 months ago

Hi @andreasssh , I tried Compiling EH from Source, getting GCC Compilation error when running make command, please refer below image

2024-01-31_10-29

andreasssh commented 9 months ago

This might be due to the googletest library. You can either try to compile my version of EH that uses newer version of googletest https://gitlab.com/andreassh/ExpansionHunter or just take the CMakeLists.txt file from https://gitlab.com/andreassh/ExpansionHunter/-/blob/master/CMakeLists.txt and replace the one you have in the ExpansionHunter/ folder and try again to compile.

Arth032 commented 9 months ago

Thank you for the quick feedback, however, I am still getting error while doing make, this time I have compiled EH with your version and also tried replacing the CMakeList.txt file but getting the same error :((

2024-01-31_14-12

andreasssh commented 9 months ago

At least it's a new error! Could it be due to old or missing packages? Have a look at the prerequisites https://github.com/Illumina/ExpansionHunter/blob/master/docs/02_Installation.md and verify that you have all the required packages installed and have minimum version of gcc/c++.