single-end mode does not work

FelixKrueger / SNPsplit

Allele-specific alignment sorting

http://felixkrueger.github.io/SNPsplit/

GNU General Public License v3.0

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single-end mode does not work #61

Closed shanwai1234 closed 2 years ago

shanwai1234 commented 2 years ago

Hi authors,

I tried to run SNPsplit using the command SNPsplit --snp_file <SNP_file> <bam file>, but it gives me the error Unable to detect library type automatically, please specify whether the file is single- or paired-end manually. I tried to give the command of --single_end or --single-end, but none of them works. Could you give me any suggestions on which command I should use to specify the single-end mode? Thanks!

FelixKrueger commented 2 years ago

Hi, an option --single_end has been added only fairly recently (see https://github.com/FelixKrueger/SNPsplit/blob/master/CHANGELOG.md#v050dev). So could you clone the the latest development version and try again?

shanwai1234 commented 2 years ago

yep, it works, thanks @FelixKrueger !