Haplowflow doesn't seem to handle compressed files while running on conda.

[LukaLmelias]

Hi @AlphaSquad

Haplowflow doesnt seem to handle compressed files while running on conda.

I tested with your test file (HIV_3_toy.fq.gz and it throws the error below

"""
terminate called after throwing an instance of 'std::out_of_range'
what(): vector::_M_range_check: __n (which is 0) >= this->size() (which is 0)

"""

it runs perfect when the file is not compressed

am i missing some flags ?

[AlphaSquad]

Hi, unfortunately you are right - the conda version is not the latest version and thus does not include the change, you would need to either unzip the data set or build the latest version of Haploflow yourself.

[LukaLmelias]

Thanks for your speedy response;

I will keep an eye for the updated conda version (if i won't make to build one myself ) because this tool is quite promising and I have large dataset so unzipping is not an option :)

[Rohit-Satyam]

@AlphaSquad Could you please update the conda version. It's almost a year.