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kevsilva / StrainFLAIR

Strain-level abundances estimation in metagenomic samples using variation graphs
GNU Affero General Public License v3.0
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seqwish bin #1

Closed colindaven closed 3 years ago

colindaven commented 3 years ago

Hi,

I followed the install instructions exactly, which ran without error, yet seqwish cannot be found.

It has been created and exists under the StrainFLAIR/seqwish/bin directory.

Should it actually be copied somewhere else or added to path ?

StrainFLAIR$ ls seqwish/bin
seqwish

The conda env Strain is still activated

colindaven commented 3 years ago

Ok, solved it - I just needed seqwish in my path: so copied it to the conda bin directory. Works now.

cp seqwish/bin/seqwish Strain/bin/

pierrepeterlongo commented 3 years ago

Yes we still have to improve the way seqwish is integrated to the pipeline.

Thanks for your comment.