search

tseemann / ekidna

Assembly based core genome SNP alignments for bacteria
GNU General Public License v3.0
25 stars 3 forks source link

Paftools and k8 dependency names causing issues #15

Open BiologicalScientist opened 4 years ago

BiologicalScientist commented 4 years ago

The dependencies paftools and k8 can have the names paftools.js and k8-linux or k8-Darwin (macOSX) when downloaded. Unless these files are renamed to paftools and k8 then ekidna can't find and use them. Would it be possible to have the paftools.js and k8 variants recognised or mention the issue in the check dependencies error message?

tseemann commented 4 years ago

I am using the names of the tools that are installed by the conda and brew packages.

I might change paftools.js to be paftools (as brew makes a link for both)

But k8 will have to remain k8 because that is what paftools.js expects to run itself with via #!/usr/bin/env k8.