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JTFouquier / ghost-tree

creating hybrid-gene phylogenetic trees for diversity analyses
BSD 3-Clause "New" or "Revised" License
30 stars 20 forks source link

error in build ghost-tree at last step #81

Closed NElight closed 6 years ago

NElight commented 7 years ago

hi, @JTFouquier i have the error show below,is it a error caused by skbio? default thank you

JTFouquier commented 7 years ago

@NElight this error means that skbio is unable to read the .nwk tree. So either the tree that is being used is corrupted (possibly due to characters not allowed in a nwk tree) or a tree was never made in the first place. Is FastTree installed? When you type 'fasttree' into your command line you should see the 'help' prompt. If you don't see fasttree running, add it to your PATH variable. ghost-tree does check for the installation of fasttree though. I can't see your whole traceback so I'm not sure where this error is occurring. Can you provide the whole traceback? Thanks!

JTFouquier commented 7 years ago

@NElight try using these small files here and see if you can get a .nwk tree as output. If this works, then ghost-tree is installed and working correctly but the data you're using might not be compatible as it is (so it will need to be modified somehow). Hope that helps. :)

NElight commented 7 years ago

@JTFouquier , Thank you for your detailed answers,I will try it according to your method。thank you。

JTFouquier commented 6 years ago

Hi @NElight. I am going to close this issue due to inactivity, but if you have any more problems feel free to reopen it or make a new issue. Thanks 😄