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merenlab / anvio

An analysis and visualization platform for 'omics data
http://merenlab.org/software/anvio
GNU General Public License v3.0
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summarize with multiple custom HMMs #484

Closed jvineis closed 7 years ago

jvineis commented 7 years ago

The following problem occurs in v2.1.0 and v2.2.2 When I add more than one custom HMM to the contigs.db, the summarize is unable to complete and throws the following error.

screen shot 2017-03-23 at 8 38 06 am

Summarize will complete normally if only one custom HMM is loaded. I tried loading three different HMMs sequentially and regardless of the order added, more than one HMM resulted in an error. I have attached three custom HMM directories HMM_FOR_ANVIO.tar.gz

meren commented 7 years ago

This problem is now fixed in the master repo, Joe. Thank you very much for reporting it, and sorry for the inconvenience. If you want, you can follow these instructions to crate virtualenv that works with the master repo:

http://merenlab.org/2016/06/26/installation-v2/#installation-for-developers-youre-a-wizard-arry

jvineis commented 7 years ago

Hey Meren, Thanks for your attention to this issue. Running anvio from the master did not work (see attached), but I commented out line 435 of summarizer.py (see attached) and works. Most likely due to the fact that I did not load any functions to my contigs.db? ~J

meren commented 7 years ago

Hey Joe,

No attachment :( Responding to GitHub issues from e-mail usually doesn't work the way you intend :/

Thank you!

meren commented 7 years ago

Fixed :/ Sorry!