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Zymo-Research / figaro

An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters
GNU General Public License v3.0
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Multiple improvements and bugfixes. #63

Closed jmgs7 closed 3 months ago

jmgs7 commented 3 months ago

When trying to run figaro, the following message appears:

AttributeError: module 'collections' has no attribute 'Iterable'

It seems that collections.Iterable is deprecated. This method is now available as collections.abc.Iterable. I applied a quick workaround by importing collections.abc as collections and now the program runs without errors.

I also applied minor grammar and format changes, corrected a bug related to python's regexp use in fileNamingStandards.py and added the possibility to use length 0 primers

michael-weinstein commented 3 months ago

I'm back! Starting to work on Figaro2 finally.

jmgs7 commented 2 months ago

Nice to hear!