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naturalis / supersmart

Self-Updating Platform for the Estimation of Rates of Speciation, Migration And Relationships of Taxa
MIT License
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Better storage location for intermediate files #94

Closed hettling closed 8 years ago

hettling commented 8 years ago

One reviewer criticized the amount of files (mostly fasta) in the top-level analysis directory of a supersmart run.

Subdirectories for alignment and merged sequence clusters would keep the working directory much cleaner, also a directory which holds all clade directories would be nice, for example alignments/, clusters/, clades/.

With regard to issue #71, there could be an extra option to return these directories as zip archives, which would ease handling of alignment data in Galaxy.

This issue is related to issue #14.

hettling commented 8 years ago

This is done except for the clade directories, which however do not clutter the working directory too much. I will therefore close this.