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bahlolab / superSTR

A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.
GNU General Public License v2.0
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Dockerfile has been updated #23

Open koustav-pal opened 9 months ago

koustav-pal commented 9 months ago

The previous Dockerfile images did not allow execution of post-processing scripts. Therefore, the dockerfile has been updated to allow the execution of screen.py, outliers.py and postprocessing.py.

Furthermore, python installation has been added with corresponding versioning.

lfearnley commented 9 months ago

Hi @koustav-pal! We originally hadn't included the post-processing scripts in that Dockerfile in the hopes that it would reduce the image size when scaling up. Let me check what the image size differences are and I'll merge if they're not significantly different.

lfearnley commented 9 months ago

Oh, also, two minor things:

3a816db changes the repo from the superSTR repo to your fork of it as well as updating the path; please correct this.

Could you please split your changes to the dockerfile and your updates to screen.py into two separate pulls?

Thanks!