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magicDGS / ReadTools

A Universal Toolkit for Handling Sequence Data from Different Sequencing Platforms
https://magicdgs.github.io/ReadTools/
MIT License
6 stars 3 forks source link

Experimental GemMappabilityToBed does not work with a real dataset #499

Closed magicDGS closed 5 years ago

magicDGS commented 5 years ago

The error message is:

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A USER ERROR has occurred: Invalid GEM-mappability file file:///mnt/Analyses/small.debug at position Chr_01:6232077 - character '' not present in the header

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It looks that it is related with reading a bad character in the file. The file does not look corrupted, so I extracted the small dataset to look at it.

magicDGS commented 5 years ago

This was not a bug, but a problem with the file (probably IO error while writting using gem-mappability). Closing as abandoned.

magicDGS commented 5 years ago

Change to mainteinance as it wasn't a bug.