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robmaz / distmap

Sequence alignment on Hadoop
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add a --interleave-input option #128

Open robmaz opened 6 years ago

robmaz commented 6 years ago

This is necessary to process interleaved fastq input and bam input. Will be another way to start pe processing.

magicDGS commented 6 years ago

Note: I would recommend to add a method to obtain the command line for the input (ReadTools upload command) in ReadToolsUtils. If any change happens in future versions of ReadTools, it will be much better for me to look into that class to support later versions (e.g., v2, which is under design).

magicDGS commented 6 years ago

Related to https://github.com/robmaz/distmap/issues/49 too