search

popucui / bsmap

Automatically exported from code.google.com/p/bsmap
0 stars 0 forks source link

methratio.py: Samtools-1.0 unsupported and --pair option doesn't work correctly #21

Open GoogleCodeExporter opened 8 years ago

GoogleCodeExporter commented 8 years ago 
What steps will reproduce the problem?
1. Use samtools-1.0, which doesn't support the -X option

For --pair
1. Use the --pair option with methratio.py on a single-end dataset (see here: 
https://www.biostars.org/p/112049/ )
2. Note that there's zero coverage.

I've simply modified the script and you can find a working version here: 
https://github.com/dpryan79/Answers/tree/master/biostars_112049

Original issue reported on code.google.com by dprya...@gmail.com on 11 Sep 2014 at 8:28