search

BSSeeker / BSseeker2

A versatile aligning pipeline for bisulfite sequencing data
http://pellegrini.mcdb.ucla.edu/BS_Seeker2/
MIT License
61 stars 25 forks source link

bs_seeker2 align.py terminates after running for few minutes #14

Open pkog opened 7 years ago

pkog commented 7 years ago

I am new to bioinformatics and I am trying to analyze WGBS data using BSseeker2. I am using Python 2.7.13 with Pysam 0.9.1.2. bs_seeker2-align.py terminates after running for 9 minutes indicating an error which says something like "bs_pair_end.py", line 782, in bs_pair_end 'output_file' : CG2A_fr} ]). Any help?!!

guoweilong commented 7 years ago

Could you paste the whole command-line? And send me (guoweilong@126.com) the output log file?

-- Weilong

At 2017-03-23 11:32:09, "pkog" notifications@github.com wrote:

I am new to bioinformatics and I am trying to analyze WGBS data using BSseeker2. I am using Python 2.7.13 with Pysam 0.9.1.2. bs_seeker2-align.py terminates after running for 9 minutes indicating an error which says something like "bs_pair_end.py", line 782, in bs_pair_end 'output_file' : CG2A_fr} ]). Any help?!!

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or mute the thread.