bioscope mapping issue

[cjose]

Hello all,

So I ran the demo paired-end pairing run and it worked fine. When I run my data, the mapping process doesn't seem to work. It gets hung up on this line for hours:
"Waiting for events on selector '62bd6599-6a93-4aa0-b37c-1575198a9529'"
The ini files/parameters are all the same, for the read.length which I changed from 25 to 35. Has anyone else had this same/similar issue?

Thanks in advance!

[rdeborja]

Can you post your ini file for mapping?

[cjose]

##################################
##################################
##
## global settings for the pipeline run
##
import ../globals/global.ini
reference = ${reference.dir}/ch11_12_validated.fasta
read.length = 50


##################################
##################################
##
## mapping pipeline
##
mapping.run = 1
mapping.tagfiles.dir =${base.dir}/reads
mapping.output.dir = ${output.dir}/s_mapping


##################################
##################################
##
## temp files and folders keep
## # don't keep for clean run ... make it =1, if you want them not to be deleted.
#pipeline.cleanup.middle.files = 0
#job.cleanup.temp.files = 0