snakepipes: ERROR:hicexplorer.hicBuildMatrix:'KI270466.1'

Hi,

everytime the HiC pipeline stopped after this error in files: HiC_matrices/logs/*kb.err

...
INFO:hicexplorer.hicBuildMatrix:13908187 (8.04%) valid pairs added to matrix

INFO:hicexplorer.hicBuildMatrix:processing 183094696 lines took 6195.20 secs (29554.3 lines per second)

INFO:hicexplorer.hicBuildMatrix:13908187 (7.60%) valid pairs added to matrix

ERROR:hicexplorer.hicBuildMatrix:'KI270466.1'

no other information was available for debugging. try setting 'chromosomes: chr1 … chrX ’ did not help.

any suggestions ?

also, will lowering resolution from 100kb (current setting) to 1Mb increase the valid pairs rate (8% here) ?

Thanks a lot.

About this issue

Original URL
State: closed
Created 4 years ago
Comments: 16 (7 by maintainers)

Most upvoted comments

Fixed with HiCExplorer 3.5.3 release.

joachimwolff on Oct 14, 2020

this is now available in release 2.3.1.

katsikora on Oct 20, 2020

Hi @snowlover , Regarding your issue with the low number of contacts: I have tested the hic pipeline on a data set with several contigs and could reproduce the same issue as you had, if using the wrong restriction enzyme. Please don’t use the default but set it to what you have actually used in the lab. This should solve your problem.

LeilyR on Oct 13, 2020