Closed Stakaitis closed 2 years ago
Thanks for raising this issue. I believe the dataframe created is not sorted index-wise. A fix for this will be to add
eventalign_result.sort_index()
as for Error 2, it is just a warning from pandas that you can ignore, that will not affect the performance although I admit it gets a bit annoying. I'll try to push some fixes to the two issues on the next minor release
Thanks
Regards
Christopher Hendra
Question: How to avoid or silence this warning? Issue: Slow
m6anet-dataprep
process Error 1 which occured 6181 times:Error 2 which occured 1 time:
Command:
m6anet-dataprep --eventalign ${EVENTALIGN} --out_dir ${DATAPREP_DIR} --n_processes ${CPUS} --readcount_min 2 --min_segment_count 2
File size in ${EVENTALIGN}: 1) 565G; run6_U87.eventalign.txtAdditional info: m6anet version: 1.1.0 from pypi _nanopolishversion: 0.13.2 from bioconda OS: CentOS Linux 7 (Core) Experiment: the whole flowcell was used for 1 sample (dRNA-seq run), which generated 216 .fast5 files