Endless running Tombo resuiggle, reached to 100% in resuiggle but doesn't finish the job

[kwonej0617]

Hi, @marcus1487

In the tombo log file, it looks like the resquiggle process has been successfully done and reached 100%. However, it doesn't report resquiggle report and finish the job. In my previous posting regarding the same issue, other user suggested me to use conda environment to install the tombo. I have already tried it and have the same issue. Could you please help me how to solve this problem? Thank you so much!

Here is my code.

gunzip ${fastq}.gz
tombo preprocess annotate_raw_with_fastqs --fast5-basedir ${fast5} --fastq-filenames ${fastq} --overwrite --processes 40

tombo resquiggle --rna --processes 40 --corrected-group RawGenomeCorrected_001 --include-event-stdev --overwrite --ignore-read-locks ${fast5} ${ref}

gzip ${fastq}

[Marcus Stoiber]

Tombo is deprecated. I would highly recommend moving your pipeline to the Remora signal analysis API.