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base calling error #116
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likely a problem of guppy versions. Please have a look at the new version of MoP |
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Hi, I have this following error while executing preprocess:
[9c/129f0f] process > baseCalling (guppy-RedOak_WGA-0) [100%] 1 of 1, failed: 1 ✘
[- ] process > concatenateFastQFiles -
[- ] process > QC -
[- ] process > fastQC -
[- ] process > mapping -
[- ] process > counting -
[- ] process > joinCountQCs -
[- ] process > alnQC -
[- ] process > joinAlnQCs -
[- ] process > alnQC2 -
[- ] process > multiQC -
Skipping the email
MultiFast5 files detected!
WARN: The
echo
directive has been deprecated - use todebug
insteadError executing process > 'baseCalling (guppy-RedOak_WGA-0)'
Caused by:
Process
baseCalling (guppy-RedOak_WGA-0)
terminated with an error exit status (255)Command executed:
guppy_basecaller --flowcell FLO-MIN106 --kit SQK-LSK109 --fast5_out -i ./ --save_path ./0_out --cpu_threads_per_caller 1 --gpu_runners_per_device 1 --num_callers 8
cat 0_out/.fastq >> 0.fastq
rm 0_out/.fastq
gzip 0.fastq
Command exit status:
255
Command output:
(empty)
Command error:
Unexpected token '--fast5_out' on command-line.
Try 'guppy_basecaller --help' for more information.
Work dir:
/nfs/data/projects/Xylella/master_of_pores/NanoPreprocess/work/9c/129f0ff9f8a6d830a50964470517c3
Tip: when you have fixed the problem you can continue the execution adding the option
-resume
to the run command lineThe text was updated successfully, but these errors were encountered: