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LangilleLab / microbiome_helper

A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.
GNU General Public License v3.0
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Deblur run error #63

Open crisper78 opened 4 months ago

crisper78 commented 4 months ago

Hi, I am trying to run QIIME2 pipeline with my own data, but I am having an error when trying to run Deblur. I tried to fix the trim length but still having the same errors.

Plugin error from deblur: Command '['deblur', 'workflow', '--seqs-fp', '/tmp/qiime2/cristian.perezcorral/data/d53cdfe0-b4e0-4be3-ac93-5993557b01c0/data', '--output-dir', '/tmp/tmpddas9x25', '--mean-error', '0.005', '--indel-prob', '0.01', '--indel-max', '3', '--trim-length', '-1', '--left-trim-length', '0', '--min-reads', '1', '--min-size', '2', '--jobs-to-start', '2', '-w', '--keep-tmp-files']' returned non-zero exit status 1.

I am following the pipeline we ran at the CBW-IMPACTT ws

fconstancias commented 2 months ago

I would recommend following the dada2 tutorial instead.