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nf-core / ampliseq

Amplicon sequencing analysis workflow using DADA2 and QIIME2
https://nf-co.re/ampliseq
MIT License
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Error executing process > 'alpha_diversity (evenness_vector)' #270

Closed AaronHY closed 3 years ago

AaronHY commented 3 years ago

Hi，after solving the problem with the data entry, I get stuck in the process of Alpha diversity as below. You assistance will be very much appreciated！

Error executing process > 'alpha_diversity (evenness_vector)'

Caused by: Process alpha_diversity (evenness_vector) terminated with an error exit status (1)

Command executed:

export HOME="${PWD}/HOME"

qiime diversity alpha-group-significance --i-alpha-diversity evenness_vector.qza --m-metadata-file Metadata.tsv --o-visualization evenness_vector-viv qiime tools export --input-path evenness_vector-vis.qzv --output-path "alpha-diversity/evenness_vector"

Command exit status: 1

Command output: (empty)

Command error: QIIME is caching your current deployment for improved performance. This may take a few moments and should only happen once per deployment. Plugin error from diversity:

iteration over a 0-d array

Debug info has been saved to /tmp/qiime2-q2cli-err-pg4uc217.log

Work dir: /mnt/g/microbiotest/work/74/022ce08f515694694b181c6afa02d0

Tip: you can try to figure out what's wrong by changing to the process work dir and showing the script file named .command.sh

d4straub commented 3 years ago

iteration over a 0-d array

seems again a problem with the data or metadata. A 0-dimensional array is missing data. Please check if (1) the ASV table is fine, (2) taxonomic classification seems alright, (3) rarefaction depth isnt too low, (4) metadata is fine.

Because we have discussed (1) in #269, I'd assume thats fine, (2) is usually ok, (3) & (4) might be rather the problem. (3) if you have a very low count sample in your ASV table, but there should be a warning about it here (4) the metadata could contain a faulty entry, hard to say.

d4straub commented 3 years ago

Let me know in case you need further advice, I close it for now since there was no reply for 2 weeks.