Plugin error from deblur with 2018.6

qiime2-q2cli-err-tcbwq0kb.log.txt (4.3 KB)
qiime2-q2cli-err-6ituvaxm.log.txt (3.1 KB)
Hello, I cannot get over the error (see attached log files, one with "--p-jobs-to-start 1" the other with "--p-jobs-to-start 12").

The previous commands were:
qiime tools import
--input-path Manifest-BF1u2-Bact-pe-test.csv
--output-path 1_BF1u2-Bac-pe-test-all.qza
--type SampleData[PairedEndSequencesWithQuality]
--source-format PairedEndFastqManifestPhred33

qiime demux summarize
--i-data 1_BF1u2-Bac-pe-test-all.qza
--o-visualization 1_BF1u2-Bac-pe-test-all.qzv

qiime quality-filter q-score
--i-demux 1_BF1u2-Bac-pe-test-all.qza
--o-filtered-sequences 2a_BF1u2-Bac-pe-test-all_deblur-filtered.qza
--o-filter-stats 2a_BF1u2-Bac-pe-test-all_deblur-filter-stats.qza

Does anybody have an idea what might be wrong?
Best regards

Good morning,

Thanks for posting your full commands and log files. Did you look through the log files for errors? I think I found the error that’s causing the problem in the first log file:

ValueError: Not all sequence have the same length. Aligned lengths: 472, sequence lengths: 272, 273, 274, 275, 276, 277, 278, 279

So once your reads are the same length, deblur should work fine.

Let me know if that helps!
Colin

P.S. Running qiime deblur denoise-16S --p-trim-length 272 ... is one way to trim your reads, but there might be better ways too.

2 Likes

Good morning,
Thanky you for your suggestion, that solved my problem!!!
Best regards

1 Like

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