Demux summarize: "Plugin error from demux"

[Gregory_P (Gregory Putzel)]

I have an artifact that I would like to summarize using demux summarize. It is of the following type:

> qiime tools peek qiime2/fastq.qza 
UUID:        9035bc99-9a6f-4b24-8aba-ccf90d7ac882
Type:        SampleData[PairedEndSequencesWithQuality]
Data format: SingleLanePerSamplePairedEndFastqDirFmt

I try to summarize it as follows, but get an error:

> qiime demux summarize --i-data qiime2/fastq.qza --o-visualization qiime2/fastq-summary.qzv --verbose
Plugin error from demux:

  [Errno 2] No such file or directory: '/var/folders/3s/cq8_0h3j2bd3fmc73f9yh6fh0000gn/T/qiime2-archive-khh1lljw/9035bc99-9a6f-4b24-8aba-ccf90d7ac882/data/SRR5080238_1_L001_R1_001.fastq.gz'

I’m using Qiime2 2018.2.0 (demux 2018.2.0) on Mac OS X 10.13.3.

[ebolyen (Evan Bolyen)]

Hey @Gregory_P,

Sorry for the delayed response, and thank you so much for that info, that is exactly what I would have asked for!

As for what’s going on, I’m not really certain. If you were to run:

qiime tools extract qiime2/fastq.qza --output-dir check-fastq-qza-internals/

and then run:

# the -R flag will make it recursive
ls -R check-fastq-qza-internals/

what output do you see?

I’m wondering if the data is really missing, or if perhaps something cleared out your temporary directory.