Hi all!
I’m facing a similar issue when I try to import my paired-end data in qiime2. The code that I’m running is:
srun -p q2 -n1 --mem 50000 --export=All qiime tools import --type ‘SampleData[PairedEndSequencesWithQuality]’ --input-path 100_seqs --input-format CasavaOneEightSingleLanePerSampleDirFmt --output-path Anas_16s.qza
The message error is:
There was a problem importing 100_seqs/:
/tmp/q2-SingleLanePerSamplePairedEndFastqDirFmt-nu7og_q9 is not a(n) SingleLanePerSamplePairedEndFastqDirFmt:
These samples do not have matching pairs of forward and reverse reads: {’.A.striata6’}
srun: error: compute1: task 0: Exited with exit code 1.
Previously, I analyzed this data in R with DADA2 pipeline. As I need a biom file for PICRUSt analysis I tried to get a biom file with my ASVs, but I faced format troubles when trying to export the phyloseq object to a biom file. I want to reanalyze my data with Qiime2, so I could get a biom file without format issues. I rerun the same command without the unmatched file ‘.A.striata6’ but the result was the same.
Any help with overcoming this issue would be really appreciated, thanks in advance!!