Transform SLPSSEFDF -> CasavaOneEightSingleLanePerSampleDirFmt

[thermokarst]

Improvement Description
Add a transformer from SingleLanePerSampleSingleEndFastqDirFmt to CasavaOneEightSingleLanePerSampleDirFmt.

This is convenient for exporting raw reads without the metadata/manifest files laying around.

[ManuelAOS]

Hi thermokarst, I am experiencing the following issue with qiime tools import:

There was a problem importing /home/manuel_os/bird2:

/home/manuel_os/bird2 is not a(n) CasavaOneEightSingleLanePerSampleDirFmt:

Duplicate samples in forward reads: {'Smagenest', 'Apatafoot', 'Apataback', 'Smageback', 'Apataplum', 'Smageplum', 'Smagefoot'}

I am using the following code:

qiime tools import --type 'SampleData[PairedEndSequencesWithQuality]' --input-path /home/manuel_os/bird2 --input-format CasavaOneEightSingleLanePerSampleDirFmt --output-path demux-paired-end.qza

My fastq.gz files are paired end, here is an example of the fastq files name:

Apataback_1_L001_R1_001.fastq.gz Apataplum_6_L001_R2_001.fastq.gz Smagefoot_8_L001_R1_001.fastq.gz
Apataback_1_L001_R2_001.fastq.gz Apataplum_7_L001_R1_001.fastq.gz Smagefoot_8_L001_R2_001.fastq.gz

Thanks in advance!

Manuel

[thermokarst]

Hi @ManuelAOS - support is provided at the QIIME 2 Forum: https://forum.qiime2.org - please post your question there!