Qiime2 tools import on galaxy

Technical Support
1

I am having a hard time using Qiime2 tools import on galaxy. I have used the NCBI SRA tool in galaxy to fetch/download Fastq paired sequences.

I am using SampleData[PairedEndSequencesWithQuality] as my type of data to import. I’ve played around with Casava and Phred but can’t seem to make any work. I know Phred can’t technically work because of the absolute paths, but I feel I am hitting a wall with getting Casava to work at least. When I try to use it, I am not able to select the collection the NCBI SRA tool made with the paired sequences, I only see the option to select the collection for the single end sequence (but this is empty because mine are paired-end)

Any help is greatly appreciated!!

5

Hey @alexandram355,

Welcome to the :qiime2: forum :waving_hand:

Would you mind sharing a couple of screenshots of your workflow (selecting your data as the input and then where you're unable to select the correct import type)?

This may help us to better understand where the sticking point is. Thanks!