I used a single end fastqsanger file ( related to the leaf of Solanum ) and tried to run trinity to get assembled transcript data, but after the program was run, i got 0 bytes generated and no transcript.fasta file was generated. why ?
I found the issue. It has to do with a current problem with the Get Data > EBI SRA tool. Details here: https://github.com/galaxyproject/galaxy/issues/6334
In short, reassign the datatype to be "fastqsanger.gz" for your fastq inputs. The data is compressed but is not being labeled that way -- we'll be fixing that. Follow the ticket above for updates.
How to change metadata is in the Galaxy FAQs: https://galaxyproject.org/support/
- How do I find, adjust, and/or correct metadata? https://galaxyproject.org/support/metadata/
I would still recommend doing some QA on the data before attempting assembly or the tool may really run out of memory during job execution due to content issues.
And single-end Trinity jobs are confirmed to be functional at this server.
Thanks! Jen, Galaxy team