Trinity taking over 3 days

[Ash_K]

Hey, i’m running a transcriptome assembly with 48 pairs of RNA-seqs (about 32gb of data). Its been over 3 days now and it’s still running. Is this a normal thingy or should i s rnaSPAdes any better with run times???

[jennaj]

Hi @Ash_K

All of the transcriptome assembly tools probably run on the same cluster at the AU server. So, leaving your jobs queued is likely the best advice.

How jobs work →

@jennaj

When working at UseGalaxy.org, UseGalaxy.eu, or UseGalaxy.org.au, your analysis jobs execute at large scale academic clusters. Hundreds of thousands of jobs process each month!

• Use a Workflow for batch work.
• Allow queued (grey color) and executing (yellow) datasets to finish processing.
• Deleting and rerunning puts your job back at the end of the queue again!
• Job priority is the exactly the same for everyone.
• Be patient. Galaxy is a free service, when a lot of people are using it, you may have to wait longer than usual (especially for ‘big’ jobs, e.g. alignments).

Hope this helps!