4.5 years ago by
This is occurring on usegalaxy.org? The server has been updated in preparation for the upcoming release. Would you be able to share this history with me? There are some known items we are working through, but whether this is related or not I'd very much like to confirm. Share by emailing me a share link (to maintain your data privacy) - this is the first option on the Share form under the history menu "Share or Publish", and send it to: firstname.lastname@example.org.
How to share: https://wiki.galaxyproject.org/Learn/Share
If you happen to have the original successful run in the history, please leave it there. Also please be sure that all inputs back through fastq upload are present.
Thanks for reporting the issue! Jen, Galaxy team
-- Update --
Hi Maggie - did you close this? If this is the same history as you reported a bug for later yesterday, then the Cuffdiff results from the new run (deleted) appear to be the same as the original runs. From a quick look, it appears that the option to summarize by read groups was selected, but read groups are not present in the inputs. Try running without this option, or add read groups to your inputs with the Picard tool. If you need more help, let us know. Jen