Is the public server still planning to implement HISAT anytime soon? I haven't been using Galaxy for RNA-seq recently because my data is too big to be processed on the normal servers and requires Stampede (which has too long of a wait time).
Yes, this will be published to the Main public Galaxy server at http://usegalaxy.org soon.
Meanwhile, if your data is smaller, the tool can be used on the Test server at https://test.galaxyproject.org/. Or a local/cloud Galaxy could be used.
The queue for Stampede was very busy this week, but the wait time should be shorter now and will continue to improve over the weekend.
Thanks, Jen, Galaxy team