First job I submitted remains grey or running for a long time - is it broken?

  • Check with top or your system monitor - if Conda is running, things are working but it’s slow the first time a dependency is installed.
  • The first run generally takes a while to install all the needed dependencies.
  • Subsequent runs should start immediately with all dependencies already in place.
  • Installing new Conda dependencies just takes time so tools that have new Conda packages will take longer to run the first time if they must be installed.
  • In general, a planemo_test job usually takes around a minute - planemo has to build and tear down a new Galaxy for generating test results and then again for testing properly. Longer if the tool has Conda dependencies.
  • The very first test in a fresh appliance may take 6 minutes so be patient.
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