Hi there, I'm getting exactly the same problem with any job running on a TORQUE/PBS cluster. The jobs actually run fine as I can see the output and download it, but it's marked as failed in the galaxy history, with the following message: WARNING:galaxy.eggs:Warning: MarkupSafe (a dependent egg of Mako) cannot be fetched The command `python -ES ./scripts/fetch_eggs.py` gives nothing as output. If I run the same tools locally there is no problem. Cheers Micka
Message: 5 Date: Thu, 27 Oct 2011 15:08:17 +1100 From: Jerico Nico De Leon Revote <jerico.revote@monash.edu> To: galaxy-dev@lists.bx.psu.edu Subject: [galaxy-dev] Local Galaxy Instance MarkupSafe error Message-ID: <CAP9ULhYiPxYB2CWtqOSM3MquUu55ARxY5poR1dBaHEj1UcO8UQ@mail.gmail.com
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Hi,
I'm just doing a simple get->data from UCSC on our local Galaxy instance and got the following error:
WARNING:galaxy.eggs:Warning: MarkupSafe (a dependent egg of Mako) cannot be fetched
The job box then is displayed as red on the history panel. The job runner states that the job finished normally on the cluster. Galaxy is checkout from galaxy-central (changeset: 6176:34fffbf01183).
Thanks,
Jerico