And the saga continues. For those who came in late - I've installed a local toolshed, which allows me to create repositories, but every time I attempt to upload files, it errors out with "TypeError: array item must be char". Working off the latest Galaxy bleeding edge copy has failed to fix this. Things I've looked at:
- Initial os was CentOS (4?), Mercurial 2.1.2, Python 2.6.4, with sqlite. Also tried with Ubuntu 10.04, Python 2.7. - The Mercurial and Python I used was is local to the account I was working in, so maybe the toolshed was getting confused with another version. Nope - there's no hg on the system. Galaxy seems to be calling the right Python (libraries) - This happens with plain text and binary files. I haven't attempted to upload an archive yet - Figured there could still be something peculiar to my environment, so installed Galaxy on a fresh server I had elsewhere (the Ubuntu one listed above). Nope - exactly the same error. - As there are some reported issues of Windows file names with Unicode under Mercurial, and I'm uploading from a Windows machine, I used a Mac to create a repo and add a file. Nope, same behaviour. - Further investigations reveal that the files appear to be in the repo (database/community_files). The error occurs in the middle of Mercurial, in manifest.py where it attempts to coerce a Unicode string into a character array. The Cistrome galaxy fork (https://bitbucket.org/cistrome/cistrome-harvard/src/e7e2fdd74496/lib/galaxy/...) mentions occasional similar errors. - Wondered if it was specific to my db setup. Used Postgres instead, same behaviour. - The only changes I make to community_wsgi.ini are setting the host and port, setting the database details, and setting the admin user
Frankly, I'm fresh out of inspiration. There must be something I'm consistently doing (or not doing). Any suggestions - or wild-ass guesses - where to look next?
---- Paul Agapow (paul-michael.agapow@hpa.org.uk) Bioinformatics, Health Protection Agency
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