Hi Galaxy developers, There is a version of pkg_resources.py in /lib, which seems to be from some specific version of setuptools.
We had a problem scrambling eggs in Galaxy, as e.g. follows: fetch_one(): Trying to fetch: http://eggs.galaxyproject.org/Mako/Mako-0.4.1.tar.gz fetch_one(): Fetched to: /software/elixir/hb-nels/galaxy-dist/scripts/scramble/archives/Mako-0.4.1.tar.gz unpack_source(): Unpacked to: /software/elixir/hb-nels/galaxy-dist/scripts/scramble/build/py2.7/Mako copy_build_script(): Using build script /software/elixir/hb-nels/galaxy-dist/scripts/scramble/scripts/generic.py run_scramble_script(): Beginning build run_scramble_script(): Executing in /software/elixir/hb-nels/galaxy-dist/scripts/scramble/build/py2.7/Mako: /software/VERSIONS/python2-2.7.6/bin/python scramble.py /software/VERSIONS/python2-2.7.6/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'entry_points' warnings.warn(msg) /software/VERSIONS/python2-2.7.6/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'extras_require' warnings.warn(msg) /software/VERSIONS/python2-2.7.6/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'install_requires' warnings.warn(msg) /software/VERSIONS/python2-2.7.6/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'zip_safe' warnings.warn(msg) /software/VERSIONS/python2-2.7.6/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) /software/VERSIONS/python2-2.7.6/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'tests_require' warnings.warn(msg) usage: scramble.py [global_opts] cmd1 [cmd1_opts] [cmd2 [cmd2_opts] ...] or: scramble.py --help [cmd1 cmd2 ...] or: scramble.py --help-commands or: scramble.py cmd --help After much searching we found that the error was caused by some form of incompatibility with the pkg_resources.py in Galaxy and the version of setuptools installed on our server (3.8). Removing the pkg_resouces.py in galaxy solved the issue. Is there a good reason for the pkg_resources to be distributed with Galaxy or should this file perhaps be removed? Does Galaxy require a specific version of setuptools to be installed? Kind regards, Sveinung Gundersen -- Sveinung Gundersen, PhD Senior engineer, ELIXIR.NO / The Genomic HyperBrowser team Department of Informatics, University of Oslo, Norway ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
