Mercurial > repos > gga > apollo_create_account
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planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 33ce5bd0cce35a12725b9ef9aed0683f3c41fbf9
| author | gga |
|---|---|
| date | Wed, 20 Sep 2017 09:08:15 -0400 |
| parents | 509a0c4a94e8 |
| children | 08f8e19005a8 |
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Galaxy-apollo ============= Galaxy tools to interface with Apollo The webapollo.py file is also `separately available <https://github.com/galaxy-genome-annotation/python-apollo>`__ as a pip-installable package. Dependencies ------------ You will need to install some python modules in the Galaxy virtualenv for these tools to be fully functional: .. code:: bash . /path/to/galaxy/.venv/bin/activate pip install future biopython bcbio-gff deactivate Environment ----------- The following environment variables must be set: +--------------------------------+-----------------------------------------------------------+ | ENV | Use | +================================+===========================================================+ | ``$GALAXY_WEBAPOLLO_URL`` | The URL at which Apollo is accessible, internal to Galaxy | | | and where the tools run. Must be absolute, with FQDN and | | | protocol. | +--------------------------------+-----------------------------------------------------------+ | ``$GALAXY_WEBAPOLLO_USER`` | The admin user which Galaxy should use to talk to Apollo. | | | | +--------------------------------+-----------------------------------------------------------+ | ``$GALAXY_WEBAPOLLO_PASSWORD`` | The password for the admin user. | | | | | | | +--------------------------------+-----------------------------------------------------------+ | ``$GALAXY_WEBAPOLLO_EXT_URL`` | May be relative or absolute. | | | The external URL at which Apollo is accessible to end | | | users. | +--------------------------------+-----------------------------------------------------------+ | ``$GALAXY_SHARED_DIR`` | Directory shared between Galaxy and Apollo, used to | | | exchange JBrowse instances. | +--------------------------------+-----------------------------------------------------------+ License ------- All python scripts, wrappers, and the webapollo.py are licensed under MIT license.