Repository chado_phylogeny_load_tree

Name: chado_phylogeny_load_tree

Owner: gga

Synopsis: Chado load trees (from the Chado tool suite)

Detailed description:

Galaxy tools allowing to load data into a remote Chado database.

Chado is a member of the GMOD family of tools.

https://github.com/galaxy-genome-annotation/python-chado

Content homepage: https://github.com/galaxy-genome-annotation/python-chado

Development repository: https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado

Link to this repository: https://toolshed.g2.bx.psu.edu/view/gga/chado_phylogeny_load_tree/4dab0f255b74

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/gga/chado_phylogeny_load_tree

Type: unrestricted

Revision: 24:4dab0f255b74

This revision can be installed: True

Times cloned / installed: 1188

Repository README files - may contain important installation or license information

Readme files

Galaxy-chado

Galaxy tools to interface with Tripal using python-chado

Dependencies

You will need to install some python modules in the Galaxy virtualenv for these tools to be fully functional:

. /path/to/galaxy/.venv/bin/activate
pip install future chado
deactivate

Environment

The following environment variables must be set:

ENV	Use
`$GALAXY_CHADO_DBHOST`	Host of the Chado database
`$GALAXY_CHADO_DBNAME`	Name of the Chado database
`$GALAXY_CHADO_DBUSER`	Username to connect to the database
`$GALAXY_CHADO_DBPASS`	Password to connect to the database
`$GALAXY_CHADO_DBSCHEMA`	Database schema.
`$GALAXY_CHADO_DBPORT`	Port of the Chado database

License

All python scripts and wrappers are licensed under MIT license.