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Latest commit 3945f3b Jan 20, 2017 @martenson martenson committed on GitHub Merge pull request #3457 from jmchilton/xsd_fixes_2
Tool Documentation and Testing Improvements
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.ci Fix import order and Python3 compatibility for lib/galaxy/tools/ Jan 16, 2017
client Merge branch 'release_16.10' into dev Jan 16, 2017
config Merge remote-tracking branch 'upstream/release_16.10' into dev Jan 13, 2017
contrib Fixes for pycodestyle 2.2.0 Nov 15, 2016
cron Fixes for pycodestyle 2.2.0 Nov 15, 2016
database Restore database/info.txt. Sep 1, 2016
display_applications Edit of Authors Dec 16, 2016
doc Fix tool XSD to document <conversion> tag for data parameters. Jan 20, 2017
external_service_types Fixes for transferring files from external services using the http pr… Apr 14, 2011
lib Fix tool XSD to document <conversion> tag for data parameters. Jan 20, 2017
locale Modify some string in Mako templetes for complete i18n support. Nov 24, 2011
openid Allow GenomeSpace OpenID provider for log in. Apr 13, 2012
scripts Remove defunct script run_selenium_tests.sh. Dec 26, 2016
static Merge branch 'release_16.10' into dev Jan 16, 2017
templates Remove extraneous tag Jan 12, 2017
test-data Merge pull request #3145 from mvdbeek/fastqgz Jan 12, 2017
test Reduced usage of from_work_dir in test tools. Jan 20, 2017
tool-data BLAST database *.loc.sample files Nov 4, 2016
tools Remove seemingly unused file sort_gtf.py. Dec 23, 2016
.coveragerc Create unit test directory with example test. Enable coverage report … Jun 24, 2013
.gitignore Properly integrate tool XML schema with docs Oct 24, 2016
.travis.yml Merge branch 'release_16.07' into dev Oct 11, 2016
CITATION Adding a CITATION file, http://software-carpentry.org/blog/2013/09/in… Sep 2, 2013
CODE_OF_CONDUCT.md Fix typo found by @nsoranzo. Aug 25, 2015
CONTRIBUTING.md doc tox Oct 15, 2015
CONTRIBUTORS.md Give my work email address as well. Nov 4, 2016
LICENSE.txt Update the Copyright year in the LICENSE.txt. Sep 15, 2016
Makefile Override possible env var use which can break this -- we always want … Dec 12, 2016
README.rst Update README to remove 2.6 May 17, 2016
create_db.sh Fix create/manage db scripts to respect GALAXY_VIRTUAL_ENV. Feb 29, 2016
extract_dataset_parts.sh Fix for splitting with outputs_to_working_directory = True, also rena… Nov 3, 2011
manage_db.sh Fix create/manage db scripts to respect GALAXY_VIRTUAL_ENV. Feb 29, 2016
manage_tools.sh Update more scripts to respect GALAXY_VIRTUAL_ENV. Mar 3, 2016
requirements.txt Pin release wheel verisons. pinned-requirements.txt renamed to Jan 13, 2016
rolling_restart.sh Restore a line deleted by mistake. Thanks John. Feb 2, 2015
run.sh Because common_startup is executed and not sourced, this block needs … Nov 16, 2016
run_reports.sh Another fix for virtualenv fixes. Mar 10, 2016
run_tests.sh Update the testing image used with ``--dockerize``ed tests. Jan 10, 2017
run_tool_shed.sh Fix path Nov 1, 2016
setup.cfg Initial docstring linting. Oct 4, 2016
tool_list.py Make some files compatible with Python3 Jun 3, 2016
tox.ini Merge branch 'release_16.10' into dev Jan 6, 2017

README.rst

Galaxy Logo

The latest information about Galaxy is available via https://galaxyproject.org/

Ask a question Chat with us Release Documentation Inspect the test results

Galaxy Quickstart

Galaxy requires Python 2.7 To check your python version, run:

$ python -V
Python 2.7.3

Start Galaxy:

$ sh run.sh

Once Galaxy completes startup, you should be able to view Galaxy in your browser at:

http://localhost:8080

You may wish to make changes from the default configuration. This can be done in the config/galaxy.ini file. Tools can be either installed from the Tool Shed or added manually. For details please see the Galaxy wiki:

https://wiki.galaxyproject.org/Admin/Tools/AddToolFromToolShedTutorial

Not all dependencies are included for the tools provided in the sample tool_conf.xml. A full list of external dependencies is available at:

https://wiki.galaxyproject.org/Admin/Tools/ToolDependencies

Issues and Galaxy Development

Please see CONTRIBUTING.md .

Roadmap

Interested in the next steps for Galaxy? Take a look here: https://github.com/galaxyproject/galaxy/issues/1928