1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/14733d29e6dd/ changeset: 14733d29e6dd user: dan date: 2013-02-06 23:34:36 summary: Add MouseMine datasource tool provided by Howie Motenko (Howie.Motenko@jax.org). affected #: 3 files diff -r 8ada40b184144447c5949bbbac3e2ec65cfaac58 -r 14733d29e6dda03a49e5fe67e222480235f1901c tool_conf.xml.main --- a/tool_conf.xml.main +++ b/tool_conf.xml.main @@ -11,6 +11,7 @@ <tool file="data_source/flymine.xml" /><tool file="data_source/fly_modencode.xml" /><tool file="data_source/modmine.xml" /> + <tool file="data_source/mousemine.xml" /><tool file="data_source/ratmine.xml" /><tool file="data_source/yeastmine.xml" /><tool file="data_source/worm_modencode.xml" /> diff -r 8ada40b184144447c5949bbbac3e2ec65cfaac58 -r 14733d29e6dda03a49e5fe67e222480235f1901c tool_conf.xml.sample --- a/tool_conf.xml.sample +++ b/tool_conf.xml.sample @@ -16,6 +16,7 @@ <tool file="data_source/flymine.xml" /><tool file="data_source/flymine_test.xml" /><tool file="data_source/modmine.xml" /> + <tool file="data_source/mousemine.xml" /><tool file="data_source/ratmine.xml" /><tool file="data_source/yeastmine.xml" /><tool file="data_source/metabolicmine.xml" /> diff -r 8ada40b184144447c5949bbbac3e2ec65cfaac58 -r 14733d29e6dda03a49e5fe67e222480235f1901c tools/data_source/mousemine.xml --- /dev/null +++ b/tools/data_source/mousemine.xml @@ -0,0 +1,35 @@ +<?xml version="1.0"?> +<!-- + If the value of 'URL_method' is 'get', the request will consist of the value of 'URL' coming back in + the initial response. If value of 'URL_method' is 'post', any additional params coming back in the + initial response ( in addition to 'URL' ) will be encoded and appended to URL and a post will be performed. +--> +<tool name="MouseMine" id="mousemine" tool_type="data_source"> + <description>server</description> + <command interpreter="python">data_source.py $output $__app__.config.output_size_limit</command> + <inputs action="http://www.mousemine.org/mousemine/begin.do" check_values="false" method="get"> + <display>go to MouseMine server $GALAXY_URL</display> + <param name="GALAXY_URL" type="baseurl" value="/tool_runner?tool_id=mousemine" /> + </inputs> + <request_param_translation> + <request_param galaxy_name="URL_method" remote_name="URL_method" missing="post" /> + <request_param galaxy_name="URL" remote_name="URL" missing="" /> + <request_param galaxy_name="dbkey" remote_name="db" missing="?" /> + <request_param galaxy_name="organism" remote_name="organism" missing="" /> + <request_param galaxy_name="table" remote_name="table" missing="" /> + <request_param galaxy_name="description" remote_name="description" missing="" /> + <request_param galaxy_name="name" remote_name="name" missing="MouseMine query" /> + <request_param galaxy_name="info" remote_name="info" missing="" /> + <request_param galaxy_name="data_type" remote_name="data_type" missing="auto" > + <value_translation> + <value galaxy_value="auto" remote_value="txt" /><!-- intermine currently always provides 'txt', make this auto detect --> + </value_translation> + </request_param> + </request_param_translation> + <uihints minwidth="800"/> + <outputs> + <data name="output" format="txt" /> + </outputs> + <options sanitize="False" refresh="True"/> +</tool> + Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.