I've had trouble before with invalid xml files (in your case test.xml)
I don't see an obvious problem with your file, but I've never tried such a
Have a look at galaxy's log during startup to see if it tells you what it
does not like about the file.
New England Biolabs
On 2/7/12 6:32 AM, "Sarah Maman" <sarah.ma...@toulouse.inra.fr> wrote:
>I managed to add a new tool coded in bash but I am having some
>difficulty adding a tool coded in python.
>Here are the contents of the test files:
>* Content of test.xml file in galaxy/galaxy-dist/tools/test/test.xml :
><tool id="test" name="Test name">
> <description>Test description</description>
> <command interpreter="python">test.py</command>
>* Content of test.py file in galaxy/galaxy-dist/tools/test/test.py :
>for param in os.environ.keys():
> print "%20s %s" % (param,os.environ[param])
>* Content of tool_conf_xml file in galaxy/galaxy-dist/ :
> <section name="Get Data" id="getext">
> <tool file="test/test.xml" />
> <tool file="uploadFile/uploadFile.xml" />
> <tool file="data_source/upload.xml"/>
> <tool file="data_source/ucsc_tablebrowser.xml" />
> <tool file="data_source/ucsc_tablebrowser_test.xml" />......
>Could you, please, explain me why the new tool "test" isn't avalaible in
>Tools/Get Data windows (on the left, before uploadFile and upload tools )
>Thanks in advance,
>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:
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: