Do you have the value set in Galaxy's *$GALAXY_ROOT/config/galaxy.ini* file
for setting *tool_config_file *option? I believe this variable should be
set to a file other than the default **.sample*.
On Wed, Apr 6, 2016 at 9:21 PM, William Ge <wge(a)centrilliontech.com> wrote:
I got ansible running and installed the tools on my local instance of
Galaxy. However, the tools are not shown on the tool panel on the web page.
Wonder if the tools has been installed in the wrong place, or something
else is wrong. Have been searching the Wiki and list without any resulst.
Please point me to the right directions.
*From:* Marius van den Beek [mailto:email@example.com]
*Sent:* Friday, March 4, 2016 12:27 PM
*To:* William Ge <wge(a)centrilliontech.com>
*Cc:* Dannon Baker <dannon.baker(a)gmail.com>;
*Subject:* Re: [galaxy-dev] ERROR: PIP is not a legl parament of an
On 4 March 2016 at 20:47, William Ge <wge(a)centrilliontech.com> wrote:
Thanks a lot, Marius!
Sure, you're welcome!
I am a newbie to this complex system and want a quick clone/install
locally. I have spent over two weeks on the process. There are many
configuration files and environment variables or dependencies to sort out.
I wish the sample configuration files would include most of the options so
that new installation just needs to comment out or delete unwanted ones.
The galaxy team definitely aims for this, and usually you should (tm) be
able to clone galaxy and use run.sh to get going.
If you can tell us the steps where you were struggling we can try to
update or clarify the documentation (A lot of it is on the wiki).
Anyway, here is the error I got:
[galaxy@Pegasus ansible-galaxy-tools]$ python
Traceback (most recent call last):
File "files/install_tool_shed_tools.py", line 49, in <module>
logging.captureWarnings(True) # Capture HTTPS warngings from urllib3
AttributeError: 'module' object has no attribute 'captureWarnings'
If I run this after activating the galaxy_env and install ensible,
bioblend, argparse and importlib, the same error came up. I guess this is
Python 2.6 issue. Any solutions known?
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