Error in Join two datasets in Galaxy Docker 20.05

, ,
1

Now, I installed Galaxy Docker 20.05 and tried to join two datasets using ’ Join Two Datasets side by side 2.1.3’. I can’t get the tool to run it. Error like this : 'No module named ‘galaxy’. After searching previous list, I noticed that there were technical problem in this module and fixed it now. But, this fault is not fixed in Docker image 20.05. So, I tried to download other version of ‘join two datasets side by side’ on tool shed and didn’t find anything. Are there any other option to solve this problem?

2

Is this the only tool failing like this?

3

Hi everyone! I had this same problem. But, I have a recent Galaxy installed in our local server, but not by the Docker.

For me, the error message is:

galaxy/tools/filters/join.py", line 19, in
from galaxy.util import stringify_dictionary_keys
ModuleNotFoundError: No module named ‘galaxy’

Any tip to fix it?
Thanks

4

Hi everyone,

I am facing same problem. @lfdeoliveira did you solve this?

I’d highly appreciate if anyone can comment down the solution below.

5

Update:

The Galaxy Docker release has been updated since this question was originally asked, and dependencies for this tool would be managed correctly in that environment now using default settings.

The later question didn’t involve a Docker image but a stand-alone Galaxy instance. The problem was due to a configuration issue that has been discussed in this Gitter chat. In short, a dependency was missing.

@lfdeoliveira First, make sure that you installed the most current Galaxy release, that you setup the installation directory correctly, and review that Gitter chat help. You are probably missing that same dependency.

For a very simple local Galaxy intended to be used by a single person, these instructions are still valid, and it it would be easiest to install tools from the ToolShed using managed dependencies, especially if you are new to server administration.

If that does not resolve the problem, and you need more help, please ask your new question in a new topic and include enough details so we can help. This would include at a minimum: the version/source of Galaxy, details about the local environment (OS, python version), and any admin configuration changes you have done so far, including tool installs and how those were done. We might need to bring in expertise from the Galaxy Admin working group, but it is fine to get that started here.