Hi
I am wrapping a python script as GALAXY tool. But I am getting an error message.
Please see the error message and suggest for the possible fix.
Hi @Mobile_short_film the error means that, in the environment that your tool is running in, there is no python3 command.
You might just have to add a python <requirement> to the wrapper.
Does that help?
Yes. I figured out the issue. This was due to dependency requirements. Still conda environment on my desktop is not working properly. I have to fix it. Thanking you.
I’ll just add that there seems to be a typo in the string pyhton3 where you likely need to have python3. (As noticed over in the GTA Slack channel). Maybe check the top of your tool.xml? The typo was likely in the tag that @wm75 is referencing?
Then, I’ll share some more details about Planemo which can do these sorts of checks for you in an automated way, plus help to create test cases and other layers into your new tool! ![]()
With a deep dive into how this all fits together here at the GTN.
Yes. It was type. I fixed that. Again I am into error due conda environment SSL. This is not letting GALAXY use biopython dependencies.
Great! Glad you have that part corrected.
Would you like to share back the new error for more troubleshooting?
Or, you can review this tutorial for the recommended path. The example uses bioconda. → Hands-on: Creating Galaxy tools from Conda Through Deployment / Creating Galaxy tools from Conda Through Deployment / Development in Galaxy
Let’s continue from there! ![]()