Updating tools/beacon2 from version 2.0.0 to 2.1.1

[gxydevbot]

Hello! This is an automated update of the following tool: tools/beacon2. I created this PR because I think the tool's main dependency is out of date, i.e. there is a newer version available through conda.

I have updated tools/beacon2 from version 2.0.0 to 2.0.5.

Project home page: https://github.com/EGA-archive/beacon2-ri-tools/tree/main/releases

For any comments, queries or criticism about the bot, not related to the tool being updated in this PR, please create an issue here.

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[gxydevbot]

There are new updates, they have been integrated to the PR, check the file diff.

[SaimMomin12]

Major changes upstream. @khaled196 would you have sometime to work on this?

[khaled196]

@SaimMomin12

Hi Saim, Yes, I do. I have contacted the Ga4GH for this update (I have updated the conda package). I wanted to update the tools on Galaxy, but I don't have access to a Planemo-compatible VM. I used to develop using Gitpod, but Gitpod is not accessible anymore.

I am looking for alternatives to wrap the tools in. If you have recommendations, please share them with me.

[SaimMomin12]

@SaimMomin12

Hi Saim, Yes, I do. I have contacted the Ga4GH for this update (I have updated the conda package). I wanted to update the tools on Galaxy, but I don't have access to a Planemo-compatible VM. I used to develop using Gitpod, but Gitpod is not accessible anymore.

I am looking for alternatives to wrap the tools in. If you have recommendations, please share them with me.

@khaled196 You could simply install planemo using pip on your VM. Does that work? If not, please feel free to ping Björn. :)

[gxydevbot]

There are new updates, they have been integrated to the PR, check the file diff.

[gxydevbot]

There are new updates, they have been integrated to the PR, check the file diff.