API get tool wrapper version

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1

Hi there!

I wish to get the version number of a tool’s wrapper through the ToolShed API (for instance 2.4.6 for rrparser).

When I curl https://toolshed.g2.bx.psu.edu/api/repositories?name=rrparser, there is no version number while it is displayed on the ToolShed web page.

Any help will be very appreciated since the ToolShed API documentation is very thin.

2

Hi,

not sure if helpful but here is some documentation: Tool Shed API — Galaxy Project 20.09 documentation and bioblend also has some TS support: bioblend.toolshed — BioBlend 0.16.0 documentation

Hope that helps,
Bjoern

3

Thanks a lot Bjoern. Unfortunately, I still cannot find the right command. I tried the following without success:

(test) ➜  ToolVersionMonitor git:(main) ✗ curl -i "https://toolshed.g2.bx.psu.edu/api/repositories/get_ordered_installable_revisions?name=rrparser"
HTTP/1.1 200 OK
Server: nginx/1.18.0 (Ubuntu)
Date: Mon, 07 Feb 2022 17:20:15 GMT
Content-Type: application/json; charset=UTF-8
Transfer-Encoding: chunked
Connection: keep-alive
Vary: Accept-Encoding
cache-control: max-age=0,no-cache,no-store

[]%
(test) ➜  ToolVersionMonitor git:(main) ✗ curl -i "https://toolshed.g2.bx.psu.edu/api/repositories/get_repository_revision_install_info?name=rrparser"
HTTP/1.1 500 Internal Server Error
Server: nginx/1.18.0 (Ubuntu)
Date: Mon, 07 Feb 2022 17:20:26 GMT
Content-Type: text/html; charset=utf8
Transfer-Encoding: chunked
Connection: keep-alive

<html>
  <head><title>Internal Server Error</title></head>
  <body>
    <h1>Internal Server Error</h1>
    <p>The server has either erred or is incapable of performing
the requested operation.

<br/>
<!--  --></p>
    <hr noshade>
    <div align="right">WSGI Server</div>
  </body>
</html>
4

I don’t know :frowning: Galaxy is getting this information. So maybe you can track this down from the Galaxy side?

Maybe @nsoranzo has an idea?
What are you trying to do @breakthewall. Maybe we can give you your data in another way?

5

Actually I’m developing a tool that checks versions of a tool all along the chain (GitHub source code, Conda package and Galaxy Wrapper). Because we developed a bunch of tools and sometimes it’s hard to follow all the versions of multiple publishing platforms.
Then I use GitHub and Anaconda API through shields.io to get latest releases of tools with colored badges. As said in my first post, this is a little bit more tricky with the Galaxy ToolShed. We actually have a piece of code which get first the latest release ID and with that ID we are able to make a second request to get the latest version number. It’s a two-steps request which is not compliant with shields.io forged request. In addition, as the version number is inside nested dictionaries, I have to create a dummy JSON file to get it read by shields.io.
Maybe it should be useful to add the latest version of a ToolShed tool in the first-level of the response sent back from one single request.

6

Was just going to reply that sth like https://toolshed.g2.bx.psu.edu/api/repositories/get_repository_revision_install_info?name=rrparser&owner=tduigou&changeset_revision=ea590c609fec is containing the version info, but you seem to be well aware of this possibility.

The idea to put the latest version into the first-level response sounds reasonable. Question is wehther somebody is available for implementing it.

1 Like
7

Hi,
@breakthewall and I, work in the same team.
We have noticed a spelling mistake in the webpage Galaxy Toolshed Api under the paragraph dedicated to the function get_repository_revision_install_info where the parameter changeset_revision is written as changset_revision
Another suggestion would be to add a version of the API in the url like:
/api/repositories/get_repository_revision_install_info becomes /api/v1/repositories/get_repository_revision_install_info
Lastly, I’ve pushed a PR #7633 to the shields.io to make badges with the version of tools.

1 Like