I have a problem with galaxy search tools, when I write the name of an existing software don’t appear in searched tools
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Few questions:
- What is the tool you are looking for?
- Where are you working? If a public Galaxy server, post back the URL. If your own Galaxy server, did you install the tool already?
- If you are instead searching for the tool in the
ToolShed, it may not be wrapped for Galaxy yet, but we can help to double-check.
Let’s start there, thanks!
Thanks for response, i ma working in public galaxy both galaxy.org and galaxy.eu, and searching fro tools already installed in galaxy servers
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Hello @hisham_altayb
Many tools require specific resources and the tools available at any public Galaxy server are expected to differ from others. The servers are not mirrored sites. https://galaxyproject.org/use/
Review the tool panel categories at usegalaxy.org and usegalaxy.eu and compare. You’ll notice that the tool group “ChemicalToolBox” (where both of your example tools are listed) is available at usegalaxy.eu but not usegalaxy.org.
Thanks!
Thanks for reply, yes I know the point of the different tools found in diffrent server, my question was about already installed tools, and known at both for example, if I want to search for Fastq in galaxy.org it will never appear.
Hi – could you clarify a bit more? Which tool are you looking for that is installed both places but not found with a tool search?
If you search with a very common “word” such as “fastq” – that will have many matches and at some point the resulting tools will be truncated. Meaning, the more specific the search term is, the more specific the search result will be.
Tool searches are a bit complicated to tune. But we make adjustments all the time. Each server does it a bit differently. Example discussions that include the various factors involved are below if you are curious. Also feel free to report a tool that you know exists both places but is not found with a search (the tool’s name, not a datatype – that will have too many hits). The developers will see it in the ticket.
- All open issues that are related: https://github.com/search?q=org%3Agalaxyproject+tool+search&type=Issues
- One of the oldest threads (going since 2016!): improve tool panel search · Issue #2272 · galaxyproject/galaxy · GitHub << best place to report a tool not found when searching with the actual tool’s name
Thanks!
This tool suite is not installed at usegalaxy.org.
It is installed at usegalaxy.eu.
The tools are wrapped in the ToolShed for installation into your own Galaxy. https://toolshed.g2.bx.psu.edu/ – Seach with keyword “gromacs” or “gmx”.
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