Tool not recognising .embl files
Hi @Evan_Gibbs
To learn which datasets a tool will recognize as valid dataset for a particular input area on the form, these are the steps. This works for all tools, all inputs.
- toggle open the accepted formats area right under that particular input area on the tool form
- check the assigned format (datatype) of your datasets in the history
- when those “match”, a dataset in your history will be listed as a potential input, and you can select it
If there is not match found, one of these is usually going on:
- you still need to load the data up to Galaxy (Upload or another Get Data tool)
- the dataset is in a history that isn’t the active history yet (Data → Histories to switch)
- the dataset you loaded has the wrong datatype assigned, or isn’t the type of data the tool can work with. You can correct the first, and maybe create new data for the second.
Check your tool form for this:
Screenshot.
Notice how this example is clarifying that a “tabular” input is needed, and it has a short message pointing to the Help section at the bottom of the form that explains more. The Help section is still a good place to check on any tool form: extra usage help, tutorial links, links to prior Q&A at this forum, plus external resources and publications, if any.
In general, Galaxy will correctly detect the correct datatype format during Upload. For really rare file types, you might need to directly assign but that isn’t very common. So, allow that to “auto-detection” to happen first since it solves many common issues. Then, if that guess is wrong, there is likely a reason: maybe the file is malformed and that needs to be addressed?
More about Upload → Getting Data into Galaxy
FAQs about manipulating Datasets → Galaxy FAQs
Usage in Galaxy is based on the same underlying tool as it is used anywhere else, so the author guides are the definitive usage resource. But any questions with the “translate to Galaxy” parts – we can try to help here. We usually need some orientation information from you – see the banner at this forum for how to do that. Full tool name and version, the URL of the server you are working at, then your shared history link if you are getting an error or a data mismatch of some sort.
Please give that a review, and let us know what happens! You can ask more follow up questions, too, but we’ll need a few more of those details to provide specific help.
Thanks! 