Issue 914: Proteomics features still showing in small molecule mode

Assigned To:Guest
Opened:2022-10-18 12:27 by Brendan MacLean
Changed:2023-05-03 16:44 by Brian Pratt
Resolved:2023-05-03 16:44 by Brian Pratt
Closed:2023-05-03 16:44 by Brian Pratt
2022-10-18 12:27 Brendan MacLean
Title»Proteomics features still showing in small molecule mode
Assigned To»Brian Pratt
During the latest iteration of Skyline-Online for small molecules, the following proteomics features were found to show up when Skyline is in small molecule UI mode:
1. Reports that no longer show up in the Document Grid - Reports (Peptide Quantification, Peptide Ratio Results, Peptide RT Results, etc.) show up in the list under File > Export > Report. If you click the "Edit list..." button in this form, you see a list with certain items grayed out. I think the grayed out items should no appear in the "Report:" list under File > Export > Report. Possibly, we should categorize tools by whether they are small molecule or proteomics tools and hide/show their reports based on this.
2. In the Molecule Settings - Library tab, clicking the "Build..." button shows a form with "Data source" for "Files" and "Prosit", but Prosit is a Proteomics-only tool. So, the small molecule form probably should have the "Data source" box hidden, and controls below it shifted up to its y-position.
3. If you give your library a name in the Build Library wizard and then click the "Add Files..." button, the file types drop-down list contains "Matched Peptides" and a very extensive list of peptide spectrum matching tools that produce output formats we recognize for library building. This should be changed to "Matched Molecules (*.ssl)" (adding any other output formats that we know we support for small molecules.

2023-05-03 16:44 Brian Pratt
resolve as Fixed
Assigned ToBrian Pratt»Brendan MacLean
fixed 5/1/2023 in commit 9c54301acc504061035e09f4924d5c3e10f31a82

* fixes for Issue 914: "Proteomics features still showing in small molecule mode" (#2577)

* The Prosit-related controls in the Build Library dialog should not appear when the UI is in small molecule mode

* Tooltips for menu items weren't being processed for ModeUI peptide->molecule treatment

* Make the Build Library dialog file picker ModeUI aware - don't offer proteomic-only file .ext selections

* restrict the reports offered in File > Export > Report to those that make sense in the current UI mode, using the same technique as in the Document Grid

reported by Brendan

2023-05-03 16:44 Brian Pratt
Assigned ToBrendan MacLean»Guest