add modal for initial import of QFeatures (processQFeatures)

[leopoldguyot]

• Modal appears when no QFeatures is provided to the processQFeatures function.
• User can then load an RDS file that needs to be a QFeatures object (error message otherwise)
• User can then choose which sets should be used as the initial serie of set to process.

[Copilot]

Pull request overview

Makes the initial QFeatures object optional for processQFeatures() by introducing a startup modal that lets users upload an RDS file and pick which sets to use as initial assays. Workflow configuration is blocked until a QFeatures object is loaded, with a path back into the upload modal.

Changes:

• processQFeatures() now accepts qfeatures = NULL (and initialSets = NULL), defers validation/normalization until an object is available, and forwards a new has_qfeatures flag to the server builder.
• build_process_server() initializes .qf$qfeatures/workflow_config empty when no object is provided, defines the startup modal and its upload/select/load observers, and reopens the modal on startup_show_upload.
• server_module_workflow_config() gates input$apply when no QFeatures is loaded and exposes a button to reopen the upload modal; check_qfeatures() now distinguishes RDS-path errors, and tests cover both the new error text and construction without qfeatures.

Reviewed changes

Copilot reviewed 6 out of 6 changed files in this pull request and generated 1 comment.

Show a summary per file

File	Description
R/processQFeatures.R	Makes qfeatures/initialSets optional and propagates a has_qfeatures flag to the server.
R/build_process_server.R	Adds startup upload modal, set-selection UI, upload/load observers, and conditional startup flow.
R/server_module_workflow_config.R	Blocks workflow apply when .qf$qfeatures is NULL and offers a button to reopen the startup modal.
R/utils_processQFeatures.R	Differentiates the error message when an RDS file does not contain a QFeatures object.
tests/testthat/test-utils-processQFeatures.R	Updates the expected error message for the RDS-path failure case.
tests/testthat/test-processQFeatures.R	Adds a construction test for processQFeatures() with no arguments.

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