Transformation Workflow

[Kerem-G]

No description provided.

[github-actions]

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[doublergreer]

LGTM

[Gonza10V]

@codex make a detailed review of this PR

[Copilot]

Pull request overview

This PR removes the legacy “Assembly Plan” editor/object type and shifts workflow UI focus to the Transformations panel by expanding the Transformation wizard into a multi-step “Design → Build → Collection → Execute” flow.

Changes:

• Removed the Assembly panel type and Assembly object type from the frontend registries.
• Deleted the Assembly editor panel/wizard implementation.
• Expanded TransformationWizard with additional workflow steps and configuration UI (assembly method/compiler/machine selections).

Reviewed changes

Copilot reviewed 6 out of 6 changed files in this pull request and generated 4 comments.

Show a summary per file

File	Description
frontend/src/panels.js	Removes the Assembly panel type registration.
frontend/src/objectTypes.js	Removes the Assembly object type registration.
frontend/src/components/panels/transformations/TransformationWizard.jsx	Adds a 4-step transformation workflow UI and build configuration selections.
frontend/src/components/panels/assembly-editor/AssemblyWizard.jsx	Deletes the previous Assembly wizard implementation.
frontend/src/components/panels/assembly-editor/AssemblyPanel.jsx	Deletes the previous Assembly panel implementation.
frontend/src/activities.js	Removes Assembly object type from the Explorer activity’s listed object types.

Comments suppressed due to low confidence (2)

frontend/src/panels.js:114

• After removing the AssemblyPlanCreator panel type, GiThorHammer appears to be unused in this file. Please remove the unused icon import to avoid dead code and potential lint/build warnings.

    Experiment: {
        id: "synbio.panel-type.data-collector",
        title: "Data Collector",
        component: CollectionPanel,
        objectTypes: [ ObjectTypes.Experiments.id ],
        icon: FcAddDatabase,

frontend/src/objectTypes.js:105

• With the Assembly object type removed, the GiThorHammer icon import at the top of this file is now unused. Please remove the unused import to keep the ObjectTypes module clean and avoid lint/build warnings.

        subdirectory: "strains",
        downloadable: true,
    },
    Transformations: {
        id: "synbio.object-type.transformations",
        title: "Transformations",
        listTitle: "Transformations",
        fileNameMatch: /\.json$/,
        icon: GiSewingMachine,
        createable: true,
        extension: '.json',
        subdirectory: "transformations"

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[github-actions]

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