boltz-api 0.44.1 → 0.45.0

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Files changed (47) hide show
  1. package/CHANGELOG.md +8 -0
  2. package/client.d.mts +2 -2
  3. package/client.d.ts +2 -2
  4. package/client.js +2 -2
  5. package/client.mjs +2 -2
  6. package/package.json +1 -1
  7. package/resources/admin/workspaces.d.mts +1 -1
  8. package/resources/admin/workspaces.d.ts +1 -1
  9. package/resources/admin/workspaces.js +1 -1
  10. package/resources/admin/workspaces.mjs +1 -1
  11. package/resources/protein/design.d.mts +87 -50
  12. package/resources/protein/design.d.mts.map +1 -1
  13. package/resources/protein/design.d.ts +87 -50
  14. package/resources/protein/design.d.ts.map +1 -1
  15. package/resources/protein/library-screen.d.mts +62 -30
  16. package/resources/protein/library-screen.d.mts.map +1 -1
  17. package/resources/protein/library-screen.d.ts +62 -30
  18. package/resources/protein/library-screen.d.ts.map +1 -1
  19. package/resources/protein/protein.d.mts +1 -1
  20. package/resources/protein/protein.d.ts +1 -1
  21. package/resources/protein/protein.js +1 -1
  22. package/resources/protein/protein.mjs +1 -1
  23. package/resources/small-molecule/design.d.mts +52 -20
  24. package/resources/small-molecule/design.d.mts.map +1 -1
  25. package/resources/small-molecule/design.d.ts +52 -20
  26. package/resources/small-molecule/design.d.ts.map +1 -1
  27. package/resources/small-molecule/library-screen.d.mts +52 -20
  28. package/resources/small-molecule/library-screen.d.mts.map +1 -1
  29. package/resources/small-molecule/library-screen.d.ts +52 -20
  30. package/resources/small-molecule/library-screen.d.ts.map +1 -1
  31. package/resources/small-molecule/small-molecule.d.mts +1 -1
  32. package/resources/small-molecule/small-molecule.d.ts +1 -1
  33. package/resources/small-molecule/small-molecule.js +1 -1
  34. package/resources/small-molecule/small-molecule.mjs +1 -1
  35. package/src/client.ts +2 -2
  36. package/src/resources/admin/workspaces.ts +1 -1
  37. package/src/resources/protein/design.ts +95 -50
  38. package/src/resources/protein/library-screen.ts +70 -30
  39. package/src/resources/protein/protein.ts +1 -1
  40. package/src/resources/small-molecule/design.ts +60 -20
  41. package/src/resources/small-molecule/library-screen.ts +60 -20
  42. package/src/resources/small-molecule/small-molecule.ts +1 -1
  43. package/src/version.ts +1 -1
  44. package/version.d.mts +1 -1
  45. package/version.d.ts +1 -1
  46. package/version.js +1 -1
  47. package/version.mjs +1 -1
package/CHANGELOG.md CHANGED
@@ -1,5 +1,13 @@
1
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  # Changelog
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+ ## 0.45.0 (2026-06-15)
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+
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+ Full Changelog: [v0.44.1...v0.45.0](https://github.com/boltz-bio/boltz-api-typescript/compare/v0.44.1...v0.45.0)
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+
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+ ### Features
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+
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+ * **compute-api:** rename public pipeline identifiers ([d19af6e](https://github.com/boltz-bio/boltz-api-typescript/commit/d19af6e265bd696e125744104a3537a0aae7d358))
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+
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  ## 0.44.1 (2026-06-15)
4
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  Full Changelog: [v0.44.0...v0.44.1](https://github.com/boltz-bio/boltz-api-typescript/compare/v0.44.0...v0.44.1)
package/client.d.mts CHANGED
@@ -183,11 +183,11 @@ export declare class Boltz {
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  */
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  predictions: API.Predictions;
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  /**
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- * Small Molecule Engine — design novel small molecules and screen compound libraries against protein targets. Includes de novo generation and virtual screening.
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+ * Small Molecule Pipeline — design novel small molecules and screen compound libraries against protein targets. Includes de novo generation and virtual screening.
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  */
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  smallMolecule: API.SmallMolecule;
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  /**
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- * Protein Engine — design novel protein binders and screen protein libraries against targets. Includes de novo protein design and library screening.
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+ * Protein Pipeline — design novel protein binders and screen protein libraries against targets. Includes de novo protein design and library screening.
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  */
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  protein: API.Protein;
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  /**
package/client.d.ts CHANGED
@@ -183,11 +183,11 @@ export declare class Boltz {
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  */
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  predictions: API.Predictions;
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  /**
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- * Small Molecule Engine — design novel small molecules and screen compound libraries against protein targets. Includes de novo generation and virtual screening.
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+ * Small Molecule Pipeline — design novel small molecules and screen compound libraries against protein targets. Includes de novo generation and virtual screening.
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  */
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  smallMolecule: API.SmallMolecule;
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  /**
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- * Protein Engine — design novel protein binders and screen protein libraries against targets. Includes de novo protein design and library screening.
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+ * Protein Pipeline — design novel protein binders and screen protein libraries against targets. Includes de novo protein design and library screening.
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  */
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  protein: API.Protein;
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  /**
package/client.js CHANGED
@@ -52,11 +52,11 @@ class Boltz {
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  */
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  this.predictions = new API.Predictions(this);
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  /**
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- * Small Molecule Engine — design novel small molecules and screen compound libraries against protein targets. Includes de novo generation and virtual screening.
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+ * Small Molecule Pipeline — design novel small molecules and screen compound libraries against protein targets. Includes de novo generation and virtual screening.
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  */
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  this.smallMolecule = new API.SmallMolecule(this);
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  /**
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- * Protein Engine — design novel protein binders and screen protein libraries against targets. Includes de novo protein design and library screening.
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+ * Protein Pipeline — design novel protein binders and screen protein libraries against targets. Includes de novo protein design and library screening.
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  */
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  this.protein = new API.Protein(this);
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  /**
package/client.mjs CHANGED
@@ -49,11 +49,11 @@ export class Boltz {
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  */
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  this.predictions = new API.Predictions(this);
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  /**
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- * Small Molecule Engine — design novel small molecules and screen compound libraries against protein targets. Includes de novo generation and virtual screening.
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+ * Small Molecule Pipeline — design novel small molecules and screen compound libraries against protein targets. Includes de novo generation and virtual screening.
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  */
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  this.smallMolecule = new API.SmallMolecule(this);
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  /**
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- * Protein Engine — design novel protein binders and screen protein libraries against targets. Includes de novo protein design and library screening.
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+ * Protein Pipeline — design novel protein binders and screen protein libraries against targets. Includes de novo protein design and library screening.
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  */
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  this.protein = new API.Protein(this);
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  /**
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
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  {
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  "name": "boltz-api",
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- "version": "0.44.1",
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+ "version": "0.45.0",
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  "description": "The official TypeScript library for the Boltz API",
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  "author": "Boltz <contact@boltz.bio>",
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  "types": "./index.d.ts",
@@ -3,7 +3,7 @@ import { APIPromise } from "../../core/api-promise.mjs";
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  import { CursorPage, type CursorPageParams, PagePromise } from "../../core/pagination.mjs";
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  import { RequestOptions } from "../../internal/request-options.mjs";
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  /**
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- * Workspaces provide isolated environments for organizing predictions and engine runs across teams, projects, or customers. Each workspace has independent data retention settings and can be associated with workspace API keys.
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+ * Workspaces provide isolated environments for organizing predictions and pipeline runs across teams, projects, or customers. Each workspace has independent data retention settings and can be associated with workspace API keys.
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  */
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  export declare class Workspaces extends APIResource {
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  /**
@@ -3,7 +3,7 @@ import { APIPromise } from "../../core/api-promise.js";
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  import { CursorPage, type CursorPageParams, PagePromise } from "../../core/pagination.js";
4
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  import { RequestOptions } from "../../internal/request-options.js";
5
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  /**
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- * Workspaces provide isolated environments for organizing predictions and engine runs across teams, projects, or customers. Each workspace has independent data retention settings and can be associated with workspace API keys.
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+ * Workspaces provide isolated environments for organizing predictions and pipeline runs across teams, projects, or customers. Each workspace has independent data retention settings and can be associated with workspace API keys.
7
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  */
8
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  export declare class Workspaces extends APIResource {
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  /**
@@ -6,7 +6,7 @@ const resource_1 = require("../../core/resource.js");
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  const pagination_1 = require("../../core/pagination.js");
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  const path_1 = require("../../internal/utils/path.js");
8
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  /**
9
- * Workspaces provide isolated environments for organizing predictions and engine runs across teams, projects, or customers. Each workspace has independent data retention settings and can be associated with workspace API keys.
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+ * Workspaces provide isolated environments for organizing predictions and pipeline runs across teams, projects, or customers. Each workspace has independent data retention settings and can be associated with workspace API keys.
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  */
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  class Workspaces extends resource_1.APIResource {
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  /**
@@ -3,7 +3,7 @@ import { APIResource } from "../../core/resource.mjs";
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  import { CursorPage } from "../../core/pagination.mjs";
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  import { path } from "../../internal/utils/path.mjs";
5
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  /**
6
- * Workspaces provide isolated environments for organizing predictions and engine runs across teams, projects, or customers. Each workspace has independent data retention settings and can be associated with workspace API keys.
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+ * Workspaces provide isolated environments for organizing predictions and pipeline runs across teams, projects, or customers. Each workspace has independent data retention settings and can be associated with workspace API keys.
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  */
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  export class Workspaces extends APIResource {
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  /**
@@ -136,7 +136,7 @@ export declare class Design extends APIResource {
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  export type DesignListResponsesCursorPage = CursorPage<DesignListResponse>;
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  export type DesignListResultsResponsesCursorPage = CursorPage<DesignListResultsResponse>;
138
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  /**
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- * A protein design engine run that generates novel protein binders
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+ * A protein design pipeline run that generates novel protein binders
140
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  */
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  export interface DesignRetrieveResponse {
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  /**
@@ -151,13 +151,13 @@ export interface DesignRetrieveResponse {
151
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  */
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  data_deleted_at: string | null;
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  /**
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- * Engine used for protein design
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+ * @deprecated Use pipeline instead.
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  */
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- engine: 'boltz-protein-design';
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+ engine: 'boltzprot';
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  /**
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- * Engine version used for protein design
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+ * @deprecated Use pipeline_version instead.
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  */
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- engine_version: string;
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+ engine_version: '1.0';
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  error: DesignRetrieveResponse.Error | null;
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  /**
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  * Pipeline input (null if data deleted)
@@ -167,6 +167,14 @@ export interface DesignRetrieveResponse {
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  * Whether this resource was created with a live API key.
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  */
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  livemode: boolean;
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+ /**
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+ * Pipeline used for protein design
172
+ */
173
+ pipeline: 'boltzprot';
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+ /**
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+ * Pipeline version used for protein design
176
+ */
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+ pipeline_version: '1.0';
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  progress: DesignRetrieveResponse.Progress | null;
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  started_at: string | null;
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  status: 'pending' | 'running' | 'succeeded' | 'failed' | 'stopped';
@@ -227,14 +235,15 @@ export declare namespace DesignRetrieveResponse {
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  * Binder specification starting from an existing 3D structure. Upload a CIF/PDB
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  * file and select which chains to include, which residues to keep, and which
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  * regions to redesign. Only chains included in chain_selection are part of the
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- * engine run.
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+ * pipeline run.
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  */
232
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  interface StructureTemplateBinderSpecResponse {
233
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  /**
234
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  * Chains selected from the uploaded binder structure, keyed by chain ID. Only
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- * chains listed here are included in the engine run — any chains omitted from this
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- * mapping are ignored. Each value defines which residues to keep (crop_residues).
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- * Omit design_motifs to include the chain as fixed scaffold context.
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+ * chains listed here are included in the pipeline run — any chains omitted from
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+ * this mapping are ignored. Each value defines which residues to keep
245
+ * (crop_residues). Omit design_motifs to include the chain as fixed scaffold
246
+ * context.
238
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  */
239
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  chain_selection: {
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  [key: string]: StructureTemplateBinderSpecResponse.StructureTemplatePolymerChainSpec | StructureTemplateBinderSpecResponse.StructureTemplateLigandChainSpec;
@@ -747,7 +756,7 @@ export declare namespace DesignRetrieveResponse {
747
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  interface StructureTemplateTargetResponse {
748
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  /**
749
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  * Chains selected from the uploaded structure, keyed by chain ID. Only chains
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- * listed here are included in the engine run — any chains omitted from this
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+ * listed here are included in the pipeline run — any chains omitted from this
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  * mapping are ignored. Each value defines which residues to keep, which are
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  * epitope residues, which are non-binding residues, and which are flexible.
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  */
@@ -766,7 +775,7 @@ export declare namespace DesignRetrieveResponse {
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  chain_type: 'polymer';
767
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  /**
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  * 0-indexed residue indices to retain from this chain, or 'all' to keep all
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- * residues. Residues not listed are excluded from the engine run.
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+ * residues. Residues not listed are excluded from the pipeline run.
770
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  */
771
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  crop_residues: Array<number> | 'all';
772
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  /**
@@ -1197,7 +1206,7 @@ export declare namespace DesignRetrieveResponse {
1197
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  }
1198
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  }
1199
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  /**
1200
- * Summary of a protein design engine run (excludes input)
1209
+ * Summary of a protein design pipeline run (excludes input)
1201
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  */
1202
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  export interface DesignListResponse {
1203
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  /**
@@ -1212,18 +1221,26 @@ export interface DesignListResponse {
1212
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  */
1213
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  data_deleted_at: string | null;
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  /**
1215
- * Engine used for protein design
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+ * @deprecated Use pipeline instead.
1216
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  */
1217
- engine: 'boltz-protein-design';
1226
+ engine: 'boltzprot';
1218
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  /**
1219
- * Engine version used for protein design
1228
+ * @deprecated Use pipeline_version instead.
1220
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  */
1221
- engine_version: string;
1230
+ engine_version: '1.0';
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  error: DesignListResponse.Error | null;
1223
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  /**
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  * Whether this resource was created with a live API key.
1225
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  */
1226
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  livemode: boolean;
1236
+ /**
1237
+ * Pipeline used for protein design
1238
+ */
1239
+ pipeline: 'boltzprot';
1240
+ /**
1241
+ * Pipeline version used for protein design
1242
+ */
1243
+ pipeline_version: '1.0';
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  progress: DesignListResponse.Progress | null;
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  started_at: string | null;
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  status: 'pending' | 'running' | 'succeeded' | 'failed' | 'stopped';
@@ -1559,7 +1576,7 @@ export declare namespace DesignListResultsResponse {
1559
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  }
1560
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  }
1561
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  /**
1562
- * A protein design engine run that generates novel protein binders
1579
+ * A protein design pipeline run that generates novel protein binders
1563
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  */
1564
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  export interface DesignStartResponse {
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  /**
@@ -1574,13 +1591,13 @@ export interface DesignStartResponse {
1574
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  */
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  data_deleted_at: string | null;
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  /**
1577
- * Engine used for protein design
1594
+ * @deprecated Use pipeline instead.
1578
1595
  */
1579
- engine: 'boltz-protein-design';
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+ engine: 'boltzprot';
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  /**
1581
- * Engine version used for protein design
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+ * @deprecated Use pipeline_version instead.
1582
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  */
1583
- engine_version: string;
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+ engine_version: '1.0';
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  error: DesignStartResponse.Error | null;
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  /**
1586
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  * Pipeline input (null if data deleted)
@@ -1590,6 +1607,14 @@ export interface DesignStartResponse {
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  * Whether this resource was created with a live API key.
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  */
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  livemode: boolean;
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+ /**
1611
+ * Pipeline used for protein design
1612
+ */
1613
+ pipeline: 'boltzprot';
1614
+ /**
1615
+ * Pipeline version used for protein design
1616
+ */
1617
+ pipeline_version: '1.0';
1593
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  progress: DesignStartResponse.Progress | null;
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  started_at: string | null;
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  status: 'pending' | 'running' | 'succeeded' | 'failed' | 'stopped';
@@ -1650,14 +1675,15 @@ export declare namespace DesignStartResponse {
1650
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  * Binder specification starting from an existing 3D structure. Upload a CIF/PDB
1651
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  * file and select which chains to include, which residues to keep, and which
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  * regions to redesign. Only chains included in chain_selection are part of the
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- * engine run.
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+ * pipeline run.
1654
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  */
1655
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  interface StructureTemplateBinderSpecResponse {
1656
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  /**
1657
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  * Chains selected from the uploaded binder structure, keyed by chain ID. Only
1658
- * chains listed here are included in the engine run — any chains omitted from this
1659
- * mapping are ignored. Each value defines which residues to keep (crop_residues).
1660
- * Omit design_motifs to include the chain as fixed scaffold context.
1683
+ * chains listed here are included in the pipeline run — any chains omitted from
1684
+ * this mapping are ignored. Each value defines which residues to keep
1685
+ * (crop_residues). Omit design_motifs to include the chain as fixed scaffold
1686
+ * context.
1661
1687
  */
1662
1688
  chain_selection: {
1663
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  [key: string]: StructureTemplateBinderSpecResponse.StructureTemplatePolymerChainSpec | StructureTemplateBinderSpecResponse.StructureTemplateLigandChainSpec;
@@ -2170,7 +2196,7 @@ export declare namespace DesignStartResponse {
2170
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  interface StructureTemplateTargetResponse {
2171
2197
  /**
2172
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  * Chains selected from the uploaded structure, keyed by chain ID. Only chains
2173
- * listed here are included in the engine run — any chains omitted from this
2199
+ * listed here are included in the pipeline run — any chains omitted from this
2174
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  * mapping are ignored. Each value defines which residues to keep, which are
2175
2201
  * epitope residues, which are non-binding residues, and which are flexible.
2176
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  */
@@ -2189,7 +2215,7 @@ export declare namespace DesignStartResponse {
2189
2215
  chain_type: 'polymer';
2190
2216
  /**
2191
2217
  * 0-indexed residue indices to retain from this chain, or 'all' to keep all
2192
- * residues. Residues not listed are excluded from the engine run.
2218
+ * residues. Residues not listed are excluded from the pipeline run.
2193
2219
  */
2194
2220
  crop_residues: Array<number> | 'all';
2195
2221
  /**
@@ -2620,7 +2646,7 @@ export declare namespace DesignStartResponse {
2620
2646
  }
2621
2647
  }
2622
2648
  /**
2623
- * A protein design engine run that generates novel protein binders
2649
+ * A protein design pipeline run that generates novel protein binders
2624
2650
  */
2625
2651
  export interface DesignStopResponse {
2626
2652
  /**
@@ -2635,13 +2661,13 @@ export interface DesignStopResponse {
2635
2661
  */
2636
2662
  data_deleted_at: string | null;
2637
2663
  /**
2638
- * Engine used for protein design
2664
+ * @deprecated Use pipeline instead.
2639
2665
  */
2640
- engine: 'boltz-protein-design';
2666
+ engine: 'boltzprot';
2641
2667
  /**
2642
- * Engine version used for protein design
2668
+ * @deprecated Use pipeline_version instead.
2643
2669
  */
2644
- engine_version: string;
2670
+ engine_version: '1.0';
2645
2671
  error: DesignStopResponse.Error | null;
2646
2672
  /**
2647
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  * Pipeline input (null if data deleted)
@@ -2651,6 +2677,14 @@ export interface DesignStopResponse {
2651
2677
  * Whether this resource was created with a live API key.
2652
2678
  */
2653
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  livemode: boolean;
2680
+ /**
2681
+ * Pipeline used for protein design
2682
+ */
2683
+ pipeline: 'boltzprot';
2684
+ /**
2685
+ * Pipeline version used for protein design
2686
+ */
2687
+ pipeline_version: '1.0';
2654
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  progress: DesignStopResponse.Progress | null;
2655
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  started_at: string | null;
2656
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  status: 'pending' | 'running' | 'succeeded' | 'failed' | 'stopped';
@@ -2711,14 +2745,15 @@ export declare namespace DesignStopResponse {
2711
2745
  * Binder specification starting from an existing 3D structure. Upload a CIF/PDB
2712
2746
  * file and select which chains to include, which residues to keep, and which
2713
2747
  * regions to redesign. Only chains included in chain_selection are part of the
2714
- * engine run.
2748
+ * pipeline run.
2715
2749
  */
2716
2750
  interface StructureTemplateBinderSpecResponse {
2717
2751
  /**
2718
2752
  * Chains selected from the uploaded binder structure, keyed by chain ID. Only
2719
- * chains listed here are included in the engine run — any chains omitted from this
2720
- * mapping are ignored. Each value defines which residues to keep (crop_residues).
2721
- * Omit design_motifs to include the chain as fixed scaffold context.
2753
+ * chains listed here are included in the pipeline run — any chains omitted from
2754
+ * this mapping are ignored. Each value defines which residues to keep
2755
+ * (crop_residues). Omit design_motifs to include the chain as fixed scaffold
2756
+ * context.
2722
2757
  */
2723
2758
  chain_selection: {
2724
2759
  [key: string]: StructureTemplateBinderSpecResponse.StructureTemplatePolymerChainSpec | StructureTemplateBinderSpecResponse.StructureTemplateLigandChainSpec;
@@ -3231,7 +3266,7 @@ export declare namespace DesignStopResponse {
3231
3266
  interface StructureTemplateTargetResponse {
3232
3267
  /**
3233
3268
  * Chains selected from the uploaded structure, keyed by chain ID. Only chains
3234
- * listed here are included in the engine run — any chains omitted from this
3269
+ * listed here are included in the pipeline run — any chains omitted from this
3235
3270
  * mapping are ignored. Each value defines which residues to keep, which are
3236
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  * epitope residues, which are non-binding residues, and which are flexible.
3237
3272
  */
@@ -3250,7 +3285,7 @@ export declare namespace DesignStopResponse {
3250
3285
  chain_type: 'polymer';
3251
3286
  /**
3252
3287
  * 0-indexed residue indices to retain from this chain, or 'all' to keep all
3253
- * residues. Residues not listed are excluded from the engine run.
3288
+ * residues. Residues not listed are excluded from the pipeline run.
3254
3289
  */
3255
3290
  crop_residues: Array<number> | 'all';
3256
3291
  /**
@@ -3724,14 +3759,15 @@ export declare namespace DesignEstimateCostParams {
3724
3759
  * Binder specification starting from an existing 3D structure. Upload a CIF/PDB
3725
3760
  * file and select which chains to include, which residues to keep, and which
3726
3761
  * regions to redesign. Only chains included in chain_selection are part of the
3727
- * engine run.
3762
+ * pipeline run.
3728
3763
  */
3729
3764
  interface StructureTemplateBinderSpec {
3730
3765
  /**
3731
3766
  * Chains selected from the uploaded binder structure, keyed by chain ID. Only
3732
- * chains listed here are included in the engine run — any chains omitted from this
3733
- * mapping are ignored. Each value defines which residues to keep (crop_residues).
3734
- * Omit design_motifs to include the chain as fixed scaffold context.
3767
+ * chains listed here are included in the pipeline run — any chains omitted from
3768
+ * this mapping are ignored. Each value defines which residues to keep
3769
+ * (crop_residues). Omit design_motifs to include the chain as fixed scaffold
3770
+ * context.
3735
3771
  */
3736
3772
  chain_selection: {
3737
3773
  [key: string]: StructureTemplateBinderSpec.StructureTemplatePolymerChainSpec | StructureTemplateBinderSpec.StructureTemplateLigandChainSpec;
@@ -4253,7 +4289,7 @@ export declare namespace DesignEstimateCostParams {
4253
4289
  interface StructureTemplateTarget {
4254
4290
  /**
4255
4291
  * Chains selected from the uploaded structure, keyed by chain ID. Only chains
4256
- * listed here are included in the engine run — any chains omitted from this
4292
+ * listed here are included in the pipeline run — any chains omitted from this
4257
4293
  * mapping are ignored. Each value defines which residues to keep, which are
4258
4294
  * epitope residues, which are non-binding residues, and which are flexible.
4259
4295
  */
@@ -4276,7 +4312,7 @@ export declare namespace DesignEstimateCostParams {
4276
4312
  chain_type: 'polymer';
4277
4313
  /**
4278
4314
  * 0-indexed residue indices to retain from this chain, or 'all' to keep all
4279
- * residues. Residues not listed are excluded from the engine run.
4315
+ * residues. Residues not listed are excluded from the pipeline run.
4280
4316
  */
4281
4317
  crop_residues: Array<number> | 'all';
4282
4318
  /**
@@ -4732,14 +4768,15 @@ export declare namespace DesignStartParams {
4732
4768
  * Binder specification starting from an existing 3D structure. Upload a CIF/PDB
4733
4769
  * file and select which chains to include, which residues to keep, and which
4734
4770
  * regions to redesign. Only chains included in chain_selection are part of the
4735
- * engine run.
4771
+ * pipeline run.
4736
4772
  */
4737
4773
  interface StructureTemplateBinderSpec {
4738
4774
  /**
4739
4775
  * Chains selected from the uploaded binder structure, keyed by chain ID. Only
4740
- * chains listed here are included in the engine run — any chains omitted from this
4741
- * mapping are ignored. Each value defines which residues to keep (crop_residues).
4742
- * Omit design_motifs to include the chain as fixed scaffold context.
4776
+ * chains listed here are included in the pipeline run — any chains omitted from
4777
+ * this mapping are ignored. Each value defines which residues to keep
4778
+ * (crop_residues). Omit design_motifs to include the chain as fixed scaffold
4779
+ * context.
4743
4780
  */
4744
4781
  chain_selection: {
4745
4782
  [key: string]: StructureTemplateBinderSpec.StructureTemplatePolymerChainSpec | StructureTemplateBinderSpec.StructureTemplateLigandChainSpec;
@@ -5261,7 +5298,7 @@ export declare namespace DesignStartParams {
5261
5298
  interface StructureTemplateTarget {
5262
5299
  /**
5263
5300
  * Chains selected from the uploaded structure, keyed by chain ID. Only chains
5264
- * listed here are included in the engine run — any chains omitted from this
5301
+ * listed here are included in the pipeline run — any chains omitted from this
5265
5302
  * mapping are ignored. Each value defines which residues to keep, which are
5266
5303
  * epitope residues, which are non-binding residues, and which are flexible.
5267
5304
  */
@@ -5284,7 +5321,7 @@ export declare namespace DesignStartParams {
5284
5321
  chain_type: 'polymer';
5285
5322
  /**
5286
5323
  * 0-indexed residue indices to retain from this chain, or 'all' to keep all
5287
- * residues. Residues not listed are excluded from the engine run.
5324
+ * residues. Residues not listed are excluded from the pipeline run.
5288
5325
  */
5289
5326
  crop_residues: Array<number> | 'all';
5290
5327
  /**