@cyanheads/interpro-mcp-server 0.1.3 → 0.2.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/AGENTS.md +38 -13
- package/CLAUDE.md +38 -13
- package/Dockerfile +9 -1
- package/README.md +82 -123
- package/changelog/0.2.x/0.2.0.md +31 -0
- package/dist/config/server-config.d.ts +13 -0
- package/dist/config/server-config.d.ts.map +1 -0
- package/dist/config/server-config.js +19 -0
- package/dist/config/server-config.js.map +1 -0
- package/dist/index.js +11 -1
- package/dist/index.js.map +1 -1
- package/dist/mcp-server/tools/definitions/interpro-find-proteins-by-domain.tool.d.ts +45 -0
- package/dist/mcp-server/tools/definitions/interpro-find-proteins-by-domain.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/interpro-find-proteins-by-domain.tool.js +37 -14
- package/dist/mcp-server/tools/definitions/interpro-find-proteins-by-domain.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/interpro-get-protein-domains.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/interpro-get-protein-domains.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/interpro-get-protein-domains.tool.js +1 -1
- package/dist/mcp-server/tools/definitions/interpro-get-protein-domains.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/interpro-get-scan-result.tool.d.ts +133 -0
- package/dist/mcp-server/tools/definitions/interpro-get-scan-result.tool.d.ts.map +1 -0
- package/dist/mcp-server/tools/definitions/interpro-get-scan-result.tool.js +128 -0
- package/dist/mcp-server/tools/definitions/interpro-get-scan-result.tool.js.map +1 -0
- package/dist/mcp-server/tools/definitions/interpro-get-structure-domains.tool.d.ts +171 -0
- package/dist/mcp-server/tools/definitions/interpro-get-structure-domains.tool.d.ts.map +1 -0
- package/dist/mcp-server/tools/definitions/interpro-get-structure-domains.tool.js +290 -0
- package/dist/mcp-server/tools/definitions/interpro-get-structure-domains.tool.js.map +1 -0
- package/dist/mcp-server/tools/definitions/interpro-list-reference.tool.js +1 -1
- package/dist/mcp-server/tools/definitions/interpro-list-reference.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/interpro-scan-sequence.tool.d.ts +168 -0
- package/dist/mcp-server/tools/definitions/interpro-scan-sequence.tool.d.ts.map +1 -0
- package/dist/mcp-server/tools/definitions/interpro-scan-sequence.tool.js +187 -0
- package/dist/mcp-server/tools/definitions/interpro-scan-sequence.tool.js.map +1 -0
- package/dist/services/interpro/http-adapter.d.ts +11 -2
- package/dist/services/interpro/http-adapter.d.ts.map +1 -1
- package/dist/services/interpro/http-adapter.js +67 -9
- package/dist/services/interpro/http-adapter.js.map +1 -1
- package/dist/services/interpro/interpro-service.d.ts +1 -1
- package/dist/services/interpro/interpro-service.d.ts.map +1 -1
- package/dist/services/interpro/interpro-service.js +6 -24
- package/dist/services/interpro/interpro-service.js.map +1 -1
- package/dist/services/interpro/reference.d.ts.map +1 -1
- package/dist/services/interpro/reference.js +23 -2
- package/dist/services/interpro/reference.js.map +1 -1
- package/dist/services/interpro/schemas.d.ts +1 -0
- package/dist/services/interpro/schemas.d.ts.map +1 -1
- package/dist/services/interpro/schemas.js +5 -0
- package/dist/services/interpro/schemas.js.map +1 -1
- package/dist/services/interpro/structure-schemas.d.ts +116 -0
- package/dist/services/interpro/structure-schemas.d.ts.map +1 -0
- package/dist/services/interpro/structure-schemas.js +74 -0
- package/dist/services/interpro/structure-schemas.js.map +1 -0
- package/dist/services/sequence-scan/scan-output.d.ts +94 -0
- package/dist/services/sequence-scan/scan-output.d.ts.map +1 -0
- package/dist/services/sequence-scan/scan-output.js +174 -0
- package/dist/services/sequence-scan/scan-output.js.map +1 -0
- package/dist/services/sequence-scan/scan-schemas.d.ts +112 -0
- package/dist/services/sequence-scan/scan-schemas.d.ts.map +1 -0
- package/dist/services/sequence-scan/scan-schemas.js +97 -0
- package/dist/services/sequence-scan/scan-schemas.js.map +1 -0
- package/dist/services/sequence-scan/sequence-scan-service.d.ts +119 -0
- package/dist/services/sequence-scan/sequence-scan-service.d.ts.map +1 -0
- package/dist/services/sequence-scan/sequence-scan-service.js +453 -0
- package/dist/services/sequence-scan/sequence-scan-service.js.map +1 -0
- package/dist/services/sequence-scan/sequence.d.ts +32 -0
- package/dist/services/sequence-scan/sequence.d.ts.map +1 -0
- package/dist/services/sequence-scan/sequence.js +63 -0
- package/dist/services/sequence-scan/sequence.js.map +1 -0
- package/package.json +10 -7
- package/server.json +18 -4
- package/skills/interpro-guide/SKILL.md +72 -0
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"interpro-service.js","sourceRoot":"","sources":["../../../src/services/interpro/interpro-service.ts"],"names":[],"mappings":"AAKA,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC3C,OAAO,EACL,gBAAgB,EAChB,QAAQ,EACR,QAAQ,EACR,kBAAkB,EAClB,OAAO,EACP,eAAe,GAChB,MAAM,+BAA+B,CAAC;AACvC,OAAO,EACL,WAAW,EACX,kBAAkB,EAClB,qBAAqB,EACrB,SAAS,GACV,MAAM,8BAA8B,CAAC;AACtC,OAAO,EAAsB,iBAAiB,EAAE,kBAAkB,EAAE,MAAM,mBAAmB,CAAC;AAC9F,OAAO,EAAE,MAAM,EAAE,MAAM,cAAc,CAAC;AACtC,OAAO,EAAE,WAAW,EAAE,gBAAgB,EAAE,eAAe,EAAE,MAAM,cAAc,CAAC;AAE9E,MAAM,KAAK,GAAG,WAAW,CAAC;IACxB,IAAI,EAAE,UAAU;IAChB,aAAa,EAAE,IAAI;IACnB,aAAa,EAAE,CAAC;IAChB,aAAa,EAAE,EAAE;CAClB,CAAC,CAAC;AAcH,6EAA6E;AAC7E,MAAM,iBAAiB,GAAwB,IAAI,GAAG,CAAC;IACrD,WAAW;IACX,iBAAiB;IACjB,eAAe;IACf,YAAY;IACZ,SAAS;CACV,CAAC,CAAC;AACH;;;GAGG;AACH,MAAM,eAAe,GAAG,oCAAoC,CAAC;AAC7D,MAAM,UAAU,GAAG,2BAA2B,CAAC;AAC/C,MAAM,YAAY,GAAG;IACnB,eAAe,EAAE,OAAO;IACxB,cAAc,EAAE,KAAK;IACrB,iBAAiB,EAAE,SAAS;CACpB,CAAC;AACX,8EAA8E;AAC9E,MAAM,cAAc,GAAG,CAAC,EAAE,MAAM,EAAE,SAAS,EAAE,cAAc,EAAiB,EAAE,EAAE,CAC9E,GAAG,YAAY,CAAC,MAAM,CAAC,IAAI,SAAS,OAAO,cAAc,EAAE,CAAC;AAa9D,0FAA0F;AAC1F,MAAM,OAAO,eAAe;IACG,KAAK;IAAlC,YAA6B,KAAK,GAAkB,iBAAiB;qBAAxC,KAAK;IAAsC,CAAC;IAEzE,kEAAkE;IAClE,KAAK,CAAC,GAAY;QAChB,OAAO,EAAE,GAAG,EAAE,QAAQ,EAAE,WAAW,CAAC,GAAG,EAAE,GAAG,MAAM,EAAE,CAAC;IACvD,CAAC;IAED,2FAA2F;IAC3F,KAAK,CAAC,OAAO,CACX,IAAkB,EAClB,QAA2B,EAC3B,KAAsE,EACtE,MAAS,EACT,OAAO,GAAmB,EAAE;QAE5B,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,cAAc,EAAE,CAAC;QACjC,MAAM,SAAS,GAAG,IAAI,CAAC,QAAQ,GAAG,WAAW,CAAC,GAAG,EAAE,CAAC;QACpD,IAAI,SAAS,IAAI,CAAC;YAChB,MAAM,OAAO,CAAC,+CAA+C,EAAE;gBAC7D,MAAM,EAAE,yBAAyB;gBACjC,SAAS,EAAE,IAAI;gBACf,UAAU,EAAE,MAAM;aACnB,CAAC,CAAC;QACL,MAAM,SAAS,GAAG,MAAM,CAAC,QAAQ,EAAE,KAAK,CAAC,CAAC;QAC1C,OAAO,MAAM,SAAS,CACpB,KAAK,EAAE,EAAE,MAAM,EAAE,EAAE,EAAE,CACnB,KAAK,CAAC,GAAG,CACP,KAAK,IAAI,EAAE;YACT,MAAM,SAAS,GAAG,IAAI,CAAC,GAAG,CAAC,MAAM,EAAE,IAAI,CAAC,QAAQ,GAAG,WAAW,CAAC,GAAG,EAAE,CAAC,CAAC;YACtE,MAAM,UAAU,GAAG,IAAI,eAAe,EAAE,CAAC;YACzC,MAAM,KAAK,GAAG,UAAU,CACtB,GAAG,EAAE,CACH,UAAU,CAAC,KAAK,CACd,OAAO,CAAC,oCAAoC,EAAE;gBAC5C,MAAM,EAAE,kBAAkB;gBAC1B,SAAS,EAAE,IAAI;aAChB,CAAC,CACH,EACH,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,SAAS,CAAC,CACvB,CAAC;YACF,MAAM,aAAa,GAAG,WAAW,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,UAAU,CAAC,MAAM,EAAE,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC,CAAC;YACpF,IAAI,CAAC;gBACH,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,SAAS,EAAE;oBAC3C,MAAM,EAAE,aAAa;oBACrB,OAAO,EAAE,EAAE,MAAM,EAAE,kBAAkB,EAAE,iBAAiB,EAAE,UAAU,EAAE;oBACtE,QAAQ,EAAE,QAAQ;iBACnB,CAAC,CAAC;gBACH,aAAa,CAAC,cAAc,EAAE,CAAC;gBAC/B,IAAI,CAAC,QAAQ,CAAC,MAAM,KAAK,GAAG,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,CAAC,IAAI,OAAO,CAAC,YAAY;oBAC9E,MAAM,eAAe,CAAC,4CAA4C,EAAE;wBAClE,MAAM,EAAE,gBAAgB;wBACxB,SAAS,EAAE,KAAK;wBAChB,MAAM,EAAE,QAAQ,CAAC,MAAM;qBACxB,CAAC,CAAC;gBACL,MAAM,EAAE,OAAO,EAAE,GAAG,OAAO,CAAC;gBAC5B,IACE,OAAO;oBACP,CAAC,QAAQ,CAAC,MAAM,KAAK,GAAG,IAAI,CAAC,QAAQ,CAAC,MAAM,KAAK,GAAG,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC;oBAEvE,MAAM,QAAQ,CAAC,2BAA2B,cAAc,CAAC,OAAO,CAAC,GAAG,EAAE;wBACpE,MAAM,EAAE,OAAO,CAAC,MAAM;wBACtB,SAAS,EAAE,KAAK;wBAChB,MAAM,EAAE,QAAQ,CAAC,MAAM;wBACvB,SAAS,EAAE,OAAO,CAAC,SAAS;wBAC5B,cAAc,EAAE,OAAO,CAAC,cAAc;qBACvC,CAAC,CAAC;gBACL,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG;oBACzB,OAAO,EAAE,IAAI,EAAE,IAAI,EAAE,SAAS,EAAE,OAAO,EAAE,QAAQ,CAAC,OAAO,EAAE,CAAC;gBAC9D,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,EAAE,CAAC;oBAC5B,MAAM,IAAI,GAAG,MAAM,QAAQ,CAAC,QAAQ,EAAE,aAAa,CAAC,CAAC;oBACrD,IAAI,UAAU,GAA4B,EAAE,CAAC;oBAC7C,IAAI,CAAC;wBACH,MAAM,MAAM,GAAG,gBAAgB,CAAC,KAAK,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC;wBACxD,UAAU,GAAG,MAAM,CAAC,WAAW,CAC7B,MAAM,CAAC,OAAO,CAAC,MAAM,CAAC,CAAC,MAAM,CAC3B,CAAC,CAAC,GAAG,EAAE,KAAK,CAAC,EAAE,EAAE,CACf,iBAAiB,CAAC,GAAG,CAAC,GAAG,CAAC,IAAI,IAAI,CAAC,SAAS,CAAC,KAAK,CAAC,CAAC,MAAM,IAAI,IAAI,CACrE,CACF,CAAC;oBACJ,CAAC;oBAAC,MAAM,CAAC;wBACP,yDAAyD;oBAC3D,CAAC;oBACD,MAAM,EAAE,SAAS,EAAE,aAAa,EAAE,OAAO,EAAE,UAAU,EAAE,SAAS,EAAE,GAAG,UAAU,CAAC;oBAChF,MAAM,OAAO,GAAG,OAAO;wBACrB,CAAC,CAAC,cAAc,CAAC,OAAO,CAAC;wBACzB,CAAC,CAAC,WAAW,CAAC,SAAS,CAAC;4BACtB,CAAC,CAAC,UAAU,SAAS,EAAE;4BACvB,CAAC,CAAC,sBAAsB,CAAC;oBAC7B,MAAM,EAAE,GACN,OAAO,OAAO,KAAK,QAAQ,IAAI,eAAe,CAAC,IAAI,CAAC,OAAO,CAAC;wBAC1D,CAAC,CAAC,OAAO,OAAO,EAAE;wBAClB,CAAC,CAAC,EAAE,CAAC;oBACT,MAAM,KAAK,GACT,OAAO,SAAS,KAAK,QAAQ,IAAI,UAAU,CAAC,IAAI,CAAC,SAAS,CAAC;wBACzD,CAAC,CAAC,gBAAgB,SAAS,GAAG;wBAC9B,CAAC,CAAC,EAAE,CAAC;oBACT,MAAM,QAAQ,CAAC,yBAAyB,OAAO,iBAAiB,EAAE,GAAG,KAAK,GAAG,EAAE;wBAC7E,MAAM,EAAE,iBAAiB;wBACzB,SAAS,EAAE,KAAK;wBAChB,MAAM,EAAE,GAAG;wBACX,GAAG,UAAU;wBACb,2EAA2E;wBAC3E,GAAG,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,SAAS,EAAE,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;qBACrD,CAAC,CAAC;gBACL,CAAC;gBACD,IAAI,CAAC,QAAQ,CAAC,EAAE,EAAE,CAAC;oBACjB,MAAM,MAAM,GAAG,QAAQ,CAAC,MAAM,CAAC;oBAC/B,MAAM,MAAM,GACV,MAAM,KAAK,GAAG,IAAI,MAAM,KAAK,GAAG;wBAC9B,CAAC,CAAC,kBAAkB;wBACpB,CAAC,CAAC,MAAM,KAAK,GAAG;4BACd,CAAC,CAAC,uBAAuB;4BACzB,CAAC,CAAC,MAAM,IAAI,GAAG;gCACb,CAAC,CAAC,sBAAsB;gCACxB,CAAC,CAAC,mBAAmB,CAAC;oBAC9B,MAAM,MAAM,qBAAqB,CAAC,QAAQ,EAAE;wBAC1C,OAAO,EAAE,UAAU;wBACnB,WAAW,EAAE,KAAK;wBAClB,YAAY,EAAE,CAAC,KAAK,EAAE,EAAE,CACtB,KAAK,GAAG,GAAG,IAAI,KAAK,KAAK,GAAG,IAAI,KAAK,KAAK,GAAG;4BAC3C,CAAC,CAAC,gBAAgB,CAAC,kBAAkB;4BACrC,CAAC,CAAC,SAAS;wBACf,IAAI,EAAE;4BACJ,MAAM;4BACN,SAAS,EACP,CAAC,MAAM,IAAI,GAAG,IAAI,MAAM,KAAK,GAAG,CAAC,IAAI,MAAM,KAAK,GAAG,IAAI,MAAM,KAAK,GAAG;yBACxE;qBACF,CAAC,CAAC;gBACL,CAAC;gBACD,MAAM,QAAQ,GAAG,QAAQ,CAAC,OAAO,CAAC,GAAG,CAAC,kBAAkB,CAAC,CAAC;gBAC1D,IAAI,QAAQ,IAAI,QAAQ,CAAC,WAAW,EAAE,KAAK,UAAU;oBACnD,MAAM,kBAAkB,CAAC,mDAAmD,EAAE;wBAC5E,MAAM,EAAE,wBAAwB;wBAChC,SAAS,EAAE,KAAK;qBACjB,CAAC,CAAC;gBACL,MAAM,IAAI,GAAG,MAAM,QAAQ,CAAC,QAAQ,EAAE,aAAa,CAAC,CAAC;gBACrD,IAAI,qCAAqC,CAAC,IAAI,CAAC,IAAI,CAAC;oBAClD,MAAM,kBAAkB,CAAC,yCAAyC,EAAE;wBAClE,MAAM,EAAE,sBAAsB;wBAC9B,SAAS,EAAE,IAAI;qBAChB,CAAC,CAAC;gBACL,IAAI,IAAa,CAAC;gBAClB,IAAI,CAAC;oBACH,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC;gBAC1B,CAAC;gBAAC,OAAO,KAAK,EAAE,CAAC;oBACf,MAAM,kBAAkB,CACtB,mCAAmC,EACnC,EAAE,MAAM,EAAE,wBAAwB,EAAE,SAAS,EAAE,KAAK,EAAE,EACtD,EAAE,KAAK,EAAE,CACV,CAAC;gBACJ,CAAC;gBACD,MAAM,MAAM,GAAG,MAAM,CAAC,SAAS,CAAC,IAAI,CAAC,CAAC;gBACtC,IAAI,CAAC,MAAM,CAAC,OAAO;oBACjB,MAAM,kBAAkB,CACtB,+DAA+D,EAC/D,EAAE,MAAM,EAAE,wBAAwB,EAAE,SAAS,EAAE,KAAK,EAAE,CACvD,CAAC;gBACJ,aAAa,CAAC,cAAc,EAAE,CAAC;gBAC/B,IAAI,WAAW,CAAC,GAAG,EAAE,GAAG,IAAI,CAAC,QAAQ;oBACnC,MAAM,OAAO,CAAC,2CAA2C,EAAE;wBACzD,MAAM,EAAE,yBAAyB;wBACjC,SAAS,EAAE,IAAI;qBAChB,CAAC,CAAC;gBACL,OAAO,EAAE,IAAI,EAAE,MAAM,CAAC,IAAI,EAAE,SAAS,EAAE,OAAO,EAAE,QAAQ,CAAC,OAAO,EAAE,CAAC;YACrE,CAAC;YAAC,OAAO,KAAK,EAAE,CAAC;gBACf,IAAI,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,OAAO;oBAAE,MAAM,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,MAAM,CAAC;gBAC1D,IAAI,MAAM,CAAC,OAAO;oBAAE,MAAM,MAAM,CAAC,MAAM,CAAC;gBACxC,IAAI,UAAU,CAAC,MAAM,CAAC,OAAO;oBAAE,MAAM,UAAU,CAAC,MAAM,CAAC,MAAM,CAAC;gBAC9D,IAAI,KAAK,YAAY,QAAQ;oBAAE,MAAM,KAAK,CAAC;gBAC3C,MAAM,kBAAkB,CACtB,kCAAkC,EAClC,EAAE,MAAM,EAAE,sBAAsB,EAAE,SAAS,EAAE,IAAI,EAAE,EACnD,EAAE,KAAK,EAAE,CACV,CAAC;YACJ,CAAC;oBAAS,CAAC;gBACT,YAAY,CAAC,KAAK,CAAC,CAAC;YACtB,CAAC;QACH,CAAC,EACD,EAAE,MAAM,EAAE,SAAS,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,GAAG,CAAC,IAAI,EAAE,IAAI,CAAC,QAAQ,GAAG,WAAW,CAAC,GAAG,EAAE,CAAC,CAAC,EAAE,CACtF,EACH;YACE,MAAM,EAAE,IAAI,CAAC,GAAG,CAAC,MAAM;YACvB,OAAO,EAAE,IAAI,CAAC,GAAG;YACjB,SAAS,EAAE,kBAAkB;YAC7B,UAAU,EAAE,SAAS;YACrB,UAAU,EAAE,CAAC;YACb,WAAW,EAAE,IAAI;YACjB,UAAU,EAAE,IAAI;YAChB,WAAW,EAAE,kBAAkB;SAChC,CACF,CAAC;IACJ,CAAC;IAED,kFAAkF;IAClF,KAAK,CAAC,OAAO,CAAC,GAAY;QACxB,MAAM,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC;QAC7B,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CACjC,IAAI,EACJ,CAAC,OAAO,EAAE,SAAS,CAAC,EACpB,EAAE,EACF,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,MAAM,EAAE,CAAC,KAAK,CAAC,iBAAiB,CAAC,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAC1D,CAAC;QACF,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,OAAO,CAC/B,IAAI,EACJ,CAAC,OAAO,CAAC,EACT,EAAE,EACF,CAAC,CAAC,MAAM,CAAC,EAAE,OAAO,EAAE,gBAAgB,EAAE,CAAC,CAAC,QAAQ,CAAC,eAAe,CAAC,CAClE,CAAC;QACF,IAAI,CAAC,QAAQ,CAAC,IAAI,IAAI,CAAC,MAAM,CAAC,IAAI,IAAI,CAAC,MAAM,CAAC,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,MAAM;YACtE,MAAM,kBAAkB,CAAC,uCAAuC,EAAE;gBAChE,MAAM,EAAE,wBAAwB;gBAChC,SAAS,EAAE,KAAK;aACjB,CAAC,CAAC;QACL,MAAM,YAAY,GAAG,QAAQ,CAAC,OAAO,CAAC,GAAG,CAAC,kBAAkB,CAAC,CAAC;QAC9D,MAAM,aAAa,GAAG,MAAM,CAAC,OAAO,CAAC,GAAG,CAAC,kBAAkB,CAAC,CAAC;QAC7D,IAAI,YAAY,IAAI,aAAa,IAAI,YAAY,KAAK,aAAa;YACjE,MAAM,kBAAkB,CAAC,sDAAsD,EAAE;gBAC/E,MAAM,EAAE,iBAAiB;gBACzB,SAAS,EAAE,IAAI;aAChB,CAAC,CAAC;QACL,MAAM,OAAO,GAAG,MAAM,CAAC,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE;YACvD,MAAM,IAAI,GAAG,CAAC,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC;YACtC,MAAM,KAAK,GAAG,CAAC,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC;YACvC,KAAK,IAAI,KAAK,GAAG,CAAC,EAAE,KAAK,GAAG,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,MAAM,EAAE,KAAK,CAAC,MAAM,CAAC,EAAE,KAAK,EAAE,EAAE,CAAC;gBACzE,MAAM,UAAU,GAAG,CAAC,KAAK,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC;gBAC5D,IAAI,UAAU;oBAAE,OAAO,UAAU,CAAC;YACpC,CAAC;YACD,OAAO,CAAC,CAAC;QACX,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC;QACN,IAAI,CAAC,OAAO;YACV,MAAM,kBAAkB,CAAC,sCAAsC,EAAE;gBAC/D,MAAM,EAAE,wBAAwB;gBAChC,SAAS,EAAE,KAAK;aACjB,CAAC,CAAC;QACL,OAAO;YACL,OAAO;YACP,IAAI,EAAE,QAAQ,CAAC,IAAI,CAAC,OAAO,CAAW;YACtC,cAAc,EAAE,MAAM,CAAC,IAAI;YAC3B,UAAU,EAAE,CAAC,QAAQ,CAAC,SAAS,EAAE,MAAM,CAAC,SAAS,CAAC;SACnD,CAAC;IACJ,CAAC;CACF;AAED,KAAK,UAAU,QAAQ,CAAC,QAAkB,EAAE,MAAmB;IAC7D,IAAI,CAAC,QAAQ,CAAC,IAAI;QAAE,OAAO,EAAE,CAAC;IAC9B,MAAM,MAAM,GAAG,QAAQ,CAAC,IAAI,CAAC,SAAS,EAAE,CAAC;IACzC,MAAM,MAAM,GAAiB,EAAE,CAAC;IAChC,IAAI,KAAK,GAAG,CAAC,CAAC;IACd,MAAM,KAAK,GAAG,GAAG,EAAE;QACjB,KAAK,MAAM,CAAC,MAAM,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,KAAK,CAAC,GAAG,EAAE,GAAE,CAAC,CAAC,CAAC;IACpD,CAAC,CAAC;IACF,MAAM,CAAC,gBAAgB,CAAC,OAAO,EAAE,KAAK,EAAE,EAAE,IAAI,EAAE,IAAI,EAAE,CAAC,CAAC;IACxD,IAAI,CAAC;QACH,OAAO,IAAI,EAAE,CAAC;YACZ,MAAM,CAAC,cAAc,EAAE,CAAC;YACxB,MAAM,EAAE,IAAI,EAAE,KAAK,EAAE,GAAG,MAAM,MAAM,CAAC,IAAI,EAAE,CAAC;YAC5C,MAAM,CAAC,cAAc,EAAE,CAAC;YACxB,IAAI,IAAI;gBAAE,MAAM;YAChB,KAAK,IAAI,KAAK,CAAC,UAAU,CAAC;YAC1B,IAAI,KAAK,GAAG,kBAAkB,EAAE,CAAC;gBAC/B,MAAM,MAAM,CAAC,MAAM,EAAE,CAAC;gBACtB,MAAM,kBAAkB,CAAC,kCAAkC,EAAE;oBAC3D,MAAM,EAAE,6BAA6B;oBACrC,SAAS,EAAE,KAAK;iBACjB,CAAC,CAAC;YACL,CAAC;YACD,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC;QACrB,CAAC;QACD,OAAO,MAAM,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC;IAChD,CAAC;YAAS,CAAC;QACT,MAAM,CAAC,mBAAmB,CAAC,OAAO,EAAE,KAAK,CAAC,CAAC;QAC3C,MAAM,CAAC,WAAW,EAAE,CAAC;IACvB,CAAC;AACH,CAAC;AAED,IAAI,OAAoC,CAAC;AACzC,yDAAyD;AACzD,MAAM,UAAU,mBAAmB,CAAC,KAAK,GAAkB,iBAAiB;IAC1E,OAAO,GAAG,IAAI,eAAe,CAAC,KAAK,CAAC,CAAC;AACvC,CAAC;AACD,8CAA8C;AAC9C,MAAM,UAAU,kBAAkB;IAChC,IAAI,CAAC,OAAO;QAAE,MAAM,IAAI,KAAK,CAAC,sCAAsC,CAAC,CAAC;IACtE,OAAO,OAAO,CAAC;AACjB,CAAC;AACD,8DAA8D;AAC9D,MAAM,UAAU,sBAAsB;IACpC,KAAK,CAAC,OAAO,EAAE,CAAC;AAClB,CAAC"}
|
|
1
|
+
{"version":3,"file":"interpro-service.js","sourceRoot":"","sources":["../../../src/services/interpro/interpro-service.ts"],"names":[],"mappings":"AAKA,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC3C,OAAO,EACL,QAAQ,EACR,QAAQ,EACR,kBAAkB,EAClB,OAAO,EACP,eAAe,GAChB,MAAM,+BAA+B,CAAC;AACvC,OAAO,EAAE,WAAW,EAAE,kBAAkB,EAAE,SAAS,EAAE,MAAM,8BAA8B,CAAC;AAC1F,OAAO,EAEL,iBAAiB,EACjB,kBAAkB,EAClB,mBAAmB,GACpB,MAAM,mBAAmB,CAAC;AAC3B,OAAO,EAAE,MAAM,EAAE,MAAM,cAAc,CAAC;AACtC,OAAO,EAAE,WAAW,EAAE,gBAAgB,EAAE,eAAe,EAAE,MAAM,cAAc,CAAC;AAE9E,MAAM,KAAK,GAAG,WAAW,CAAC;IACxB,IAAI,EAAE,UAAU;IAChB,aAAa,EAAE,IAAI;IACnB,aAAa,EAAE,CAAC;IAChB,aAAa,EAAE,EAAE;CAClB,CAAC,CAAC;AAkBH,6EAA6E;AAC7E,MAAM,iBAAiB,GAAwB,IAAI,GAAG,CAAC;IACrD,WAAW;IACX,iBAAiB;IACjB,eAAe;IACf,YAAY;IACZ,SAAS;CACV,CAAC,CAAC;AACH;;;GAGG;AACH,MAAM,eAAe,GAAG,oCAAoC,CAAC;AAC7D,MAAM,UAAU,GAAG,2BAA2B,CAAC;AAC/C,MAAM,YAAY,GAAG;IACnB,eAAe,EAAE,OAAO;IACxB,cAAc,EAAE,KAAK;IACrB,iBAAiB,EAAE,SAAS;IAC5B,mBAAmB,EAAE,WAAW;CACxB,CAAC;AACX,8EAA8E;AAC9E,MAAM,cAAc,GAAG,CAAC,EAAE,MAAM,EAAE,SAAS,EAAE,cAAc,EAAiB,EAAE,EAAE,CAC9E,GAAG,YAAY,CAAC,MAAM,CAAC,IAAI,SAAS,OAAO,cAAc,EAAE,CAAC;AAa9D,0FAA0F;AAC1F,MAAM,OAAO,eAAe;IACG,KAAK;IAAlC,YAA6B,KAAK,GAAkB,iBAAiB;qBAAxC,KAAK;IAAsC,CAAC;IAEzE,kEAAkE;IAClE,KAAK,CAAC,GAAY;QAChB,OAAO,EAAE,GAAG,EAAE,QAAQ,EAAE,WAAW,CAAC,GAAG,EAAE,GAAG,MAAM,EAAE,CAAC;IACvD,CAAC;IAED,2FAA2F;IAC3F,KAAK,CAAC,OAAO,CACX,IAAkB,EAClB,QAA2B,EAC3B,KAAsE,EACtE,MAAS,EACT,OAAO,GAAmB,EAAE;QAE5B,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,cAAc,EAAE,CAAC;QACjC,MAAM,SAAS,GAAG,IAAI,CAAC,QAAQ,GAAG,WAAW,CAAC,GAAG,EAAE,CAAC;QACpD,IAAI,SAAS,IAAI,CAAC;YAChB,MAAM,OAAO,CAAC,+CAA+C,EAAE;gBAC7D,MAAM,EAAE,yBAAyB;gBACjC,SAAS,EAAE,IAAI;gBACf,UAAU,EAAE,MAAM;aACnB,CAAC,CAAC;QACL,MAAM,SAAS,GAAG,MAAM,CAAC,QAAQ,EAAE,KAAK,CAAC,CAAC;QAC1C,OAAO,MAAM,SAAS,CACpB,KAAK,EAAE,EAAE,MAAM,EAAE,EAAE,EAAE,CACnB,KAAK,CAAC,GAAG,CACP,KAAK,IAAI,EAAE;YACT,MAAM,SAAS,GAAG,IAAI,CAAC,GAAG,CAAC,MAAM,EAAE,IAAI,CAAC,QAAQ,GAAG,WAAW,CAAC,GAAG,EAAE,CAAC,CAAC;YACtE,MAAM,UAAU,GAAG,IAAI,eAAe,EAAE,CAAC;YACzC,MAAM,KAAK,GAAG,UAAU,CACtB,GAAG,EAAE,CACH,UAAU,CAAC,KAAK,CACd,OAAO,CAAC,oCAAoC,EAAE;gBAC5C,MAAM,EAAE,kBAAkB;gBAC1B,SAAS,EAAE,IAAI;aAChB,CAAC,CACH,EACH,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,SAAS,CAAC,CACvB,CAAC;YACF,MAAM,aAAa,GAAG,WAAW,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,UAAU,CAAC,MAAM,EAAE,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC,CAAC;YACpF,IAAI,CAAC;gBACH,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,SAAS,EAAE;oBAC3C,MAAM,EAAE,aAAa;oBACrB,OAAO,EAAE,EAAE,MAAM,EAAE,kBAAkB,EAAE,iBAAiB,EAAE,UAAU,EAAE;oBACtE,QAAQ,EAAE,QAAQ;iBACnB,CAAC,CAAC;gBACH,aAAa,CAAC,cAAc,EAAE,CAAC;gBAC/B,IAAI,CAAC,QAAQ,CAAC,MAAM,KAAK,GAAG,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,CAAC,IAAI,OAAO,CAAC,YAAY;oBAC9E,MAAM,eAAe,CAAC,4CAA4C,EAAE;wBAClE,MAAM,EAAE,gBAAgB;wBACxB,SAAS,EAAE,KAAK;wBAChB,MAAM,EAAE,QAAQ,CAAC,MAAM;qBACxB,CAAC,CAAC;gBACL,MAAM,EAAE,OAAO,EAAE,GAAG,OAAO,CAAC;gBAC5B,IACE,OAAO;oBACP,CAAC,QAAQ,CAAC,MAAM,KAAK,GAAG,IAAI,CAAC,QAAQ,CAAC,MAAM,KAAK,GAAG,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC;oBAEvE,MAAM,QAAQ,CAAC,2BAA2B,cAAc,CAAC,OAAO,CAAC,GAAG,EAAE;wBACpE,MAAM,EAAE,OAAO,CAAC,MAAM;wBACtB,SAAS,EAAE,KAAK;wBAChB,MAAM,EAAE,QAAQ,CAAC,MAAM;wBACvB,SAAS,EAAE,OAAO,CAAC,SAAS;wBAC5B,cAAc,EAAE,OAAO,CAAC,cAAc;qBACvC,CAAC,CAAC;gBACL,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG;oBACzB,OAAO,EAAE,IAAI,EAAE,IAAI,EAAE,SAAS,EAAE,OAAO,EAAE,QAAQ,CAAC,OAAO,EAAE,CAAC;gBAC9D,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,EAAE,CAAC;oBAC5B,MAAM,IAAI,GAAG,MAAM,QAAQ,CAAC,QAAQ,EAAE,aAAa,CAAC,CAAC;oBACrD,IAAI,UAAU,GAA4B,EAAE,CAAC;oBAC7C,IAAI,CAAC;wBACH,MAAM,MAAM,GAAG,gBAAgB,CAAC,KAAK,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC;wBACxD,UAAU,GAAG,MAAM,CAAC,WAAW,CAC7B,MAAM,CAAC,OAAO,CAAC,MAAM,CAAC,CAAC,MAAM,CAC3B,CAAC,CAAC,GAAG,EAAE,KAAK,CAAC,EAAE,EAAE,CACf,iBAAiB,CAAC,GAAG,CAAC,GAAG,CAAC,IAAI,IAAI,CAAC,SAAS,CAAC,KAAK,CAAC,CAAC,MAAM,IAAI,IAAI,CACrE,CACF,CAAC;oBACJ,CAAC;oBAAC,MAAM,CAAC;wBACP,yDAAyD;oBAC3D,CAAC;oBACD,MAAM,EAAE,SAAS,EAAE,aAAa,EAAE,OAAO,EAAE,UAAU,EAAE,SAAS,EAAE,GAAG,UAAU,CAAC;oBAChF,MAAM,OAAO,GAAG,OAAO;wBACrB,CAAC,CAAC,cAAc,CAAC,OAAO,CAAC;wBACzB,CAAC,CAAC,WAAW,CAAC,SAAS,CAAC;4BACtB,CAAC,CAAC,UAAU,SAAS,EAAE;4BACvB,CAAC,CAAC,sBAAsB,CAAC;oBAC7B,MAAM,EAAE,GACN,OAAO,OAAO,KAAK,QAAQ,IAAI,eAAe,CAAC,IAAI,CAAC,OAAO,CAAC;wBAC1D,CAAC,CAAC,OAAO,OAAO,EAAE;wBAClB,CAAC,CAAC,EAAE,CAAC;oBACT,MAAM,KAAK,GACT,OAAO,SAAS,KAAK,QAAQ,IAAI,UAAU,CAAC,IAAI,CAAC,SAAS,CAAC;wBACzD,CAAC,CAAC,gBAAgB,SAAS,GAAG;wBAC9B,CAAC,CAAC,EAAE,CAAC;oBACT,MAAM,QAAQ,CAAC,yBAAyB,OAAO,iBAAiB,EAAE,GAAG,KAAK,GAAG,EAAE;wBAC7E,MAAM,EAAE,iBAAiB;wBACzB,SAAS,EAAE,KAAK;wBAChB,MAAM,EAAE,GAAG;wBACX,GAAG,UAAU;wBACb,2EAA2E;wBAC3E,GAAG,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,SAAS,EAAE,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;qBACrD,CAAC,CAAC;gBACL,CAAC;gBACD,IAAI,CAAC,QAAQ,CAAC,EAAE;oBAAE,MAAM,MAAM,mBAAmB,CAAC,QAAQ,EAAE,UAAU,CAAC,CAAC;gBACxE,MAAM,QAAQ,GAAG,QAAQ,CAAC,OAAO,CAAC,GAAG,CAAC,kBAAkB,CAAC,CAAC;gBAC1D,IAAI,QAAQ,IAAI,QAAQ,CAAC,WAAW,EAAE,KAAK,UAAU;oBACnD,MAAM,kBAAkB,CAAC,mDAAmD,EAAE;wBAC5E,MAAM,EAAE,wBAAwB;wBAChC,SAAS,EAAE,KAAK;qBACjB,CAAC,CAAC;gBACL,MAAM,IAAI,GAAG,MAAM,QAAQ,CAAC,QAAQ,EAAE,aAAa,CAAC,CAAC;gBACrD,IAAI,qCAAqC,CAAC,IAAI,CAAC,IAAI,CAAC;oBAClD,MAAM,kBAAkB,CAAC,yCAAyC,EAAE;wBAClE,MAAM,EAAE,sBAAsB;wBAC9B,SAAS,EAAE,IAAI;qBAChB,CAAC,CAAC;gBACL,IAAI,IAAa,CAAC;gBAClB,IAAI,CAAC;oBACH,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC;gBAC1B,CAAC;gBAAC,OAAO,KAAK,EAAE,CAAC;oBACf,MAAM,kBAAkB,CACtB,mCAAmC,EACnC,EAAE,MAAM,EAAE,wBAAwB,EAAE,SAAS,EAAE,KAAK,EAAE,EACtD,EAAE,KAAK,EAAE,CACV,CAAC;gBACJ,CAAC;gBACD,MAAM,MAAM,GAAG,MAAM,CAAC,SAAS,CAAC,IAAI,CAAC,CAAC;gBACtC,IAAI,CAAC,MAAM,CAAC,OAAO;oBACjB,MAAM,kBAAkB,CACtB,+DAA+D,EAC/D,EAAE,MAAM,EAAE,wBAAwB,EAAE,SAAS,EAAE,KAAK,EAAE,CACvD,CAAC;gBACJ,aAAa,CAAC,cAAc,EAAE,CAAC;gBAC/B,IAAI,WAAW,CAAC,GAAG,EAAE,GAAG,IAAI,CAAC,QAAQ;oBACnC,MAAM,OAAO,CAAC,2CAA2C,EAAE;wBACzD,MAAM,EAAE,yBAAyB;wBACjC,SAAS,EAAE,IAAI;qBAChB,CAAC,CAAC;gBACL,OAAO,EAAE,IAAI,EAAE,MAAM,CAAC,IAAI,EAAE,SAAS,EAAE,OAAO,EAAE,QAAQ,CAAC,OAAO,EAAE,CAAC;YACrE,CAAC;YAAC,OAAO,KAAK,EAAE,CAAC;gBACf,IAAI,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,OAAO;oBAAE,MAAM,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,MAAM,CAAC;gBAC1D,IAAI,MAAM,CAAC,OAAO;oBAAE,MAAM,MAAM,CAAC,MAAM,CAAC;gBACxC,IAAI,UAAU,CAAC,MAAM,CAAC,OAAO;oBAAE,MAAM,UAAU,CAAC,MAAM,CAAC,MAAM,CAAC;gBAC9D,IAAI,KAAK,YAAY,QAAQ;oBAAE,MAAM,KAAK,CAAC;gBAC3C,MAAM,kBAAkB,CACtB,kCAAkC,EAClC,EAAE,MAAM,EAAE,sBAAsB,EAAE,SAAS,EAAE,IAAI,EAAE,EACnD,EAAE,KAAK,EAAE,CACV,CAAC;YACJ,CAAC;oBAAS,CAAC;gBACT,YAAY,CAAC,KAAK,CAAC,CAAC;YACtB,CAAC;QACH,CAAC,EACD,EAAE,MAAM,EAAE,SAAS,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,GAAG,CAAC,IAAI,EAAE,IAAI,CAAC,QAAQ,GAAG,WAAW,CAAC,GAAG,EAAE,CAAC,CAAC,EAAE,CACtF,EACH;YACE,MAAM,EAAE,IAAI,CAAC,GAAG,CAAC,MAAM;YACvB,OAAO,EAAE,IAAI,CAAC,GAAG;YACjB,SAAS,EAAE,kBAAkB;YAC7B,UAAU,EAAE,SAAS;YACrB,UAAU,EAAE,CAAC;YACb,WAAW,EAAE,IAAI;YACjB,UAAU,EAAE,IAAI;YAChB,WAAW,EAAE,kBAAkB;SAChC,CACF,CAAC;IACJ,CAAC;IAED,kFAAkF;IAClF,KAAK,CAAC,OAAO,CAAC,GAAY;QACxB,MAAM,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC;QAC7B,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CACjC,IAAI,EACJ,CAAC,OAAO,EAAE,SAAS,CAAC,EACpB,EAAE,EACF,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,MAAM,EAAE,CAAC,KAAK,CAAC,iBAAiB,CAAC,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAC1D,CAAC;QACF,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,OAAO,CAC/B,IAAI,EACJ,CAAC,OAAO,CAAC,EACT,EAAE,EACF,CAAC,CAAC,MAAM,CAAC,EAAE,OAAO,EAAE,gBAAgB,EAAE,CAAC,CAAC,QAAQ,CAAC,eAAe,CAAC,CAClE,CAAC;QACF,IAAI,CAAC,QAAQ,CAAC,IAAI,IAAI,CAAC,MAAM,CAAC,IAAI,IAAI,CAAC,MAAM,CAAC,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,MAAM;YACtE,MAAM,kBAAkB,CAAC,uCAAuC,EAAE;gBAChE,MAAM,EAAE,wBAAwB;gBAChC,SAAS,EAAE,KAAK;aACjB,CAAC,CAAC;QACL,MAAM,YAAY,GAAG,QAAQ,CAAC,OAAO,CAAC,GAAG,CAAC,kBAAkB,CAAC,CAAC;QAC9D,MAAM,aAAa,GAAG,MAAM,CAAC,OAAO,CAAC,GAAG,CAAC,kBAAkB,CAAC,CAAC;QAC7D,IAAI,YAAY,IAAI,aAAa,IAAI,YAAY,KAAK,aAAa;YACjE,MAAM,kBAAkB,CAAC,sDAAsD,EAAE;gBAC/E,MAAM,EAAE,iBAAiB;gBACzB,SAAS,EAAE,IAAI;aAChB,CAAC,CAAC;QACL,MAAM,OAAO,GAAG,MAAM,CAAC,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE;YACvD,MAAM,IAAI,GAAG,CAAC,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC;YACtC,MAAM,KAAK,GAAG,CAAC,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC;YACvC,KAAK,IAAI,KAAK,GAAG,CAAC,EAAE,KAAK,GAAG,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,MAAM,EAAE,KAAK,CAAC,MAAM,CAAC,EAAE,KAAK,EAAE,EAAE,CAAC;gBACzE,MAAM,UAAU,GAAG,CAAC,KAAK,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC;gBAC5D,IAAI,UAAU;oBAAE,OAAO,UAAU,CAAC;YACpC,CAAC;YACD,OAAO,CAAC,CAAC;QACX,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC;QACN,IAAI,CAAC,OAAO;YACV,MAAM,kBAAkB,CAAC,sCAAsC,EAAE;gBAC/D,MAAM,EAAE,wBAAwB;gBAChC,SAAS,EAAE,KAAK;aACjB,CAAC,CAAC;QACL,OAAO;YACL,OAAO;YACP,IAAI,EAAE,QAAQ,CAAC,IAAI,CAAC,OAAO,CAAW;YACtC,cAAc,EAAE,MAAM,CAAC,IAAI;YAC3B,UAAU,EAAE,CAAC,QAAQ,CAAC,SAAS,EAAE,MAAM,CAAC,SAAS,CAAC;SACnD,CAAC;IACJ,CAAC;CACF;AAED,KAAK,UAAU,QAAQ,CAAC,QAAkB,EAAE,MAAmB;IAC7D,IAAI,CAAC,QAAQ,CAAC,IAAI;QAAE,OAAO,EAAE,CAAC;IAC9B,MAAM,MAAM,GAAG,QAAQ,CAAC,IAAI,CAAC,SAAS,EAAE,CAAC;IACzC,MAAM,MAAM,GAAiB,EAAE,CAAC;IAChC,IAAI,KAAK,GAAG,CAAC,CAAC;IACd,MAAM,KAAK,GAAG,GAAG,EAAE;QACjB,KAAK,MAAM,CAAC,MAAM,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,KAAK,CAAC,GAAG,EAAE,GAAE,CAAC,CAAC,CAAC;IACpD,CAAC,CAAC;IACF,MAAM,CAAC,gBAAgB,CAAC,OAAO,EAAE,KAAK,EAAE,EAAE,IAAI,EAAE,IAAI,EAAE,CAAC,CAAC;IACxD,IAAI,CAAC;QACH,OAAO,IAAI,EAAE,CAAC;YACZ,MAAM,CAAC,cAAc,EAAE,CAAC;YACxB,MAAM,EAAE,IAAI,EAAE,KAAK,EAAE,GAAG,MAAM,MAAM,CAAC,IAAI,EAAE,CAAC;YAC5C,MAAM,CAAC,cAAc,EAAE,CAAC;YACxB,IAAI,IAAI;gBAAE,MAAM;YAChB,KAAK,IAAI,KAAK,CAAC,UAAU,CAAC;YAC1B,IAAI,KAAK,GAAG,kBAAkB,EAAE,CAAC;gBAC/B,MAAM,MAAM,CAAC,MAAM,EAAE,CAAC;gBACtB,MAAM,kBAAkB,CAAC,kCAAkC,EAAE;oBAC3D,MAAM,EAAE,6BAA6B;oBACrC,SAAS,EAAE,KAAK;iBACjB,CAAC,CAAC;YACL,CAAC;YACD,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC;QACrB,CAAC;QACD,OAAO,MAAM,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC;IAChD,CAAC;YAAS,CAAC;QACT,MAAM,CAAC,mBAAmB,CAAC,OAAO,EAAE,KAAK,CAAC,CAAC;QAC3C,MAAM,CAAC,WAAW,EAAE,CAAC;IACvB,CAAC;AACH,CAAC;AAED,IAAI,OAAoC,CAAC;AACzC,yDAAyD;AACzD,MAAM,UAAU,mBAAmB,CAAC,KAAK,GAAkB,iBAAiB;IAC1E,OAAO,GAAG,IAAI,eAAe,CAAC,KAAK,CAAC,CAAC;AACvC,CAAC;AACD,8CAA8C;AAC9C,MAAM,UAAU,kBAAkB;IAChC,IAAI,CAAC,OAAO;QAAE,MAAM,IAAI,KAAK,CAAC,sCAAsC,CAAC,CAAC;IACtE,OAAO,OAAO,CAAC;AACjB,CAAC;AACD,8DAA8D;AAC9D,MAAM,UAAU,sBAAsB;IACpC,KAAK,CAAC,OAAO,EAAE,CAAC;AAClB,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"reference.d.ts","sourceRoot":"","sources":["../../../src/services/interpro/reference.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;
|
|
1
|
+
{"version":3,"file":"reference.d.ts","sourceRoot":"","sources":["../../../src/services/interpro/reference.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAK3C,4EAA4E;AAC5E,eAAO,MAAM,oBAAoB;;;;;;EAE2C,CAAC;AAC7E,yEAAyE;AACzE,eAAO,MAAM,mBAAmB;;;;;;;;iBAkBa,CAAC;AAC9C,kCAAkC;AAClC,MAAM,MAAM,aAAa,GAAG,CAAC,CAAC,KAAK,CAAC,OAAO,mBAAmB,CAAC,CAAC;AA6EhE,4EAA4E;AAC5E,wBAAgB,eAAe,CAAC,KAAK,EAAE,OAAO,CAAC,CAAC,CAAC,KAAK,CAAC,OAAO,oBAAoB,CAAC,EAAE,SAAS,CAAC,GAAG;IAChG,KAAK,EAAE,aAAa,EAAE,CAAC;IACvB,UAAU,EAAE,MAAM,EAAE,CAAC;CACtB,CAwCA"}
|
|
@@ -4,6 +4,7 @@
|
|
|
4
4
|
*/
|
|
5
5
|
import { z } from '@cyanheads/mcp-ts-core';
|
|
6
6
|
import { DOCUMENTATION_URL, ENTRY_ROUTES } from './routing.js';
|
|
7
|
+
import { CHAIN_PATTERN, PDB_ID_PATTERN } from './structure-schemas.js';
|
|
7
8
|
/** Available reference topics; only release performs network operations. */
|
|
8
9
|
export const ReferenceTopicSchema = z
|
|
9
10
|
.enum(['databases', 'entry_types', 'accession_patterns', 'taxa', 'release'])
|
|
@@ -15,7 +16,10 @@ export const ReferenceItemSchema = z
|
|
|
15
16
|
label: z.string().describe('Human-readable label.'),
|
|
16
17
|
description: z.string().optional().describe('Meaning and coverage.'),
|
|
17
18
|
sourceDatabase: z.string().optional().describe('Entry API database slug.'),
|
|
18
|
-
accessionPattern: z
|
|
19
|
+
accessionPattern: z
|
|
20
|
+
.string()
|
|
21
|
+
.optional()
|
|
22
|
+
.describe('Accession routing pattern, case-insensitive except where the item description says otherwise.'),
|
|
19
23
|
example: z
|
|
20
24
|
.string()
|
|
21
25
|
.optional()
|
|
@@ -80,6 +84,23 @@ const taxa = [
|
|
|
80
84
|
['3702', 'Arabidopsis'],
|
|
81
85
|
['562', 'Escherichia coli'],
|
|
82
86
|
];
|
|
87
|
+
/** Structure identifiers, listed after the entry routes under accession_patterns. */
|
|
88
|
+
const structureIdentifiers = [
|
|
89
|
+
{
|
|
90
|
+
id: 'pdb',
|
|
91
|
+
label: 'PDB entry',
|
|
92
|
+
accessionPattern: PDB_ID_PATTERN.source,
|
|
93
|
+
example: '1tsr',
|
|
94
|
+
description: 'Four-character structure ID for interpro_get_structure_domains, matched case-insensitively; extended pdb_0000… IDs are not supported.',
|
|
95
|
+
},
|
|
96
|
+
{
|
|
97
|
+
id: 'pdb_chain',
|
|
98
|
+
label: 'PDB chain',
|
|
99
|
+
accessionPattern: CHAIN_PATTERN.source,
|
|
100
|
+
example: 'A',
|
|
101
|
+
description: 'Case-sensitive chain ID within one PDB entry, one of its structure.chains; a and A are different chains.',
|
|
102
|
+
},
|
|
103
|
+
];
|
|
83
104
|
/** Return bounded local reference data without making upstream requests. */
|
|
84
105
|
export function staticReference(topic) {
|
|
85
106
|
if (topic === 'entry_types')
|
|
@@ -115,7 +136,7 @@ export function staticReference(topic) {
|
|
|
115
136
|
: source === 'profile'
|
|
116
137
|
? 'PROSITE profile signatures; patterns use the prosite route.'
|
|
117
138
|
: 'Member-database signatures exposed through the InterPro entry API.',
|
|
118
|
-
})),
|
|
139
|
+
})).concat(topic === 'accession_patterns' ? structureIdentifiers : []),
|
|
119
140
|
sourceUrls: [DOCUMENTATION_URL],
|
|
120
141
|
};
|
|
121
142
|
}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"reference.js","sourceRoot":"","sources":["../../../src/services/interpro/reference.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC3C,OAAO,EAAE,iBAAiB,EAAE,YAAY,EAAE,MAAM,cAAc,CAAC;
|
|
1
|
+
{"version":3,"file":"reference.js","sourceRoot":"","sources":["../../../src/services/interpro/reference.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC3C,OAAO,EAAE,iBAAiB,EAAE,YAAY,EAAE,MAAM,cAAc,CAAC;AAE/D,OAAO,EAAE,aAAa,EAAE,cAAc,EAAE,MAAM,wBAAwB,CAAC;AAEvE,4EAA4E;AAC5E,MAAM,CAAC,MAAM,oBAAoB,GAAG,CAAC;KAClC,IAAI,CAAC,CAAC,WAAW,EAAE,aAAa,EAAE,oBAAoB,EAAE,MAAM,EAAE,SAAS,CAAC,CAAC;KAC3E,QAAQ,CAAC,+DAA+D,CAAC,CAAC;AAC7E,yEAAyE;AACzE,MAAM,CAAC,MAAM,mBAAmB,GAAG,CAAC;KACjC,MAAM,CAAC;IACN,EAAE,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;IAChD,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;IACnD,WAAW,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;IACpE,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;IAC1E,gBAAgB,EAAE,CAAC;SAChB,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CACP,+FAA+F,CAChG;IACH,OAAO,EAAE,CAAC;SACP,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CAAC,2DAA2D,CAAC;IACxE,OAAO,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;CACrE,CAAC;KACD,QAAQ,CAAC,gCAAgC,CAAC,CAAC;AAG9C,MAAM,cAAc,GAAmC;IACrD,QAAQ,EAAE,UAAU;IACpB,IAAI,EAAE,MAAM;IACZ,OAAO,EAAE,kBAAkB;IAC3B,OAAO,EAAE,kBAAkB;IAC3B,KAAK,EAAE,OAAO;IACd,GAAG,EAAE,KAAK;IACV,OAAO,EAAE,SAAS;IAClB,UAAU,EAAE,aAAa;IACzB,GAAG,EAAE,aAAa;IAClB,OAAO,EAAE,SAAS;IAClB,KAAK,EAAE,OAAO;IACd,MAAM,EAAE,QAAQ;IAChB,KAAK,EAAE,OAAO;IACd,IAAI,EAAE,MAAM;IACZ,OAAO,EAAE,SAAS;CACnB,CAAC;AACF,MAAM,KAAK,GAAG;IACZ,CAAC,QAAQ,EAAE,QAAQ,EAAE,mDAAmD,CAAC;IACzE,CAAC,QAAQ,EAAE,QAAQ,EAAE,6CAA6C,CAAC;IACnE,CAAC,QAAQ,EAAE,QAAQ,EAAE,yCAAyC,CAAC;IAC/D;QACE,wBAAwB;QACxB,wBAAwB;QACxB,wDAAwD;KACzD;IACD,CAAC,aAAa,EAAE,aAAa,EAAE,iCAAiC,CAAC;IACjE,CAAC,cAAc,EAAE,cAAc,EAAE,+BAA+B,CAAC;IACjE,CAAC,gBAAgB,EAAE,gBAAgB,EAAE,uCAAuC,CAAC;IAC7E,CAAC,KAAK,EAAE,iCAAiC,EAAE,yCAAyC,CAAC;IACrF;QACE,QAAQ;QACR,QAAQ;QACR,sFAAsF;KACvF;IACD;QACE,aAAa;QACb,aAAa;QACb,mEAAmE;KACpE;IACD;QACE,YAAY;QACZ,mBAAmB;QACnB,iFAAiF;KAClF;CACO,CAAC;AACX,MAAM,IAAI,GAAG;IACX,CAAC,MAAM,EAAE,OAAO,CAAC;IACjB,CAAC,OAAO,EAAE,OAAO,CAAC;IAClB,CAAC,OAAO,EAAE,KAAK,CAAC;IAChB,CAAC,MAAM,EAAE,WAAW,CAAC;IACrB,CAAC,MAAM,EAAE,WAAW,CAAC;IACrB,CAAC,MAAM,EAAE,UAAU,CAAC;IACpB,CAAC,QAAQ,EAAE,eAAe,CAAC;IAC3B,CAAC,MAAM,EAAE,aAAa,CAAC;IACvB,CAAC,KAAK,EAAE,kBAAkB,CAAC;CACnB,CAAC;AACX,qFAAqF;AACrF,MAAM,oBAAoB,GAAoB;IAC5C;QACE,EAAE,EAAE,KAAK;QACT,KAAK,EAAE,WAAW;QAClB,gBAAgB,EAAE,cAAc,CAAC,MAAM;QACvC,OAAO,EAAE,MAAM;QACf,WAAW,EACT,uIAAuI;KAC1I;IACD;QACE,EAAE,EAAE,WAAW;QACf,KAAK,EAAE,WAAW;QAClB,gBAAgB,EAAE,aAAa,CAAC,MAAM;QACtC,OAAO,EAAE,GAAG;QACZ,WAAW,EACT,0GAA0G;KAC7G;CACF,CAAC;AACF,4EAA4E;AAC5E,MAAM,UAAU,eAAe,CAAC,KAA+D;IAI7F,IAAI,KAAK,KAAK,aAAa;QACzB,OAAO;YACL,KAAK,EAAE,KAAK,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,KAAK,EAAE,WAAW,CAAC,EAAE,EAAE,CAAC,CAAC,EAAE,EAAE,EAAE,KAAK,EAAE,WAAW,EAAE,CAAC,CAAC;YAC5E,UAAU,EAAE,CAAC,iBAAiB,CAAC;SAChC,CAAC;IACJ,IAAI,KAAK,KAAK,MAAM;QAClB,OAAO;YACL,KAAK,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,OAAO,EAAE,KAAK,CAAC,EAAE,EAAE,CAAC,CAAC;gBACrC,EAAE,EAAE,OAAO;gBACX,KAAK;gBACL,OAAO;gBACP,WAAW,EAAE,8DAA8D;aAC5E,CAAC,CAAC;YACH,UAAU,EAAE,CAAC,iBAAiB,EAAE,uCAAuC,CAAC;SACzE,CAAC;IACJ,OAAO;QACL,KAAK,EAAE,YAAY,CAAC,GAAG,CACrB,CAAC,EAAE,MAAM,EAAE,OAAO,EAAE,OAAO,EAAE,EAAiB,EAAE,CAAC,CAAC;YAChD,EAAE,EAAE,MAAM;YACV,KAAK,EAAE,cAAc,CAAC,MAAM,CAAC;YAC7B,cAAc,EAAE,MAAM;YACtB,gBAAgB,EAAE,OAAO,CAAC,MAAM;YAChC,OAAO;YACP,WAAW,EACT,KAAK,KAAK,oBAAoB;gBAC5B,CAAC,CAAC,kEAAkE;gBACpE,CAAC,CAAC,MAAM,KAAK,UAAU;oBACrB,CAAC,CAAC,mDAAmD;oBACrD,CAAC,CAAC,MAAM,KAAK,SAAS;wBACpB,CAAC,CAAC,yDAAyD;wBAC3D,CAAC,CAAC,MAAM,KAAK,SAAS;4BACpB,CAAC,CAAC,6DAA6D;4BAC/D,CAAC,CAAC,MAAM,KAAK,SAAS;gCACpB,CAAC,CAAC,6DAA6D;gCAC/D,CAAC,CAAC,oEAAoE;SACnF,CAAC,CACH,CAAC,MAAM,CAAC,KAAK,KAAK,oBAAoB,CAAC,CAAC,CAAC,oBAAoB,CAAC,CAAC,CAAC,EAAE,CAAC;QACpE,UAAU,EAAE,CAAC,iBAAiB,CAAC;KAChC,CAAC;AACJ,CAAC"}
|
|
@@ -122,6 +122,7 @@ export declare const ProteinMetadataSchema: z.ZodObject<{
|
|
|
122
122
|
scientificName: z.ZodString;
|
|
123
123
|
fullName: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
124
124
|
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
125
|
+
proteome: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
125
126
|
}, z.core.$catchall<z.ZodJSONSchema>>;
|
|
126
127
|
/** Protein match rows retain complete nested source records. */
|
|
127
128
|
export declare const MatchSchema: z.ZodObject<{
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"schemas.d.ts","sourceRoot":"","sources":["../../../src/services/interpro/schemas.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAE3C,2DAA2D;AAC3D,eAAO,MAAM,eAAe,iBAAiD,CAAC;AAC9E,oEAAoE;AACpE,eAAO,MAAM,gBAAgB,2CAEgB,CAAC;AAC9C,yFAAyF;AACzF,eAAO,MAAM,oBAAoB;;;;;;;;;;;;;;;;EAkBe,CAAC;AACjD,mCAAmC;AACnC,eAAO,MAAM,eAAe;;;;;;;;;;;;EAcS,CAAC;AACtC,kCAAkC;AAClC,MAAM,MAAM,cAAc,GAAG,CAAC,CAAC,KAAK,CAAC,OAAO,oBAAoB,CAAC,CAAC;AAIlE,sDAAsD;AACtD,eAAO,MAAM,cAAc,GAAI,CAAC,SAAS,CAAC,CAAC,OAAO,UAAU,CAAC,+CACjB,CAAC;AAC7C,4FAA4F;AAC5F,eAAO,MAAM,eAAe,GAAI,CAAC,SAAS,CAAC,CAAC,OAAO,UAAU,CAAC,gCAAoC,CAAC;AACnG,8EAA8E;AAC9E,eAAO,MAAM,eAAe,aAOyC,CAAC;AACtE;;;GAGG;AACH,eAAO,MAAM,WAAW,UAAW,OAAO,KAAG,KAAK,IAAI,MACwB,CAAC;AAC/E,6DAA6D;AAC7D,eAAO,MAAM,sBAAsB,aAIyD,CAAC;AAC7F,0CAA0C;AAC1C,eAAO,MAAM,YAAY;;;;;;;qCAaI,CAAC;AAC9B,8DAA8D;AAC9D,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;qCAcH,CAAC;AAC7B,wEAAwE;AACxE,eAAO,MAAM,mBAAmB;;;;;;;qCAcJ,CAAC;AAC7B,0FAA0F;AAC1F,eAAO,MAAM,yBAAyB;;;;;;;;qCAOpC,CAAC;AACH,kFAAkF;AAClF,eAAO,MAAM,cAAc;;;;;;;;;qCAqBqB,CAAC;AACjD,mFAAmF;AACnF,eAAO,MAAM,qBAAqB
|
|
1
|
+
{"version":3,"file":"schemas.d.ts","sourceRoot":"","sources":["../../../src/services/interpro/schemas.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAE3C,2DAA2D;AAC3D,eAAO,MAAM,eAAe,iBAAiD,CAAC;AAC9E,oEAAoE;AACpE,eAAO,MAAM,gBAAgB,2CAEgB,CAAC;AAC9C,yFAAyF;AACzF,eAAO,MAAM,oBAAoB;;;;;;;;;;;;;;;;EAkBe,CAAC;AACjD,mCAAmC;AACnC,eAAO,MAAM,eAAe;;;;;;;;;;;;EAcS,CAAC;AACtC,kCAAkC;AAClC,MAAM,MAAM,cAAc,GAAG,CAAC,CAAC,KAAK,CAAC,OAAO,oBAAoB,CAAC,CAAC;AAIlE,sDAAsD;AACtD,eAAO,MAAM,cAAc,GAAI,CAAC,SAAS,CAAC,CAAC,OAAO,UAAU,CAAC,+CACjB,CAAC;AAC7C,4FAA4F;AAC5F,eAAO,MAAM,eAAe,GAAI,CAAC,SAAS,CAAC,CAAC,OAAO,UAAU,CAAC,gCAAoC,CAAC;AACnG,8EAA8E;AAC9E,eAAO,MAAM,eAAe,aAOyC,CAAC;AACtE;;;GAGG;AACH,eAAO,MAAM,WAAW,UAAW,OAAO,KAAG,KAAK,IAAI,MACwB,CAAC;AAC/E,6DAA6D;AAC7D,eAAO,MAAM,sBAAsB,aAIyD,CAAC;AAC7F,0CAA0C;AAC1C,eAAO,MAAM,YAAY;;;;;;;qCAaI,CAAC;AAC9B,8DAA8D;AAC9D,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;qCAcH,CAAC;AAC7B,wEAAwE;AACxE,eAAO,MAAM,mBAAmB;;;;;;;qCAcJ,CAAC;AAC7B,0FAA0F;AAC1F,eAAO,MAAM,yBAAyB;;;;;;;;qCAOpC,CAAC;AACH,kFAAkF;AAClF,eAAO,MAAM,cAAc;;;;;;;;;qCAqBqB,CAAC;AACjD,mFAAmF;AACnF,eAAO,MAAM,qBAAqB;;;;;;;;;;;;qCA6BN,CAAC;AAC7B,gEAAgE;AAChE,eAAO,MAAM,WAAW;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;qCAmBI,CAAC;AAC7B,sEAAsE;AACtE,eAAO,MAAM,mBAAmB;;;;;;;;;;;;;sCAS/B,CAAC;AACF,yFAAyF;AACzF,eAAO,MAAM,wBAAwB;;;;;;;;;;;;;sCASpC,CAAC;AACF,gFAAgF;AAChF,eAAO,MAAM,UAAU,GAAI,CAAC,SAAS,CAAC,CAAC,OAAO,OAAO,CAAC;;;;;qCAQxB,CAAC;AAC/B,gCAAgC;AAChC,eAAO,MAAM,YAAY,GAAI,CAAC,SAAS,CAAC,CAAC,OAAO,YAAY,CAAC;;qCACqC,CAAC;AACnG,kCAAkC;AAClC,eAAO,MAAM,UAAU;;;;;;iBAarB,CAAC"}
|
|
@@ -168,6 +168,11 @@ export const ProteinMetadataSchema = z
|
|
|
168
168
|
.catchall(JsonValueSchema)
|
|
169
169
|
.optional()
|
|
170
170
|
.describe('Source organism.'),
|
|
171
|
+
proteome: z
|
|
172
|
+
.string()
|
|
173
|
+
.nullable()
|
|
174
|
+
.optional()
|
|
175
|
+
.describe('UniProt proteome accession, such as UP000000625; pass it as interpro_find_proteins_by_domain proteomeId with taxonId set to source_organism.taxId or an ancestor. Null when the protein belongs to no proteome.'),
|
|
171
176
|
})
|
|
172
177
|
.catchall(JsonValueSchema);
|
|
173
178
|
/** Protein match rows retain complete nested source records. */
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"schemas.js","sourceRoot":"","sources":["../../../src/services/interpro/schemas.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAE3C,2DAA2D;AAC3D,MAAM,CAAC,MAAM,eAAe,GAAG,CAAC,CAAC,IAAI,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC,CAAC;AAC9E,oEAAoE;AACpE,MAAM,CAAC,MAAM,gBAAgB,GAAG,CAAC;KAC9B,MAAM,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,eAAe,CAAC;KACnC,QAAQ,CAAC,gCAAgC,CAAC,CAAC;AAC9C,yFAAyF;AACzF,MAAM,CAAC,MAAM,oBAAoB,GAAG,CAAC;KAClC,IAAI,CAAC;IACJ,UAAU;IACV,MAAM;IACN,SAAS;IACT,SAAS;IACT,OAAO;IACP,KAAK;IACL,SAAS;IACT,YAAY;IACZ,KAAK;IACL,SAAS;IACT,OAAO;IACP,QAAQ;IACR,OAAO;IACP,MAAM;IACN,SAAS;CACV,CAAC;KACD,QAAQ,CAAC,mCAAmC,CAAC,CAAC;AACjD,mCAAmC;AACnC,MAAM,CAAC,MAAM,eAAe,GAAG,CAAC;KAC7B,IAAI,CAAC;IACJ,QAAQ;IACR,QAAQ;IACR,QAAQ;IACR,wBAAwB;IACxB,aAAa;IACb,cAAc;IACd,gBAAgB;IAChB,KAAK;IACL,QAAQ;IACR,aAAa;IACb,YAAY;CACb,CAAC;KACD,QAAQ,CAAC,wBAAwB,CAAC,CAAC;AAGtC,6EAA6E;AAC7E,MAAM,SAAS,GAAG,CAAC,KAAc,EAAE,EAAE,CACnC,OAAO,KAAK,KAAK,QAAQ,IAAI,KAAK,CAAC,IAAI,EAAE,KAAK,EAAE,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,KAAK,CAAC;AACvE,sDAAsD;AACtD,MAAM,CAAC,MAAM,cAAc,GAAG,CAAsB,MAAS,EAAE,EAAE,CAC/D,CAAC,CAAC,UAAU,CAAC,SAAS,EAAE,MAAM,CAAC,QAAQ,EAAE,CAAC,CAAC;AAC7C,4FAA4F;AAC5F,MAAM,CAAC,MAAM,eAAe,GAAG,CAAsB,MAAS,EAAE,EAAE,CAAC,CAAC,CAAC,UAAU,CAAC,SAAS,EAAE,MAAM,CAAC,CAAC;AACnG,8EAA8E;AAC9E,MAAM,CAAC,MAAM,eAAe,GAAG,CAAC;KAC7B,MAAM,EAAE;KACR,IAAI,EAAE;KACN,GAAG,CAAC,CAAC,CAAC;KACN,GAAG,CAAC,GAAG,CAAC;KACR,KAAK,CAAC,oBAAoB,CAAC;KAC3B,MAAM,CAAC,CAAC,KAAK,EAAE,EAAE,CAAC,KAAK,KAAK,GAAG,IAAI,KAAK,KAAK,IAAI,EAAE,kCAAkC,CAAC;KACtF,QAAQ,CAAC,wDAAwD,CAAC,CAAC;AACtE;;;GAGG;AACH,MAAM,CAAC,MAAM,WAAW,GAAG,CAAC,KAAc,EAAmB,EAAE,CAC7D,OAAO,KAAK,KAAK,QAAQ,IAAI,eAAe,CAAC,SAAS,CAAC,KAAK,CAAC,CAAC,IAAI,KAAK,KAAK,CAAC;AAC/E,6DAA6D;AAC7D,MAAM,CAAC,MAAM,sBAAsB,GAAG,CAAC;KACpC,MAAM,EAAE;KACR,IAAI,EAAE;KACN,KAAK,CAAC,+EAA+E,CAAC;KACtF,QAAQ,CAAC,+EAA+E,CAAC,CAAC;AAC7F,0CAA0C;AAC1C,MAAM,CAAC,MAAM,YAAY,GAAG,CAAC;KAC1B,MAAM,CAAC;IACN,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,gBAAgB,CAAC;IACjD,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,eAAe,CAAC;IAC1C,QAAQ,EAAE,CAAC;SACR,MAAM,CAAC;QACN,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,mBAAmB,CAAC;QAC9C,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,mBAAmB,CAAC;KAC/C,CAAC;SACD,QAAQ,CAAC,eAAe,CAAC;SACzB,QAAQ,CAAC,cAAc,CAAC;CAC5B,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC;KACzB,QAAQ,CAAC,gBAAgB,CAAC,CAAC;AAC9B,8DAA8D;AAC9D,MAAM,CAAC,MAAM,kBAAkB,GAAG,CAAC;KAChC,MAAM,CAAC;IACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,kBAAkB,CAAC;IAClD,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;IACjE,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;IAC5E,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;IAC5E,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,gCAAgC,CAAC;IACvF,gBAAgB,EAAE,CAAC;SAChB,MAAM,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC;SACpD,QAAQ,EAAE;SACV,QAAQ,EAAE;SACV,QAAQ,CAAC,wCAAwC,CAAC;IACrD,QAAQ,EAAE,CAAC,CAAC,KAAK,CAAC,YAAY,CAAC,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,+BAA+B,CAAC;CAChG,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC,CAAC;AAC7B,wEAAwE;AACxE,MAAM,CAAC,MAAM,mBAAmB,GAAG,CAAC;KACjC,MAAM,CAAC;IACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,kBAAkB,CAAC;IAClD,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,oBAAoB,CAAC;IAC1D,IAAI,EAAE,CAAC;SACJ,MAAM,CAAC;QACN,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,YAAY,CAAC;QAC7D,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,aAAa,CAAC;KAChE,CAAC;SACD,QAAQ,CAAC,eAAe,CAAC;SACzB,QAAQ,EAAE;SACV,QAAQ,EAAE;SACV,QAAQ,CAAC,qBAAqB,CAAC;CACnC,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC,CAAC;AAC7B,0FAA0F;AAC1F,MAAM,CAAC,MAAM,yBAAyB,GAAG,mBAAmB,CAAC,MAAM,CAAC;IAClE,eAAe,EAAE,CAAC;SACf,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CACP,+FAA+F,CAChG;CACJ,CAAC,CAAC;AACH,kFAAkF;AAClF,MAAM,CAAC,MAAM,cAAc,GAAG,CAAC;KAC5B,MAAM,CAAC;IACN,SAAS,EAAE,CAAC;SACT,KAAK,CACJ,CAAC;SACE,MAAM,CAAC;QACN,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,kCAAkC,CAAC;QAC/E,GAAG,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,gCAAgC,CAAC;QAC3E,WAAW,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;KACrE,CAAC;SACD,QAAQ,CAAC,eAAe,CAAC;SACzB,MAAM,CAAC,CAAC,QAAQ,EAAE,EAAE,CAAC,QAAQ,CAAC,KAAK,IAAI,QAAQ,CAAC,GAAG,EAAE,6BAA6B,CAAC;SACnF,QAAQ,CAAC,yDAAyD,CAAC,CACvE;SACA,GAAG,CAAC,CAAC,CAAC;SACN,QAAQ,CAAC,8BAA8B,CAAC;IAC3C,cAAc,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,4BAA4B,CAAC;IACxF,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,eAAe,CAAC;IACjE,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;CAC1E,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC;KACzB,QAAQ,CAAC,mCAAmC,CAAC,CAAC;AACjD,mFAAmF;AACnF,MAAM,CAAC,MAAM,qBAAqB,GAAG,CAAC;KACnC,MAAM,CAAC;IACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,oBAAoB,CAAC;IACpD,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,8BAA8B,CAAC;IAC5E,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;IAChE,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,eAAe,CAAC;IAChE,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,YAAY,CAAC;IAC7D,eAAe,EAAE,CAAC;SACf,MAAM,CAAC;QACN,KAAK,EAAE,CAAC;aACL,KAAK,CAAC;YACL,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,uCAAuC,CAAC;YAC5D,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,QAAQ,CAAC,0CAA0C,CAAC;SACtE,CAAC;aACD,QAAQ,CAAC,sBAAsB,CAAC;QACnC,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;QAChE,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,qBAAqB,CAAC;KAC3E,CAAC;SACD,QAAQ,CAAC,eAAe,CAAC;SACzB,QAAQ,EAAE;SACV,QAAQ,CAAC,kBAAkB,CAAC;
|
|
1
|
+
{"version":3,"file":"schemas.js","sourceRoot":"","sources":["../../../src/services/interpro/schemas.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAE3C,2DAA2D;AAC3D,MAAM,CAAC,MAAM,eAAe,GAAG,CAAC,CAAC,IAAI,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC,CAAC;AAC9E,oEAAoE;AACpE,MAAM,CAAC,MAAM,gBAAgB,GAAG,CAAC;KAC9B,MAAM,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,eAAe,CAAC;KACnC,QAAQ,CAAC,gCAAgC,CAAC,CAAC;AAC9C,yFAAyF;AACzF,MAAM,CAAC,MAAM,oBAAoB,GAAG,CAAC;KAClC,IAAI,CAAC;IACJ,UAAU;IACV,MAAM;IACN,SAAS;IACT,SAAS;IACT,OAAO;IACP,KAAK;IACL,SAAS;IACT,YAAY;IACZ,KAAK;IACL,SAAS;IACT,OAAO;IACP,QAAQ;IACR,OAAO;IACP,MAAM;IACN,SAAS;CACV,CAAC;KACD,QAAQ,CAAC,mCAAmC,CAAC,CAAC;AACjD,mCAAmC;AACnC,MAAM,CAAC,MAAM,eAAe,GAAG,CAAC;KAC7B,IAAI,CAAC;IACJ,QAAQ;IACR,QAAQ;IACR,QAAQ;IACR,wBAAwB;IACxB,aAAa;IACb,cAAc;IACd,gBAAgB;IAChB,KAAK;IACL,QAAQ;IACR,aAAa;IACb,YAAY;CACb,CAAC;KACD,QAAQ,CAAC,wBAAwB,CAAC,CAAC;AAGtC,6EAA6E;AAC7E,MAAM,SAAS,GAAG,CAAC,KAAc,EAAE,EAAE,CACnC,OAAO,KAAK,KAAK,QAAQ,IAAI,KAAK,CAAC,IAAI,EAAE,KAAK,EAAE,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,KAAK,CAAC;AACvE,sDAAsD;AACtD,MAAM,CAAC,MAAM,cAAc,GAAG,CAAsB,MAAS,EAAE,EAAE,CAC/D,CAAC,CAAC,UAAU,CAAC,SAAS,EAAE,MAAM,CAAC,QAAQ,EAAE,CAAC,CAAC;AAC7C,4FAA4F;AAC5F,MAAM,CAAC,MAAM,eAAe,GAAG,CAAsB,MAAS,EAAE,EAAE,CAAC,CAAC,CAAC,UAAU,CAAC,SAAS,EAAE,MAAM,CAAC,CAAC;AACnG,8EAA8E;AAC9E,MAAM,CAAC,MAAM,eAAe,GAAG,CAAC;KAC7B,MAAM,EAAE;KACR,IAAI,EAAE;KACN,GAAG,CAAC,CAAC,CAAC;KACN,GAAG,CAAC,GAAG,CAAC;KACR,KAAK,CAAC,oBAAoB,CAAC;KAC3B,MAAM,CAAC,CAAC,KAAK,EAAE,EAAE,CAAC,KAAK,KAAK,GAAG,IAAI,KAAK,KAAK,IAAI,EAAE,kCAAkC,CAAC;KACtF,QAAQ,CAAC,wDAAwD,CAAC,CAAC;AACtE;;;GAGG;AACH,MAAM,CAAC,MAAM,WAAW,GAAG,CAAC,KAAc,EAAmB,EAAE,CAC7D,OAAO,KAAK,KAAK,QAAQ,IAAI,eAAe,CAAC,SAAS,CAAC,KAAK,CAAC,CAAC,IAAI,KAAK,KAAK,CAAC;AAC/E,6DAA6D;AAC7D,MAAM,CAAC,MAAM,sBAAsB,GAAG,CAAC;KACpC,MAAM,EAAE;KACR,IAAI,EAAE;KACN,KAAK,CAAC,+EAA+E,CAAC;KACtF,QAAQ,CAAC,+EAA+E,CAAC,CAAC;AAC7F,0CAA0C;AAC1C,MAAM,CAAC,MAAM,YAAY,GAAG,CAAC;KAC1B,MAAM,CAAC;IACN,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,gBAAgB,CAAC;IACjD,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,eAAe,CAAC;IAC1C,QAAQ,EAAE,CAAC;SACR,MAAM,CAAC;QACN,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,mBAAmB,CAAC;QAC9C,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,mBAAmB,CAAC;KAC/C,CAAC;SACD,QAAQ,CAAC,eAAe,CAAC;SACzB,QAAQ,CAAC,cAAc,CAAC;CAC5B,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC;KACzB,QAAQ,CAAC,gBAAgB,CAAC,CAAC;AAC9B,8DAA8D;AAC9D,MAAM,CAAC,MAAM,kBAAkB,GAAG,CAAC;KAChC,MAAM,CAAC;IACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,kBAAkB,CAAC;IAClD,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;IACjE,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;IAC5E,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;IAC5E,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,gCAAgC,CAAC;IACvF,gBAAgB,EAAE,CAAC;SAChB,MAAM,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC;SACpD,QAAQ,EAAE;SACV,QAAQ,EAAE;SACV,QAAQ,CAAC,wCAAwC,CAAC;IACrD,QAAQ,EAAE,CAAC,CAAC,KAAK,CAAC,YAAY,CAAC,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,+BAA+B,CAAC;CAChG,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC,CAAC;AAC7B,wEAAwE;AACxE,MAAM,CAAC,MAAM,mBAAmB,GAAG,CAAC;KACjC,MAAM,CAAC;IACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,kBAAkB,CAAC;IAClD,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,oBAAoB,CAAC;IAC1D,IAAI,EAAE,CAAC;SACJ,MAAM,CAAC;QACN,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,YAAY,CAAC;QAC7D,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,aAAa,CAAC;KAChE,CAAC;SACD,QAAQ,CAAC,eAAe,CAAC;SACzB,QAAQ,EAAE;SACV,QAAQ,EAAE;SACV,QAAQ,CAAC,qBAAqB,CAAC;CACnC,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC,CAAC;AAC7B,0FAA0F;AAC1F,MAAM,CAAC,MAAM,yBAAyB,GAAG,mBAAmB,CAAC,MAAM,CAAC;IAClE,eAAe,EAAE,CAAC;SACf,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CACP,+FAA+F,CAChG;CACJ,CAAC,CAAC;AACH,kFAAkF;AAClF,MAAM,CAAC,MAAM,cAAc,GAAG,CAAC;KAC5B,MAAM,CAAC;IACN,SAAS,EAAE,CAAC;SACT,KAAK,CACJ,CAAC;SACE,MAAM,CAAC;QACN,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,kCAAkC,CAAC;QAC/E,GAAG,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,gCAAgC,CAAC;QAC3E,WAAW,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;KACrE,CAAC;SACD,QAAQ,CAAC,eAAe,CAAC;SACzB,MAAM,CAAC,CAAC,QAAQ,EAAE,EAAE,CAAC,QAAQ,CAAC,KAAK,IAAI,QAAQ,CAAC,GAAG,EAAE,6BAA6B,CAAC;SACnF,QAAQ,CAAC,yDAAyD,CAAC,CACvE;SACA,GAAG,CAAC,CAAC,CAAC;SACN,QAAQ,CAAC,8BAA8B,CAAC;IAC3C,cAAc,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,4BAA4B,CAAC;IACxF,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,eAAe,CAAC;IACjE,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;CAC1E,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC;KACzB,QAAQ,CAAC,mCAAmC,CAAC,CAAC;AACjD,mFAAmF;AACnF,MAAM,CAAC,MAAM,qBAAqB,GAAG,CAAC;KACnC,MAAM,CAAC;IACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,oBAAoB,CAAC;IACpD,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,8BAA8B,CAAC;IAC5E,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;IAChE,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,eAAe,CAAC;IAChE,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,YAAY,CAAC;IAC7D,eAAe,EAAE,CAAC;SACf,MAAM,CAAC;QACN,KAAK,EAAE,CAAC;aACL,KAAK,CAAC;YACL,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,uCAAuC,CAAC;YAC5D,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,QAAQ,CAAC,0CAA0C,CAAC;SACtE,CAAC;aACD,QAAQ,CAAC,sBAAsB,CAAC;QACnC,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;QAChE,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,qBAAqB,CAAC;KAC3E,CAAC;SACD,QAAQ,CAAC,eAAe,CAAC;SACzB,QAAQ,EAAE;SACV,QAAQ,CAAC,kBAAkB,CAAC;IAC/B,QAAQ,EAAE,CAAC;SACR,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,EAAE;SACV,QAAQ,CACP,iNAAiN,CAClN;CACJ,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC,CAAC;AAC7B,gEAAgE;AAChE,MAAM,CAAC,MAAM,WAAW,GAAG,CAAC;KACzB,MAAM,CAAC;IACN,QAAQ,EAAE,kBAAkB,CAAC,QAAQ,CAAC,iBAAiB,CAAC;IACxD,QAAQ,EAAE,CAAC;SACR,KAAK,CACJ,CAAC;SACE,MAAM,CAAC;QACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,4BAA4B,CAAC;QAC5D,uBAAuB,EAAE,CAAC;aACvB,KAAK,CAAC,cAAc,CAAC;aACrB,GAAG,CAAC,CAAC,CAAC;aACN,QAAQ,CAAC,2BAA2B,CAAC;KACzC,CAAC;SACD,QAAQ,CAAC,eAAe,CAAC;SACzB,QAAQ,CAAC,gCAAgC,CAAC,CAC9C;SACA,GAAG,CAAC,CAAC,CAAC;SACN,QAAQ,CAAC,wBAAwB,CAAC;CACtC,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC,CAAC;AAC7B,sEAAsE;AACtE,MAAM,CAAC,MAAM,mBAAmB,GAAG,CAAC,CAAC,MAAM,CACzC,CAAC,CAAC,MAAM,EAAE,EACV,CAAC;KACE,MAAM,CAAC;IACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,oBAAoB,CAAC;IACpD,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,iBAAiB,CAAC;IACvD,SAAS,EAAE,CAAC,CAAC,KAAK,CAAC,cAAc,CAAC,CAAC,QAAQ,CAAC,oBAAoB,CAAC;CAClE,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC,CAC7B,CAAC;AACF,yFAAyF;AACzF,MAAM,CAAC,MAAM,wBAAwB,GAAG,CAAC,CAAC,MAAM,CAC9C,CAAC,CAAC,MAAM,EAAE,EACV,CAAC;KACE,MAAM,CAAC;IACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,yBAAyB,CAAC;IACzD,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;IAC7D,SAAS,EAAE,CAAC,CAAC,KAAK,CAAC,cAAc,CAAC,CAAC,QAAQ,CAAC,gDAAgD,CAAC;CAC9F,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC,CAC7B,CAAC;AACF,gFAAgF;AAChF,MAAM,CAAC,MAAM,UAAU,GAAG,CAAsB,GAAM,EAAE,EAAE,CACxD,CAAC;KACE,MAAM,CAAC;IACN,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,WAAW,EAAE,CAAC,QAAQ,CAAC,yBAAyB,CAAC;IACzE,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,4BAA4B,CAAC;IAClE,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,wBAAwB,CAAC;IAClE,OAAO,EAAE,CAAC,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,QAAQ,CAAC,uBAAuB,CAAC;CACxD,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC,CAAC;AAC/B,gCAAgC;AAChC,MAAM,CAAC,MAAM,YAAY,GAAG,CAAsB,QAAW,EAAE,EAAE,CAC/D,CAAC,CAAC,MAAM,CAAC,EAAE,QAAQ,EAAE,QAAQ,CAAC,QAAQ,CAAC,2BAA2B,CAAC,EAAE,CAAC,CAAC,QAAQ,CAAC,eAAe,CAAC,CAAC;AACnG,kCAAkC;AAClC,MAAM,CAAC,MAAM,UAAU,GAAG,CAAC,CAAC,MAAM,CAAC;IACjC,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,WAAW,EAAE,CAAC,QAAQ,CAAC,yBAAyB,CAAC;IACzE,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,CAAC,WAAW,EAAE,CAAC,QAAQ,CAAC,gCAAgC,CAAC;IACnF,KAAK,EAAE,CAAC;SACL,MAAM,EAAE;SACR,GAAG,EAAE;SACL,QAAQ,EAAE;SACV,QAAQ,CAAC,yDAAyD,CAAC;IACtE,OAAO,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC,QAAQ,CAAC,2CAA2C,CAAC;IAC1E,UAAU,EAAE,CAAC;SACV,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CAAC,wDAAwD,CAAC;CACtE,CAAC,CAAC"}
|
|
@@ -0,0 +1,116 @@
|
|
|
1
|
+
/**
|
|
2
|
+
* @fileoverview PDB identifier grammar and lossless structure match schemas.
|
|
3
|
+
* @module services/interpro/structure-schemas
|
|
4
|
+
*/
|
|
5
|
+
import { z } from '@cyanheads/mcp-ts-core';
|
|
6
|
+
/** Classic four-character PDB IDs; InterPro answers extended `pdb_0000…` IDs with 404. */
|
|
7
|
+
export declare const PDB_ID_PATTERN: RegExp;
|
|
8
|
+
/** Chain IDs as InterPro lists them: case-sensitive, one to four letters or digits. */
|
|
9
|
+
export declare const CHAIN_PATTERN: RegExp;
|
|
10
|
+
/** Caller-supplied PDB ID, matched case-insensitively and sent lowercase. */
|
|
11
|
+
export declare const PdbIdSchema: z.ZodString;
|
|
12
|
+
/** Caller-supplied chain ID, compared exactly against the structure's protein chains. */
|
|
13
|
+
export declare const ChainSchema: z.ZodString;
|
|
14
|
+
/** Whether an upstream value is exactly a chain ID, the only form server-written text names it in. */
|
|
15
|
+
export declare const isChain: (value: unknown) => value is string;
|
|
16
|
+
/** Structure detail metadata: `chains` lists protein chains only; other fields are retained. */
|
|
17
|
+
export declare const StructureMetadataSchema: z.ZodObject<{
|
|
18
|
+
accession: z.ZodString;
|
|
19
|
+
source_database: z.ZodString;
|
|
20
|
+
chains: z.ZodArray<z.ZodString>;
|
|
21
|
+
}, z.core.$catchall<z.ZodJSONSchema>>;
|
|
22
|
+
/**
|
|
23
|
+
* One upstream chain record of a structure match. `entry_structure_locations` fragments carry
|
|
24
|
+
* 1-based chain `start`/`end` beside author `auth_start`/`auth_end`, which may be null; the
|
|
25
|
+
* UniProt `protein`, its residue maps, and both protein-side location arrays may be null or empty.
|
|
26
|
+
*/
|
|
27
|
+
export declare const StructureRecordSchema: z.ZodObject<{
|
|
28
|
+
accession: z.ZodString;
|
|
29
|
+
chain: z.ZodString;
|
|
30
|
+
protein: z.ZodNullable<z.ZodString>;
|
|
31
|
+
entry_structure_locations: z.ZodArray<z.ZodObject<{
|
|
32
|
+
fragments: z.ZodArray<z.ZodObject<{
|
|
33
|
+
start: z.ZodNumber;
|
|
34
|
+
end: z.ZodNumber;
|
|
35
|
+
'dc-status': z.ZodOptional<z.ZodString>;
|
|
36
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
37
|
+
representative: z.ZodOptional<z.ZodNullable<z.ZodBoolean>>;
|
|
38
|
+
model: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
39
|
+
score: z.ZodOptional<z.ZodNullable<z.ZodNumber>>;
|
|
40
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
41
|
+
entry_protein_locations: z.ZodOptional<z.ZodNullable<z.ZodArray<z.ZodObject<{
|
|
42
|
+
fragments: z.ZodArray<z.ZodObject<{
|
|
43
|
+
start: z.ZodNumber;
|
|
44
|
+
end: z.ZodNumber;
|
|
45
|
+
'dc-status': z.ZodOptional<z.ZodString>;
|
|
46
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
47
|
+
representative: z.ZodOptional<z.ZodNullable<z.ZodBoolean>>;
|
|
48
|
+
model: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
49
|
+
score: z.ZodOptional<z.ZodNullable<z.ZodNumber>>;
|
|
50
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>>>;
|
|
51
|
+
structure_protein_locations: z.ZodOptional<z.ZodNullable<z.ZodArray<z.ZodObject<{
|
|
52
|
+
fragments: z.ZodArray<z.ZodObject<{
|
|
53
|
+
start: z.ZodNumber;
|
|
54
|
+
end: z.ZodNumber;
|
|
55
|
+
'dc-status': z.ZodOptional<z.ZodString>;
|
|
56
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
57
|
+
representative: z.ZodOptional<z.ZodNullable<z.ZodBoolean>>;
|
|
58
|
+
model: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
59
|
+
score: z.ZodOptional<z.ZodNullable<z.ZodNumber>>;
|
|
60
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>>>;
|
|
61
|
+
}, z.core.$catchall<z.ZodJSONSchema>>;
|
|
62
|
+
/** Upstream structure match row: entry metadata plus at most 20 nested chain records. */
|
|
63
|
+
export declare const StructureMatchSchema: z.ZodObject<{
|
|
64
|
+
metadata: z.ZodObject<{
|
|
65
|
+
accession: z.ZodString;
|
|
66
|
+
source_database: z.ZodString;
|
|
67
|
+
name: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
68
|
+
type: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
69
|
+
integrated: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
70
|
+
member_databases: z.ZodOptional<z.ZodNullable<z.ZodRecord<z.ZodString, z.ZodRecord<z.ZodString, z.ZodString>>>>;
|
|
71
|
+
go_terms: z.ZodOptional<z.ZodNullable<z.ZodArray<z.ZodObject<{
|
|
72
|
+
identifier: z.ZodString;
|
|
73
|
+
name: z.ZodString;
|
|
74
|
+
category: z.ZodObject<{
|
|
75
|
+
code: z.ZodString;
|
|
76
|
+
name: z.ZodString;
|
|
77
|
+
}, z.core.$catchall<z.ZodJSONSchema>>;
|
|
78
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>>>;
|
|
79
|
+
}, z.core.$catchall<z.ZodJSONSchema>>;
|
|
80
|
+
structures: z.ZodArray<z.ZodObject<{
|
|
81
|
+
accession: z.ZodString;
|
|
82
|
+
chain: z.ZodString;
|
|
83
|
+
protein: z.ZodNullable<z.ZodString>;
|
|
84
|
+
entry_structure_locations: z.ZodArray<z.ZodObject<{
|
|
85
|
+
fragments: z.ZodArray<z.ZodObject<{
|
|
86
|
+
start: z.ZodNumber;
|
|
87
|
+
end: z.ZodNumber;
|
|
88
|
+
'dc-status': z.ZodOptional<z.ZodString>;
|
|
89
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
90
|
+
representative: z.ZodOptional<z.ZodNullable<z.ZodBoolean>>;
|
|
91
|
+
model: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
92
|
+
score: z.ZodOptional<z.ZodNullable<z.ZodNumber>>;
|
|
93
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
94
|
+
entry_protein_locations: z.ZodOptional<z.ZodNullable<z.ZodArray<z.ZodObject<{
|
|
95
|
+
fragments: z.ZodArray<z.ZodObject<{
|
|
96
|
+
start: z.ZodNumber;
|
|
97
|
+
end: z.ZodNumber;
|
|
98
|
+
'dc-status': z.ZodOptional<z.ZodString>;
|
|
99
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
100
|
+
representative: z.ZodOptional<z.ZodNullable<z.ZodBoolean>>;
|
|
101
|
+
model: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
102
|
+
score: z.ZodOptional<z.ZodNullable<z.ZodNumber>>;
|
|
103
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>>>;
|
|
104
|
+
structure_protein_locations: z.ZodOptional<z.ZodNullable<z.ZodArray<z.ZodObject<{
|
|
105
|
+
fragments: z.ZodArray<z.ZodObject<{
|
|
106
|
+
start: z.ZodNumber;
|
|
107
|
+
end: z.ZodNumber;
|
|
108
|
+
'dc-status': z.ZodOptional<z.ZodString>;
|
|
109
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
110
|
+
representative: z.ZodOptional<z.ZodNullable<z.ZodBoolean>>;
|
|
111
|
+
model: z.ZodOptional<z.ZodNullable<z.ZodString>>;
|
|
112
|
+
score: z.ZodOptional<z.ZodNullable<z.ZodNumber>>;
|
|
113
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>>>;
|
|
114
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
115
|
+
}, z.core.$catchall<z.ZodJSONSchema>>;
|
|
116
|
+
//# sourceMappingURL=structure-schemas.d.ts.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"structure-schemas.d.ts","sourceRoot":"","sources":["../../../src/services/interpro/structure-schemas.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAG3C,0FAA0F;AAC1F,eAAO,MAAM,cAAc,QAA0B,CAAC;AACtD,uFAAuF;AACvF,eAAO,MAAM,aAAa,QAAuB,CAAC;AAClD,6EAA6E;AAC7E,eAAO,MAAM,WAAW,aAOrB,CAAC;AACJ,yFAAyF;AACzF,eAAO,MAAM,WAAW,aAKkD,CAAC;AAC3E,sGAAsG;AACtG,eAAO,MAAM,OAAO,UAAW,OAAO,KAAG,KAAK,IAAI,MACM,CAAC;AACzD,gGAAgG;AAChG,eAAO,MAAM,uBAAuB;;;;qCASgB,CAAC;AACrD;;;;GAIG;AACH,eAAO,MAAM,qBAAqB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;qCA2BY,CAAC;AAC/C,yFAAyF;AACzF,eAAO,MAAM,oBAAoB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;qCAKL,CAAC"}
|
|
@@ -0,0 +1,74 @@
|
|
|
1
|
+
/**
|
|
2
|
+
* @fileoverview PDB identifier grammar and lossless structure match schemas.
|
|
3
|
+
* @module services/interpro/structure-schemas
|
|
4
|
+
*/
|
|
5
|
+
import { z } from '@cyanheads/mcp-ts-core';
|
|
6
|
+
import { EntrySummarySchema, JsonValueSchema, LocationSchema } from './schemas.js';
|
|
7
|
+
/** Classic four-character PDB IDs; InterPro answers extended `pdb_0000…` IDs with 404. */
|
|
8
|
+
export const PDB_ID_PATTERN = /^[0-9][A-Za-z0-9]{3}$/;
|
|
9
|
+
/** Chain IDs as InterPro lists them: case-sensitive, one to four letters or digits. */
|
|
10
|
+
export const CHAIN_PATTERN = /^[A-Za-z0-9]{1,4}$/;
|
|
11
|
+
/** Caller-supplied PDB ID, matched case-insensitively and sent lowercase. */
|
|
12
|
+
export const PdbIdSchema = z
|
|
13
|
+
.string()
|
|
14
|
+
.trim()
|
|
15
|
+
.max(4)
|
|
16
|
+
.regex(PDB_ID_PATTERN, 'Expected a four-character PDB ID such as 1tsr.')
|
|
17
|
+
.describe('Four-character PDB ID such as 1tsr; case-insensitive. Extended pdb_0000… IDs are not supported.');
|
|
18
|
+
/** Caller-supplied chain ID, compared exactly against the structure's protein chains. */
|
|
19
|
+
export const ChainSchema = z
|
|
20
|
+
.string()
|
|
21
|
+
.trim()
|
|
22
|
+
.max(4)
|
|
23
|
+
.regex(CHAIN_PATTERN, 'Expected a chain ID of one to four letters or digits.')
|
|
24
|
+
.describe('Case-sensitive PDB chain ID, one to four letters or digits.');
|
|
25
|
+
/** Whether an upstream value is exactly a chain ID, the only form server-written text names it in. */
|
|
26
|
+
export const isChain = (value) => typeof value === 'string' && CHAIN_PATTERN.test(value);
|
|
27
|
+
/** Structure detail metadata: `chains` lists protein chains only; other fields are retained. */
|
|
28
|
+
export const StructureMetadataSchema = z
|
|
29
|
+
.object({
|
|
30
|
+
accession: z.string().describe('Lowercase PDB ID.'),
|
|
31
|
+
source_database: z.string().describe('Structure source database.'),
|
|
32
|
+
chains: z
|
|
33
|
+
.array(z.string().describe('Protein chain ID.'))
|
|
34
|
+
.describe('Protein chain IDs; nucleic-acid chains are not listed.'),
|
|
35
|
+
})
|
|
36
|
+
.catchall(JsonValueSchema)
|
|
37
|
+
.describe('Complete upstream structure metadata.');
|
|
38
|
+
/**
|
|
39
|
+
* One upstream chain record of a structure match. `entry_structure_locations` fragments carry
|
|
40
|
+
* 1-based chain `start`/`end` beside author `auth_start`/`auth_end`, which may be null; the
|
|
41
|
+
* UniProt `protein`, its residue maps, and both protein-side location arrays may be null or empty.
|
|
42
|
+
*/
|
|
43
|
+
export const StructureRecordSchema = z
|
|
44
|
+
.object({
|
|
45
|
+
accession: z.string().describe('Lowercase PDB ID.'),
|
|
46
|
+
chain: z.string().describe('Case-sensitive chain ID.'),
|
|
47
|
+
protein: z
|
|
48
|
+
.string()
|
|
49
|
+
.nullable()
|
|
50
|
+
.describe('Lowercase UniProt accession mapped to the chain; null when unmapped.'),
|
|
51
|
+
entry_structure_locations: z
|
|
52
|
+
.array(LocationSchema)
|
|
53
|
+
.describe('Match locations in chain numbering: start/end are 1-based chain positions; auth_start/auth_end are author residue numbers, possibly null.'),
|
|
54
|
+
entry_protein_locations: z
|
|
55
|
+
.array(LocationSchema)
|
|
56
|
+
.nullable()
|
|
57
|
+
.optional()
|
|
58
|
+
.describe('Match locations in UniProt numbering; null or empty without a usable mapping.'),
|
|
59
|
+
structure_protein_locations: z
|
|
60
|
+
.array(LocationSchema)
|
|
61
|
+
.nullable()
|
|
62
|
+
.optional()
|
|
63
|
+
.describe('Chain-to-UniProt residue maps: start/end in chain numbering, protein_start/protein_end in UniProt numbering.'),
|
|
64
|
+
})
|
|
65
|
+
.catchall(JsonValueSchema)
|
|
66
|
+
.describe('Complete upstream chain record.');
|
|
67
|
+
/** Upstream structure match row: entry metadata plus at most 20 nested chain records. */
|
|
68
|
+
export const StructureMatchSchema = z
|
|
69
|
+
.object({
|
|
70
|
+
metadata: EntrySummarySchema.describe('Entry metadata.'),
|
|
71
|
+
structures: z.array(StructureRecordSchema).describe('Nested chain records.'),
|
|
72
|
+
})
|
|
73
|
+
.catchall(JsonValueSchema);
|
|
74
|
+
//# sourceMappingURL=structure-schemas.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"structure-schemas.js","sourceRoot":"","sources":["../../../src/services/interpro/structure-schemas.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC3C,OAAO,EAAE,kBAAkB,EAAE,eAAe,EAAE,cAAc,EAAE,MAAM,cAAc,CAAC;AAEnF,0FAA0F;AAC1F,MAAM,CAAC,MAAM,cAAc,GAAG,uBAAuB,CAAC;AACtD,uFAAuF;AACvF,MAAM,CAAC,MAAM,aAAa,GAAG,oBAAoB,CAAC;AAClD,6EAA6E;AAC7E,MAAM,CAAC,MAAM,WAAW,GAAG,CAAC;KACzB,MAAM,EAAE;KACR,IAAI,EAAE;KACN,GAAG,CAAC,CAAC,CAAC;KACN,KAAK,CAAC,cAAc,EAAE,gDAAgD,CAAC;KACvE,QAAQ,CACP,iGAAiG,CAClG,CAAC;AACJ,yFAAyF;AACzF,MAAM,CAAC,MAAM,WAAW,GAAG,CAAC;KACzB,MAAM,EAAE;KACR,IAAI,EAAE;KACN,GAAG,CAAC,CAAC,CAAC;KACN,KAAK,CAAC,aAAa,EAAE,uDAAuD,CAAC;KAC7E,QAAQ,CAAC,6DAA6D,CAAC,CAAC;AAC3E,sGAAsG;AACtG,MAAM,CAAC,MAAM,OAAO,GAAG,CAAC,KAAc,EAAmB,EAAE,CACzD,OAAO,KAAK,KAAK,QAAQ,IAAI,aAAa,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC;AACzD,gGAAgG;AAChG,MAAM,CAAC,MAAM,uBAAuB,GAAG,CAAC;KACrC,MAAM,CAAC;IACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,mBAAmB,CAAC;IACnD,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,4BAA4B,CAAC;IAClE,MAAM,EAAE,CAAC;SACN,KAAK,CAAC,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,mBAAmB,CAAC,CAAC;SAC/C,QAAQ,CAAC,wDAAwD,CAAC;CACtE,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC;KACzB,QAAQ,CAAC,uCAAuC,CAAC,CAAC;AACrD;;;;GAIG;AACH,MAAM,CAAC,MAAM,qBAAqB,GAAG,CAAC;KACnC,MAAM,CAAC;IACN,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,mBAAmB,CAAC;IACnD,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;IACtD,OAAO,EAAE,CAAC;SACP,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CAAC,sEAAsE,CAAC;IACnF,yBAAyB,EAAE,CAAC;SACzB,KAAK,CAAC,cAAc,CAAC;SACrB,QAAQ,CACP,2IAA2I,CAC5I;IACH,uBAAuB,EAAE,CAAC;SACvB,KAAK,CAAC,cAAc,CAAC;SACrB,QAAQ,EAAE;SACV,QAAQ,EAAE;SACV,QAAQ,CAAC,+EAA+E,CAAC;IAC5F,2BAA2B,EAAE,CAAC;SAC3B,KAAK,CAAC,cAAc,CAAC;SACrB,QAAQ,EAAE;SACV,QAAQ,EAAE;SACV,QAAQ,CACP,8GAA8G,CAC/G;CACJ,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC;KACzB,QAAQ,CAAC,iCAAiC,CAAC,CAAC;AAC/C,yFAAyF;AACzF,MAAM,CAAC,MAAM,oBAAoB,GAAG,CAAC;KAClC,MAAM,CAAC;IACN,QAAQ,EAAE,kBAAkB,CAAC,QAAQ,CAAC,iBAAiB,CAAC;IACxD,UAAU,EAAE,CAAC,CAAC,KAAK,CAAC,qBAAqB,CAAC,CAAC,QAAQ,CAAC,uBAAuB,CAAC;CAC7E,CAAC;KACD,QAAQ,CAAC,eAAe,CAAC,CAAC"}
|
|
@@ -0,0 +1,94 @@
|
|
|
1
|
+
/**
|
|
2
|
+
* @fileoverview Output schema and budget-bounded segments of whole match records shared by the
|
|
3
|
+
* scan and scan-result tools, with cursors scoped to the sequence MD5 or the job ID.
|
|
4
|
+
* @module services/sequence-scan/scan-output
|
|
5
|
+
*/
|
|
6
|
+
import { z } from '@cyanheads/mcp-ts-core';
|
|
7
|
+
import type { ScanOutcome } from './sequence-scan-service.js';
|
|
8
|
+
declare const PositionSchema: z.ZodObject<{
|
|
9
|
+
offset: z.ZodNumber;
|
|
10
|
+
total: z.ZodNumber;
|
|
11
|
+
}, z.core.$strict>;
|
|
12
|
+
type Position = z.infer<typeof PositionSchema>;
|
|
13
|
+
/** Output fields both tools return. */
|
|
14
|
+
export declare const ScanOutputSchema: z.ZodObject<{
|
|
15
|
+
source: z.ZodEnum<{
|
|
16
|
+
interproscan: "interproscan";
|
|
17
|
+
precalculated: "precalculated";
|
|
18
|
+
}>;
|
|
19
|
+
status: z.ZodEnum<{
|
|
20
|
+
finished: "finished";
|
|
21
|
+
queued: "queued";
|
|
22
|
+
running: "running";
|
|
23
|
+
submitted: "submitted";
|
|
24
|
+
}>;
|
|
25
|
+
jobId: z.ZodOptional<z.ZodString>;
|
|
26
|
+
md5: z.ZodOptional<z.ZodString>;
|
|
27
|
+
length: z.ZodOptional<z.ZodNumber>;
|
|
28
|
+
interproVersion: z.ZodOptional<z.ZodString>;
|
|
29
|
+
interproscanVersion: z.ZodOptional<z.ZodString>;
|
|
30
|
+
matches: z.ZodOptional<z.ZodArray<z.ZodObject<{
|
|
31
|
+
signature: z.ZodObject<{
|
|
32
|
+
accession: z.ZodString;
|
|
33
|
+
signatureLibraryRelease: z.ZodObject<{
|
|
34
|
+
library: z.ZodString;
|
|
35
|
+
version: z.ZodString;
|
|
36
|
+
}, z.core.$catchall<z.ZodJSONSchema>>;
|
|
37
|
+
entry: z.ZodOptional<z.ZodNullable<z.ZodObject<{
|
|
38
|
+
accession: z.ZodString;
|
|
39
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>>;
|
|
40
|
+
}, z.core.$catchall<z.ZodJSONSchema>>;
|
|
41
|
+
'model-ac': z.ZodNullable<z.ZodString>;
|
|
42
|
+
source: z.ZodString;
|
|
43
|
+
locations: z.ZodArray<z.ZodObject<{
|
|
44
|
+
start: z.ZodNumber;
|
|
45
|
+
end: z.ZodNumber;
|
|
46
|
+
'location-fragments': z.ZodArray<z.ZodObject<{
|
|
47
|
+
start: z.ZodNumber;
|
|
48
|
+
end: z.ZodNumber;
|
|
49
|
+
'dc-status': z.ZodString;
|
|
50
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
51
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>;
|
|
52
|
+
}, z.core.$catchall<z.ZodJSONSchema>>>>;
|
|
53
|
+
coverage: z.ZodOptional<z.ZodObject<{
|
|
54
|
+
totalMatches: z.ZodNumber;
|
|
55
|
+
offset: z.ZodNumber;
|
|
56
|
+
returnedMatches: z.ZodNumber;
|
|
57
|
+
hasMore: z.ZodBoolean;
|
|
58
|
+
nextCursor: z.ZodOptional<z.ZodString>;
|
|
59
|
+
}, z.core.$strip>>;
|
|
60
|
+
sourceUrl: z.ZodString;
|
|
61
|
+
}, z.core.$strip>;
|
|
62
|
+
export type ScanOutput = z.infer<typeof ScanOutputSchema>;
|
|
63
|
+
/** Enrichment fields both tools declare. */
|
|
64
|
+
export declare const ScanEnrichment: {
|
|
65
|
+
notice: z.ZodOptional<z.ZodString>;
|
|
66
|
+
totalCount: z.ZodOptional<z.ZodNumber>;
|
|
67
|
+
truncated: z.ZodOptional<z.ZodBoolean>;
|
|
68
|
+
shown: z.ZodOptional<z.ZodNumber>;
|
|
69
|
+
};
|
|
70
|
+
/** Decode a continuation for the given target before any upstream request. */
|
|
71
|
+
export declare function decodeScanCursor(cursor: string | undefined, target: {
|
|
72
|
+
readonly md5: string;
|
|
73
|
+
} | {
|
|
74
|
+
readonly jobId: string;
|
|
75
|
+
}): Position | undefined;
|
|
76
|
+
interface Enrich {
|
|
77
|
+
notice(text: string): void;
|
|
78
|
+
total(count: number): void;
|
|
79
|
+
truncated(details: {
|
|
80
|
+
shown: number;
|
|
81
|
+
}): void;
|
|
82
|
+
}
|
|
83
|
+
/**
|
|
84
|
+
* Build one segment of a finished result, or the pending output, and the notices that go with
|
|
85
|
+
* it. `continuation` names the call that reads the next segment, as the agent should make it.
|
|
86
|
+
*/
|
|
87
|
+
export declare function buildScanOutput(enrich: Enrich, state: ScanOutcome, options: {
|
|
88
|
+
readonly md5?: string;
|
|
89
|
+
readonly length?: number;
|
|
90
|
+
readonly start?: Position;
|
|
91
|
+
readonly continuation: (cursor: string) => string;
|
|
92
|
+
}): ScanOutput;
|
|
93
|
+
export {};
|
|
94
|
+
//# sourceMappingURL=scan-output.d.ts.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"scan-output.d.ts","sourceRoot":"","sources":["../../../src/services/sequence-scan/scan-output.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AACH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAS3C,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,4BAA4B,CAAC;AAI9D,QAAA,MAAM,cAAc;;;kBAET,CAAC;AACZ,KAAK,QAAQ,GAAG,CAAC,CAAC,KAAK,CAAC,OAAO,cAAc,CAAC,CAAC;AAE/C,uCAAuC;AACvC,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;iBAiD3B,CAAC;AACH,MAAM,MAAM,UAAU,GAAG,CAAC,CAAC,KAAK,CAAC,OAAO,gBAAgB,CAAC,CAAC;AAE1D,4CAA4C;AAC5C,eAAO,MAAM,cAAc;IACzB,MAAM;IACN,UAAU;IACV,SAAS;IACT,KAAK;CACN,CAAC;AAOF,8EAA8E;AAC9E,wBAAgB,gBAAgB,CAC9B,MAAM,EAAE,MAAM,GAAG,SAAS,EAC1B,MAAM,EAAE;IAAE,QAAQ,CAAC,GAAG,EAAE,MAAM,CAAA;CAAE,GAAG;IAAE,QAAQ,CAAC,KAAK,EAAE,MAAM,CAAA;CAAE,GAC5D,QAAQ,GAAG,SAAS,CAItB;AAsBD,UAAU,MAAM;IACd,MAAM,CAAC,IAAI,EAAE,MAAM,GAAG,IAAI,CAAC;IAC3B,KAAK,CAAC,KAAK,EAAE,MAAM,GAAG,IAAI,CAAC;IAC3B,SAAS,CAAC,OAAO,EAAE;QAAE,KAAK,EAAE,MAAM,CAAA;KAAE,GAAG,IAAI,CAAC;CAC7C;AAED;;;GAGG;AACH,wBAAgB,eAAe,CAC7B,MAAM,EAAE,MAAM,EACd,KAAK,EAAE,WAAW,EAClB,OAAO,EAAE;IACP,QAAQ,CAAC,GAAG,CAAC,EAAE,MAAM,CAAC;IACtB,QAAQ,CAAC,MAAM,CAAC,EAAE,MAAM,CAAC;IACzB,QAAQ,CAAC,KAAK,CAAC,EAAE,QAAQ,CAAC;IAC1B,QAAQ,CAAC,YAAY,EAAE,CAAC,MAAM,EAAE,MAAM,KAAK,MAAM,CAAC;CACnD,GACA,UAAU,CAwFZ"}
|