@cyanheads/brapi-mcp-server 0.7.13 → 0.8.1
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 +39 -29
- package/CLAUDE.md +39 -29
- package/Dockerfile +93 -54
- package/README.md +210 -241
- package/changelog/0.8.x/0.8.0.md +48 -0
- package/changelog/0.8.x/0.8.1.md +38 -0
- package/dist/config/alias-credentials.d.ts +28 -7
- package/dist/config/alias-credentials.d.ts.map +1 -1
- package/dist/config/alias-credentials.js +91 -24
- package/dist/config/alias-credentials.js.map +1 -1
- package/dist/config/builtin-aliases.d.ts +11 -6
- package/dist/config/builtin-aliases.d.ts.map +1 -1
- package/dist/config/builtin-aliases.js +23 -37
- package/dist/config/builtin-aliases.js.map +1 -1
- package/dist/index.js +7 -6
- package/dist/index.js.map +1 -1
- package/dist/mcp-server/resources/definitions/brapi-server-info.resource.js +1 -1
- package/dist/mcp-server/resources/definitions/brapi-server-info.resource.js.map +1 -1
- package/dist/mcp-server/resources/definitions/brapi-variable.resource.d.ts.map +1 -1
- package/dist/mcp-server/resources/definitions/brapi-variable.resource.js +2 -10
- package/dist/mcp-server/resources/definitions/brapi-variable.resource.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-build-phenotype-matrix.tool.js +1 -1
- package/dist/mcp-server/tools/definitions/brapi-build-phenotype-matrix.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-connect.tool.d.ts +46 -0
- package/dist/mcp-server/tools/definitions/brapi-connect.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-connect.tool.js +65 -15
- package/dist/mcp-server/tools/definitions/brapi-connect.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-dataframe-describe.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-dataframe-describe.tool.js +1 -3
- package/dist/mcp-server/tools/definitions/brapi-dataframe-describe.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-dataframe-export.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-dataframe-export.tool.js +4 -10
- package/dist/mcp-server/tools/definitions/brapi-dataframe-export.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-dataframe-query.tool.js +1 -1
- package/dist/mcp-server/tools/definitions/brapi-dataframe-query.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-describe-filters.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-describe-filters.tool.js +8 -7
- package/dist/mcp-server/tools/definitions/brapi-describe-filters.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-export-genotype-matrix.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-export-genotype-matrix.tool.js +2 -2
- package/dist/mcp-server/tools/definitions/brapi-export-genotype-matrix.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-find-genotype-calls.tool.js +2 -2
- package/dist/mcp-server/tools/definitions/brapi-find-genotype-calls.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-germplasm-performance.tool.js +1 -5
- package/dist/mcp-server/tools/definitions/brapi-germplasm-performance.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-get-germplasm.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-get-germplasm.tool.js +2 -10
- package/dist/mcp-server/tools/definitions/brapi-get-germplasm.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-get-image.tool.js +1 -1
- package/dist/mcp-server/tools/definitions/brapi-get-image.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-get-study.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-get-study.tool.js +2 -10
- package/dist/mcp-server/tools/definitions/brapi-get-study.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-raw-get.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-raw-get.tool.js +0 -1
- package/dist/mcp-server/tools/definitions/brapi-raw-get.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-raw-search.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-raw-search.tool.js +1 -5
- package/dist/mcp-server/tools/definitions/brapi-raw-search.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-server-info.tool.d.ts +12 -0
- package/dist/mcp-server/tools/definitions/brapi-server-info.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-server-info.tool.js +1 -1
- package/dist/mcp-server/tools/definitions/brapi-server-info.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-submit-observations.tool.d.ts +5 -0
- package/dist/mcp-server/tools/definitions/brapi-submit-observations.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-submit-observations.tool.js +55 -10
- package/dist/mcp-server/tools/definitions/brapi-submit-observations.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/index.d.ts +123 -65
- package/dist/mcp-server/tools/definitions/index.d.ts.map +1 -1
- package/dist/mcp-server/tools/shared/find-helpers.d.ts +11 -5
- package/dist/mcp-server/tools/shared/find-helpers.d.ts.map +1 -1
- package/dist/mcp-server/tools/shared/find-helpers.js +24 -16
- package/dist/mcp-server/tools/shared/find-helpers.js.map +1 -1
- package/dist/mcp-server/tools/shared/orientation-envelope.d.ts +26 -0
- package/dist/mcp-server/tools/shared/orientation-envelope.d.ts.map +1 -1
- package/dist/mcp-server/tools/shared/orientation-envelope.js +75 -6
- package/dist/mcp-server/tools/shared/orientation-envelope.js.map +1 -1
- package/dist/services/brapi-client/brapi-client.d.ts.map +1 -1
- package/dist/services/brapi-client/brapi-client.js +29 -26
- package/dist/services/brapi-client/brapi-client.js.map +1 -1
- package/dist/services/capability-registry/capability-registry.d.ts +8 -1
- package/dist/services/capability-registry/capability-registry.d.ts.map +1 -1
- package/dist/services/capability-registry/capability-registry.js +37 -6
- package/dist/services/capability-registry/capability-registry.js.map +1 -1
- package/dist/services/reference-data-cache/reference-data-cache.d.ts.map +1 -1
- package/dist/services/reference-data-cache/reference-data-cache.js +9 -4
- package/dist/services/reference-data-cache/reference-data-cache.js.map +1 -1
- package/dist/services/server-registry/server-registry.d.ts +17 -3
- package/dist/services/server-registry/server-registry.d.ts.map +1 -1
- package/dist/services/server-registry/server-registry.js +30 -7
- package/dist/services/server-registry/server-registry.js.map +1 -1
- package/manifest.json +1 -1
- package/package.json +11 -10
- package/server.json +11 -13
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{"version":3,"file":"brapi-raw-get.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-raw-get.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AACjE,OAAO,EAAE,eAAe,EAAE,MAAM,2BAA2B,CAAC;AAC5D,OAAO,EAGL,cAAc,GACf,MAAM,kCAAkC,CAAC;AAC1C,OAAO,EAAE,eAAe,EAAE,MAAM,mCAAmC,CAAC;AACpE,OAAO,EACL,UAAU,EACV,qBAAqB,EACrB,eAAe,EACf,cAAc,EACd,qBAAqB,EACrB,2BAA2B,EAC3B,aAAa,EACb,iBAAiB,GAClB,MAAM,2BAA2B,CAAC;AACnC,OAAO,EAAE,aAAa,EAAE,MAAM,gCAAgC,CAAC;AAE/D,MAAM,gBAAgB,GAAG,CAAC;KACvB,MAAM,CAAC;IACN,WAAW,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,4CAA4C,CAAC;IAC9E,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,gBAAgB,CAAC;IAC/C,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,iDAAiD,CAAC;IAClF,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,sCAAsC,CAAC;CACxE,CAAC;KACD,WAAW,EAAE;KACb,QAAQ,EAAE;KACV,QAAQ,CAAC,qEAAqE,CAAC,CAAC;AAEnF,MAAM,YAAY,GAAG,CAAC,CAAC,MAAM,CAAC;IAC5B,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,yDAAyD,CAAC;IACrF,GAAG,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,sEAAsE,CAAC;IAChG,IAAI,EAAE,CAAC;SACJ,MAAM,EAAE;SACR,QAAQ,CAAC,2EAA2E,CAAC;IACxF,QAAQ,EAAE,CAAC;SACR,MAAM,CAAC;QACN,UAAU,EAAE,gBAAgB;KAC7B,CAAC;SACD,WAAW,EAAE;SACb,QAAQ,CAAC,0EAA0E,CAAC;IACvF,MAAM,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC,QAAQ,CAAC,iEAAiE,CAAC;IAC/F,UAAU,EAAE,CAAC;SACV,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CAAC,+DAA+D,CAAC;IAC5E,SAAS,EAAE,qBAAqB,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAClD,qNAAqN,CACtN;CACF,CAAC,CAAC;AAIH,MAAM,CAAC,MAAM,WAAW,GAAG,IAAI,CAAC,eAAe,EAAE;IAC/C,WAAW,EACT,4dAA4d;IAC9d,WAAW,EAAE,EAAE,YAAY,EAAE,IAAI,EAAE,aAAa,EAAE,IAAI,EAAE;IACxD,MAAM,EAAE;QACN;YACE,MAAM,EAAE,eAAe;YACvB,IAAI,EAAE,gBAAgB,CAAC,QAAQ;YAC/B,IAAI,EAAE,6DAA6D;YACnE,QAAQ,EACN,iHAAiH;YACnH,QAAQ,EAAE,SAAS;SACpB;QACD;YACE,MAAM,EAAE,mBAAmB;YAC3B,IAAI,EAAE,gBAAgB,CAAC,eAAe;YACtC,IAAI,EAAE,gEAAgE;YACtE,QAAQ,EACN,wFAAwF;SAC3F;KACO;IACV,KAAK,EAAE,CAAC,CAAC,MAAM,CAAC;QACd,KAAK,EAAE,UAAU;QACjB,IAAI,EAAE,CAAC;aACJ,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,QAAQ,CAAC,uEAAuE,CAAC;QACpF,MAAM,EAAE,CAAC;aACN,MAAM,CACL,CAAC,CAAC,MAAM,EAAE,EACV,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,OAAO,EAAE,EAAE,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAC3F;aACA,QAAQ,EAAE;aACV,QAAQ,CAAC,uEAAuE,CAAC;QACpF,SAAS,EAAE,cAAc;KAC1B,CAAC;IACF,MAAM,EAAE,YAAY;IAEpB,KAAK,CAAC,OAAO,CAAC,KAAK,EAAE,GAAG;QACtB,MAAM,MAAM,GAAG,cAAc,EAAE,CAAC;QAChC,MAAM,MAAM,GAAG,eAAe,EAAE,CAAC;QACjC,MAAM,MAAM,GAAG,eAAe,EAAE,CAAC;QAEjC,MAAM,UAAU,GAAG,MAAM,2BAA2B,CAAC,GAAG,EAAE,KAAK,CAAC,KAAK,CAAC,CAAC;QACvE,2EAA2E;QAC3E,4EAA4E;QAC5E,IAAI,eAAe,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC;YACrC,MAAM,GAAG,CAAC,IAAI,CAAC,mBAAmB,EAAE,sDAAsD,EAAE;gBAC1F,IAAI,EAAE,KAAK,CAAC,IAAI;aACjB,CAAC,CAAC;QACL,CAAC;QACD,MAAM,IAAI,GAAG,aAAa,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC;QACvC,MAAM,SAAS,GAAG,KAAK,CAAC,SAAS,IAAI,MAAM,CAAC,SAAS,CAAC;QACtD,uEAAuE;QACvE,yEAAyE;QACzE,yEAAyE;QACzE,MAAM,kBAAkB,GACtB,KAAK,CAAC,MAAM,EAAE,IAAI,KAAK,SAAS,IAAI,KAAK,CAAC,MAAM,EAAE,QAAQ,KAAK,SAAS,CAAC;QAC3E,MAAM,MAAM,GAA4B,EAAE,GAAG,CAAC,KAAK,CAAC,MAAM,IAAI,EAAE,CAAC,EAAE,CAAC;QACpE,IAAI,CAAC,kBAAkB;YAAE,MAAM,CAAC,QAAQ,GAAG,SAAS,CAAC;QAErD,MAAM,cAAc,GAAwB,EAAE,CAAC;QAC/C,IAAI,UAAU,CAAC,YAAY;YAAE,cAAc,CAAC,IAAI,GAAG,UAAU,CAAC,YAAY,CAAC;QAC3E,cAAc,CAAC,MAAM,GAAG,MAAoD,CAAC;QAC7E,MAAM,QAAQ,GAAG,MAAM,MAAM,CAAC,GAAG,CAAU,UAAU,CAAC,OAAO,EAAE,IAAI,EAAE,GAAG,EAAE,cAAc,CAAC,CAAC;QAE1F,MAAM,GAAG,GAAG,eAAe,CAAC,UAAU,CAAC,OAAO,EAAE,IAAI,EAAE,KAAK,CAAC,MAAM,CAAC,CAAC;QACpE,MAAM,MAAM,GAAW;YACrB,KAAK,EAAE,UAAU,CAAC,KAAK;YACvB,GAAG;YACH,IAAI;YACJ,QAAQ,EAAE,aAAa,CAAC,QAAQ,CAAC,QAAQ,CAAC;YAC1C,MAAM,EAAE,QAAQ,CAAC,MAAM;SACxB,CAAC;QACF,MAAM,UAAU,GAAG,aAAa,CAAC,IAAI,CAAC,CAAC;QACvC,IAAI,UAAU;YAAE,MAAM,CAAC,UAAU,GAAG,UAAU,CAAC;QAE/C,IAAI,CAAC,kBAAkB,EAAE,CAAC;YACxB,MAAM,UAAU,GAAG,QAAQ,CAAC,QAAQ,EAAE,UAAU,EAAE,UAAU,CAAC;YAC7D,MAAM,IAAI,GAAG,eAAe,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC;YAC9C,IACE,IAAI,KAAK,IAAI;gBACb,IAAI,CAAC,MAAM,GAAG,CAAC;gBACf,OAAO,UAAU,KAAK,QAAQ;gBAC9B,UAAU,GAAG,SAAS,EACtB,CAAC;gBACD,MAAM,KAAK,GAAG,MAAM,aAAa,CAAC;oBAChC,MAAM;oBACN,MAAM;oBACN,UAAU;oBACV,GAAG;oBACH,SAAS,EAAE,IAAI;oBACf,UAAU;oBACV,SAAS;oBACT,IAAI;oBACJ,OAAO,EAAE,CAAC,KAAK,CAAC,MAAM,IAAI,EAAE,CAA4B;oBACxD,MAAM,EAAE,SAAS;iBAClB,CAAC,CAAC;gBACH,MAAM,CAAC,SAAS,GAAG,iBAAiB,CAAC,KAAK,CAAC,SAAS,CAAC,CAAC;YACxD,CAAC;QACH,CAAC;QACD,OAAO,MAAM,CAAC;IAChB,CAAC;IAED,MAAM,EAAE,CAAC,MAAM,EAAE,EAAE;QACjB,MAAM,KAAK,GAAa,EAAE,CAAC;QAC3B,KAAK,CAAC,IAAI,CAAC,SAAS,MAAM,CAAC,IAAI,QAAQ,MAAM,CAAC,KAAK,IAAI,CAAC,CAAC;QACzD,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACf,KAAK,CAAC,IAAI,CAAC,QAAQ,MAAM,CAAC,GAAG,EAAE,CAAC,CAAC;QACjC,MAAM,UAAU,GAAG,MAAM,CAAC,QAAQ,CAAC,UAAU,CAAC;QAC9C,IAAI,UAAU,EAAE,CAAC;YACf,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;YACf,KAAK,CAAC,IAAI,CACR,wBAAwB,UAAU,CAAC,WAAW,OAAO,UAAU,CAAC,UAAU,cAAc,UAAU,CAAC,QAAQ,gBAAgB,UAAU,CAAC,UAAU,EAAE,CACnJ,CAAC;QACJ,CAAC;QACD,IAAI,MAAM,CAAC,UAAU,EAAE,CAAC;YACtB,KAAK,CAAC,IAAI,CAAC,EAAE,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@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"brapi-raw-search.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-raw-search.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA6DjE,eAAO,MAAM,cAAc;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;qBAMb,eAAe;;mBAEjB,6DAA6D;uBAEjE,oHAAoH;uBAC5G,SAAS;;qBAGX,0BAA0B;;mBAE5B,yFAAyF;uBAE7F,qHAAqH;
|
|
1
|
+
{"version":3,"file":"brapi-raw-search.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-raw-search.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA6DjE,eAAO,MAAM,cAAc;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;qBAMb,eAAe;;mBAEjB,6DAA6D;uBAEjE,oHAAoH;uBAC5G,SAAS;;qBAGX,0BAA0B;;mBAE5B,yFAAyF;uBAE7F,qHAAqH;cA8I3H,CAAC"}
|
|
@@ -93,11 +93,7 @@ export const brapiRawSearch = tool('brapi_raw_search', {
|
|
|
93
93
|
const dialect = await resolveDialect(connection, ctx, requestOptions);
|
|
94
94
|
if (dialect.disabledSearchEndpoints?.has(input.noun)) {
|
|
95
95
|
const nudge = suggestForSearch(input.noun);
|
|
96
|
-
throw ctx.fail('search_endpoint_disabled', `Dialect '${dialect.id}' marks POST /search/${input.noun} as known-dead on this server (advertised in /calls but unresponsive in practice).${nudge ? ` ${nudge}` : ''}`, {
|
|
97
|
-
dialectId: dialect.id,
|
|
98
|
-
noun: input.noun,
|
|
99
|
-
...ctx.recoveryFor('search_endpoint_disabled'),
|
|
100
|
-
});
|
|
96
|
+
throw ctx.fail('search_endpoint_disabled', `Dialect '${dialect.id}' marks POST /search/${input.noun} as known-dead on this server (advertised in /calls but unresponsive in practice).${nudge ? ` ${nudge}` : ''}`, { dialectId: dialect.id, noun: input.noun });
|
|
101
97
|
}
|
|
102
98
|
const loadLimit = input.loadLimit ?? config.loadLimit;
|
|
103
99
|
const userControlsPaging = input.body.page !== undefined || input.body.pageSize !== undefined;
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"brapi-raw-search.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-raw-search.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AACjE,OAAO,EAAE,eAAe,EAAE,MAAM,2BAA2B,CAAC;AAC5D,OAAO,EAGL,cAAc,GACf,MAAM,kCAAkC,CAAC;AAC1C,OAAO,EAAE,cAAc,EAAE,MAAM,mCAAmC,CAAC;AACnE,OAAO,EAAE,eAAe,EAAE,MAAM,mCAAmC,CAAC;AACpE,OAAO,EACL,UAAU,EACV,mBAAmB,EACnB,qBAAqB,EACrB,eAAe,EACf,cAAc,EACd,qBAAqB,EACrB,2BAA2B,EAC3B,aAAa,EACb,iBAAiB,GAClB,MAAM,2BAA2B,CAAC;AACnC,OAAO,EAAE,gBAAgB,EAAE,MAAM,gCAAgC,CAAC;AAElE,MAAM,gBAAgB,GAAG,CAAC;KACvB,MAAM,CAAC;IACN,WAAW,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,4CAA4C,CAAC;IAC9E,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,gBAAgB,CAAC;IAC/C,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,iDAAiD,CAAC;IAClF,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,sCAAsC,CAAC;CACxE,CAAC;KACD,WAAW,EAAE;KACb,QAAQ,EAAE;KACV,QAAQ,CAAC,qEAAqE,CAAC,CAAC;AAEnF,MAAM,YAAY,GAAG,CAAC,CAAC,MAAM,CAAC;IAC5B,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,yDAAyD,CAAC;IACrF,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,sDAAsD,CAAC;IACjF,IAAI,EAAE,CAAC;SACJ,IAAI,CAAC,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;SACvB,QAAQ,CAAC,0EAA0E,CAAC;IACvF,iBAAiB,EAAE,CAAC;SACjB,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CAAC,gEAAgE,CAAC;IAC7E,QAAQ,EAAE,CAAC;SACR,MAAM,CAAC;QACN,UAAU,EAAE,gBAAgB;KAC7B,CAAC;SACD,WAAW,EAAE;SACb,QAAQ,CAAC,0EAA0E,CAAC;IACvF,MAAM,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC,QAAQ,CAAC,iEAAiE,CAAC;IAC/F,UAAU,EAAE,CAAC;SACV,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CAAC,6DAA6D,CAAC;IAC1E,SAAS,EAAE,qBAAqB,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAClD,qNAAqN,CACtN;CACF,CAAC,CAAC;AAIH,MAAM,CAAC,MAAM,cAAc,GAAG,IAAI,CAAC,kBAAkB,EAAE;IACrD,WAAW,EACT,mZAAmZ;IACrZ,WAAW,EAAE,EAAE,YAAY,EAAE,IAAI,EAAE,aAAa,EAAE,IAAI,EAAE;IACxD,MAAM,EAAE;QACN;YACE,MAAM,EAAE,eAAe;YACvB,IAAI,EAAE,gBAAgB,CAAC,QAAQ;YAC/B,IAAI,EAAE,6DAA6D;YACnE,QAAQ,EACN,oHAAoH;YACtH,QAAQ,EAAE,SAAS;SACpB;QACD;YACE,MAAM,EAAE,0BAA0B;YAClC,IAAI,EAAE,gBAAgB,CAAC,eAAe;YACtC,IAAI,EAAE,yFAAyF;YAC/F,QAAQ,EACN,qHAAqH;SACxH;KACO;IACV,KAAK,EAAE,CAAC,CAAC,MAAM,CAAC;QACd,KAAK,EAAE,UAAU;QACjB,IAAI,EAAE,CAAC;aACJ,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,KAAK,CAAC,kBAAkB,CAAC;aACzB,QAAQ,CAAC,0DAA0D,CAAC;QACvE,IAAI,EAAE,CAAC;aACJ,MAAM,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC;aAC/B,QAAQ,CAAC,qDAAqD,CAAC;QAClE,SAAS,EAAE,cAAc;KAC1B,CAAC;IACF,MAAM,EAAE,YAAY;IAEpB,KAAK,CAAC,OAAO,CAAC,KAAK,EAAE,GAAG;QACtB,MAAM,MAAM,GAAG,cAAc,EAAE,CAAC;QAChC,MAAM,MAAM,GAAG,eAAe,EAAE,CAAC;QACjC,MAAM,MAAM,GAAG,eAAe,EAAE,CAAC;QAEjC,MAAM,UAAU,GAAG,MAAM,2BAA2B,CAAC,GAAG,EAAE,KAAK,CAAC,KAAK,CAAC,CAAC;QAEvE,MAAM,cAAc,GAAwB,EAAE,CAAC;QAC/C,IAAI,UAAU,CAAC,YAAY;YAAE,cAAc,CAAC,IAAI,GAAG,UAAU,CAAC,YAAY,CAAC;QAE3E,MAAM,OAAO,GAAG,MAAM,cAAc,CAAC,UAAU,EAAE,GAAG,EAAE,cAAc,CAAC,CAAC;QACtE,IAAI,OAAO,CAAC,uBAAuB,EAAE,GAAG,CAAC,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC;YACrD,MAAM,KAAK,GAAG,gBAAgB,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC;YAC3C,MAAM,GAAG,CAAC,IAAI,CACZ,0BAA0B,EAC1B,YAAY,OAAO,CAAC,EAAE,wBAAwB,KAAK,CAAC,IAAI,qFAAqF,KAAK,CAAC,CAAC,CAAC,IAAI,KAAK,EAAE,CAAC,CAAC,CAAC,EAAE,EAAE,EACvK
|
|
1
|
+
{"version":3,"file":"brapi-raw-search.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-raw-search.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AACjE,OAAO,EAAE,eAAe,EAAE,MAAM,2BAA2B,CAAC;AAC5D,OAAO,EAGL,cAAc,GACf,MAAM,kCAAkC,CAAC;AAC1C,OAAO,EAAE,cAAc,EAAE,MAAM,mCAAmC,CAAC;AACnE,OAAO,EAAE,eAAe,EAAE,MAAM,mCAAmC,CAAC;AACpE,OAAO,EACL,UAAU,EACV,mBAAmB,EACnB,qBAAqB,EACrB,eAAe,EACf,cAAc,EACd,qBAAqB,EACrB,2BAA2B,EAC3B,aAAa,EACb,iBAAiB,GAClB,MAAM,2BAA2B,CAAC;AACnC,OAAO,EAAE,gBAAgB,EAAE,MAAM,gCAAgC,CAAC;AAElE,MAAM,gBAAgB,GAAG,CAAC;KACvB,MAAM,CAAC;IACN,WAAW,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,4CAA4C,CAAC;IAC9E,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,gBAAgB,CAAC;IAC/C,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,iDAAiD,CAAC;IAClF,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,sCAAsC,CAAC;CACxE,CAAC;KACD,WAAW,EAAE;KACb,QAAQ,EAAE;KACV,QAAQ,CAAC,qEAAqE,CAAC,CAAC;AAEnF,MAAM,YAAY,GAAG,CAAC,CAAC,MAAM,CAAC;IAC5B,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,yDAAyD,CAAC;IACrF,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,sDAAsD,CAAC;IACjF,IAAI,EAAE,CAAC;SACJ,IAAI,CAAC,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;SACvB,QAAQ,CAAC,0EAA0E,CAAC;IACvF,iBAAiB,EAAE,CAAC;SACjB,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CAAC,gEAAgE,CAAC;IAC7E,QAAQ,EAAE,CAAC;SACR,MAAM,CAAC;QACN,UAAU,EAAE,gBAAgB;KAC7B,CAAC;SACD,WAAW,EAAE;SACb,QAAQ,CAAC,0EAA0E,CAAC;IACvF,MAAM,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC,QAAQ,CAAC,iEAAiE,CAAC;IAC/F,UAAU,EAAE,CAAC;SACV,MAAM,EAAE;SACR,QAAQ,EAAE;SACV,QAAQ,CAAC,6DAA6D,CAAC;IAC1E,SAAS,EAAE,qBAAqB,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAClD,qNAAqN,CACtN;CACF,CAAC,CAAC;AAIH,MAAM,CAAC,MAAM,cAAc,GAAG,IAAI,CAAC,kBAAkB,EAAE;IACrD,WAAW,EACT,mZAAmZ;IACrZ,WAAW,EAAE,EAAE,YAAY,EAAE,IAAI,EAAE,aAAa,EAAE,IAAI,EAAE;IACxD,MAAM,EAAE;QACN;YACE,MAAM,EAAE,eAAe;YACvB,IAAI,EAAE,gBAAgB,CAAC,QAAQ;YAC/B,IAAI,EAAE,6DAA6D;YACnE,QAAQ,EACN,oHAAoH;YACtH,QAAQ,EAAE,SAAS;SACpB;QACD;YACE,MAAM,EAAE,0BAA0B;YAClC,IAAI,EAAE,gBAAgB,CAAC,eAAe;YACtC,IAAI,EAAE,yFAAyF;YAC/F,QAAQ,EACN,qHAAqH;SACxH;KACO;IACV,KAAK,EAAE,CAAC,CAAC,MAAM,CAAC;QACd,KAAK,EAAE,UAAU;QACjB,IAAI,EAAE,CAAC;aACJ,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,KAAK,CAAC,kBAAkB,CAAC;aACzB,QAAQ,CAAC,0DAA0D,CAAC;QACvE,IAAI,EAAE,CAAC;aACJ,MAAM,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC;aAC/B,QAAQ,CAAC,qDAAqD,CAAC;QAClE,SAAS,EAAE,cAAc;KAC1B,CAAC;IACF,MAAM,EAAE,YAAY;IAEpB,KAAK,CAAC,OAAO,CAAC,KAAK,EAAE,GAAG;QACtB,MAAM,MAAM,GAAG,cAAc,EAAE,CAAC;QAChC,MAAM,MAAM,GAAG,eAAe,EAAE,CAAC;QACjC,MAAM,MAAM,GAAG,eAAe,EAAE,CAAC;QAEjC,MAAM,UAAU,GAAG,MAAM,2BAA2B,CAAC,GAAG,EAAE,KAAK,CAAC,KAAK,CAAC,CAAC;QAEvE,MAAM,cAAc,GAAwB,EAAE,CAAC;QAC/C,IAAI,UAAU,CAAC,YAAY;YAAE,cAAc,CAAC,IAAI,GAAG,UAAU,CAAC,YAAY,CAAC;QAE3E,MAAM,OAAO,GAAG,MAAM,cAAc,CAAC,UAAU,EAAE,GAAG,EAAE,cAAc,CAAC,CAAC;QACtE,IAAI,OAAO,CAAC,uBAAuB,EAAE,GAAG,CAAC,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC;YACrD,MAAM,KAAK,GAAG,gBAAgB,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC;YAC3C,MAAM,GAAG,CAAC,IAAI,CACZ,0BAA0B,EAC1B,YAAY,OAAO,CAAC,EAAE,wBAAwB,KAAK,CAAC,IAAI,qFAAqF,KAAK,CAAC,CAAC,CAAC,IAAI,KAAK,EAAE,CAAC,CAAC,CAAC,EAAE,EAAE,EACvK,EAAE,SAAS,EAAE,OAAO,CAAC,EAAE,EAAE,IAAI,EAAE,KAAK,CAAC,IAAI,EAAE,CAC5C,CAAC;QACJ,CAAC;QAED,MAAM,SAAS,GAAG,KAAK,CAAC,SAAS,IAAI,MAAM,CAAC,SAAS,CAAC;QACtD,MAAM,kBAAkB,GAAG,KAAK,CAAC,IAAI,CAAC,IAAI,KAAK,SAAS,IAAI,KAAK,CAAC,IAAI,CAAC,QAAQ,KAAK,SAAS,CAAC;QAC9F,MAAM,IAAI,GAAG,kBAAkB,CAAC,CAAC,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,GAAG,KAAK,CAAC,IAAI,EAAE,QAAQ,EAAE,SAAS,EAAE,CAAC;QAEtF,MAAM,QAAQ,GAAG,MAAM,MAAM,CAAC,UAAU,CACtC,UAAU,CAAC,OAAO,EAClB,KAAK,CAAC,IAAI,EACV,IAAI,EACJ,GAAG,EACH,cAAc,CACf,CAAC;QAEF,IAAI,QAAyD,CAAC;QAC9D,IAAI,IAAsB,CAAC;QAC3B,IAAI,iBAAqC,CAAC;QAE1C,IAAI,QAAQ,CAAC,IAAI,KAAK,MAAM,EAAE,CAAC;YAC7B,QAAQ,GAAG,QAAQ,CAAC,QAAQ,CAAC;YAC7B,IAAI,GAAG,MAAM,CAAC;QAChB,CAAC;aAAM,CAAC;YACN,iBAAiB,GAAG,QAAQ,CAAC,iBAAiB,CAAC;YAC/C,QAAQ,GAAG,MAAM,MAAM,CAAC,gBAAgB,CACtC,UAAU,CAAC,OAAO,EAClB,KAAK,CAAC,IAAI,EACV,QAAQ,CAAC,iBAAiB,EAC1B,GAAG,EACH,mBAAmB,CAAC,UAAU,CAAC,CAChC,CAAC;YACF,IAAI,GAAG,OAAO,CAAC;QACjB,CAAC;QAED,MAAM,MAAM,GAAW;YACrB,KAAK,EAAE,UAAU,CAAC,KAAK;YACvB,IAAI,EAAE,KAAK,CAAC,IAAI;YAChB,IAAI;YACJ,QAAQ,EAAE,aAAa,CAAC,QAAQ,CAAC,QAAQ,CAAC;YAC1C,MAAM,EAAE,QAAQ,CAAC,MAAM;SACxB,CAAC;QACF,IAAI,iBAAiB,KAAK,SAAS;YAAE,MAAM,CAAC,iBAAiB,GAAG,iBAAiB,CAAC;QAClF,MAAM,UAAU,GAAG,gBAAgB,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC;QAChD,IAAI,UAAU;YAAE,MAAM,CAAC,UAAU,GAAG,UAAU,CAAC;QAE/C,IAAI,CAAC,kBAAkB,EAAE,CAAC;YACxB,MAAM,UAAU,GAAG,QAAQ,CAAC,QAAQ,EAAE,UAAU,EAAE,UAAU,CAAC;YAC7D,MAAM,IAAI,GAAG,eAAe,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC;YAC9C,IACE,IAAI,KAAK,IAAI;gBACb,IAAI,CAAC,MAAM,GAAG,CAAC;gBACf,OAAO,UAAU,KAAK,QAAQ;gBAC9B,UAAU,GAAG,SAAS,EACtB,CAAC;gBACD,MAAM,KAAK,GAAG,MAAM,aAAa,CAAC;oBAChC,MAAM;oBACN,MAAM;oBACN,UAAU;oBACV,GAAG;oBACH,SAAS,EAAE,IAAI;oBACf,UAAU;oBACV,SAAS;oBACT,IAAI,EAAE,WAAW,KAAK,CAAC,IAAI,EAAE;oBAC7B,OAAO,EAAE,KAAK,CAAC,IAA+B;oBAC9C,MAAM,EAAE,YAAY;oBACpB,KAAK,EAAE;wBACL,IAAI,EAAE,QAAQ;wBACd,IAAI,EAAE,KAAK,CAAC,IAAI;wBAChB,OAAO,EAAE,UAAU,KAAK,CAAC,IAAI,EAAE;wBAC/B,UAAU,EAAE,KAAK,CAAC,IAAI;qBACvB;iBACF,CAAC,CAAC;gBACH,MAAM,CAAC,SAAS,GAAG,iBAAiB,CAAC,KAAK,CAAC,SAAS,CAAC,CAAC;YACxD,CAAC;QACH,CAAC;QACD,OAAO,MAAM,CAAC;IAChB,CAAC;IAED,MAAM,EAAE,CAAC,MAAM,EAAE,EAAE;QACjB,MAAM,KAAK,GAAa,EAAE,CAAC;QAC3B,KAAK,CAAC,IAAI,CAAC,kBAAkB,MAAM,CAAC,IAAI,KAAK,MAAM,CAAC,IAAI,SAAS,MAAM,CAAC,KAAK,IAAI,CAAC,CAAC;QACnF,IAAI,MAAM,CAAC,iBAAiB,EAAE,CAAC;YAC7B,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;YACf,KAAK,CAAC,IAAI,CAAC,4BAA4B,MAAM,CAAC,iBAAiB,IAAI,CAAC,CAAC;QACvE,CAAC;QACD,MAAM,UAAU,GAAG,MAAM,CAAC,QAAQ,CAAC,UAAU,CAAC;QAC9C,IAAI,UAAU,EAAE,CAAC;YACf,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;YACf,KAAK,CAAC,IAAI,CACR,wBAAwB,UAAU,CAAC,WAAW,OAAO,UAAU,CAAC,UAAU,cAAc,UAAU,CAAC,QAAQ,gBAAgB,UAAU,CAAC,UAAU,EAAE,CACnJ,CAAC;QACJ,CAAC;QACD,IAAI,MAAM,CAAC,UAAU,EAAE,CAAC;YACtB,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;YACf,KAAK,CAAC,IAAI,CAAC,mBAAmB,MAAM,CAAC,UAAU,EAAE,CAAC,CAAC;QACrD,CAAC;QACD,IAAI,MAAM,CAAC,SAAS,EAAE,CAAC;YACrB,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;YACf,KAAK,CAAC,IAAI,CAAC,cAAc,CAAC,CAAC;YAC3B,KAAK,CAAC,IAAI,CAAC,GAAG,qBAAqB,CAAC,MAAM,CAAC,SAAS,CAAC,CAAC,CAAC;QACzD,CAAC;QACD,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACf,KAAK,CAAC,IAAI,CAAC,eAAe,CAAC,CAAC;QAC5B,KAAK,CAAC,IAAI,CAAC,SAAS,CAAC,CAAC;QACtB,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,MAAM,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAC;QACnD,KAAK,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC;QAClB,OAAO,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IACpD,CAAC;CACF,CAAC,CAAC;AAEH,SAAS,aAAa,CAAC,QAAsD;IAC3E,MAAM,UAAU,GAAG,QAAQ,EAAE,UAAU,CAAC;IACxC,IAAI,UAAU,EAAE,CAAC;QACf,OAAO,EAAE,UAAU,EAAE,EAAE,GAAG,UAAU,EAAE,EAAE,CAAC;IAC3C,CAAC;IACD,OAAO,EAAE,CAAC;AACZ,CAAC"}
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@@ -67,6 +67,18 @@ export declare const brapiServerInfo: import("@cyanheads/mcp-ts-core").ToolDefin
|
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67
67
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citation: z.ZodString;
|
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68
68
|
isDemo: z.ZodOptional<z.ZodBoolean>;
|
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69
69
|
}, z.core.$strip>>;
|
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70
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+
nextToolSuggestions: z.ZodArray<z.ZodObject<{
|
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71
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+
toolName: z.ZodEnum<{
|
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72
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+
brapi_find_germplasm: "brapi_find_germplasm";
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73
|
+
brapi_find_locations: "brapi_find_locations";
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74
|
+
brapi_find_studies: "brapi_find_studies";
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75
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+
brapi_find_variables: "brapi_find_variables";
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76
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+
}>;
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77
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+
reason: z.ZodString;
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78
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+
args: z.ZodObject<{
|
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79
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+
alias: z.ZodString;
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80
|
+
}, z.core.$strip>;
|
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81
|
+
}, z.core.$strip>>;
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70
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|
notes: z.ZodArray<z.ZodString>;
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71
83
|
fetchedAt: z.ZodString;
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72
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|
}, z.core.$strip>, readonly [{
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"brapi-server-info.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-server-info.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAUjE,eAAO,MAAM,eAAe
|
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1
|
+
{"version":3,"file":"brapi-server-info.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-server-info.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAUjE,eAAO,MAAM,eAAe;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;qBAMd,eAAe;;mBAEjB,6DAA6D;uBAEjE,qHAAqH;uBAC7G,SAAS;cAgCvB,CAAC"}
|
|
@@ -13,7 +13,7 @@ import { getCapabilityRegistry } from '../../../services/capability-registry/ind
|
|
|
13
13
|
import { requireRegisteredConnection } from '../shared/find-helpers.js';
|
|
14
14
|
import { buildOrientationEnvelope, formatOrientationEnvelope, OrientationEnvelopeSchema, } from '../shared/orientation-envelope.js';
|
|
15
15
|
export const brapiServerInfo = tool('brapi_server_info', {
|
|
16
|
-
description: 'Return the full orientation envelope for a registered BrAPI connection — server identity, capabilities, content counts, and notes. Re-running refreshes the cached capability scan; pass an alias to read a non-default connection.',
|
|
16
|
+
description: 'Return the full orientation envelope for a registered BrAPI connection — server identity, capabilities, content counts, suggested finders, and notes. Re-running refreshes the cached capability scan; pass an alias to read a non-default connection.',
|
|
17
17
|
annotations: { readOnlyHint: true, idempotentHint: true },
|
|
18
18
|
errors: [
|
|
19
19
|
{
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"brapi-server-info.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-server-info.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AACjE,OAAO,EAAE,cAAc,EAAE,MAAM,kCAAkC,CAAC;AAClE,OAAO,EAAE,qBAAqB,EAAE,MAAM,yCAAyC,CAAC;AAChF,OAAO,EAAE,2BAA2B,EAAE,MAAM,2BAA2B,CAAC;AACxE,OAAO,EACL,wBAAwB,EACxB,yBAAyB,EACzB,yBAAyB,GAC1B,MAAM,mCAAmC,CAAC;AAE3C,MAAM,CAAC,MAAM,eAAe,GAAG,IAAI,CAAC,mBAAmB,EAAE;IACvD,WAAW,EACT,
|
|
1
|
+
{"version":3,"file":"brapi-server-info.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-server-info.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AACjE,OAAO,EAAE,cAAc,EAAE,MAAM,kCAAkC,CAAC;AAClE,OAAO,EAAE,qBAAqB,EAAE,MAAM,yCAAyC,CAAC;AAChF,OAAO,EAAE,2BAA2B,EAAE,MAAM,2BAA2B,CAAC;AACxE,OAAO,EACL,wBAAwB,EACxB,yBAAyB,EACzB,yBAAyB,GAC1B,MAAM,mCAAmC,CAAC;AAE3C,MAAM,CAAC,MAAM,eAAe,GAAG,IAAI,CAAC,mBAAmB,EAAE;IACvD,WAAW,EACT,wPAAwP;IAC1P,WAAW,EAAE,EAAE,YAAY,EAAE,IAAI,EAAE,cAAc,EAAE,IAAI,EAAE;IACzD,MAAM,EAAE;QACN;YACE,MAAM,EAAE,eAAe;YACvB,IAAI,EAAE,gBAAgB,CAAC,QAAQ;YAC/B,IAAI,EAAE,6DAA6D;YACnE,QAAQ,EACN,qHAAqH;YACvH,QAAQ,EAAE,SAAS;SACpB;KACO;IACV,KAAK,EAAE,CAAC,CAAC,MAAM,CAAC;QACd,KAAK,EAAE,CAAC;aACL,MAAM,EAAE;aACR,KAAK,CAAC,kBAAkB,CAAC;aACzB,QAAQ,EAAE;aACV,QAAQ,CACP,uNAAuN,CACxN;QACH,YAAY,EAAE,CAAC;aACZ,OAAO,EAAE;aACT,OAAO,CAAC,KAAK,CAAC;aACd,QAAQ,CAAC,mEAAmE,CAAC;KACjF,CAAC;IACF,MAAM,EAAE,yBAAyB;IAEjC,KAAK,CAAC,OAAO,CAAC,KAAK,EAAE,GAAG;QACtB,MAAM,YAAY,GAAG,qBAAqB,EAAE,CAAC;QAC7C,MAAM,MAAM,GAAG,cAAc,EAAE,CAAC;QAEhC,MAAM,UAAU,GAAG,MAAM,2BAA2B,CAAC,GAAG,EAAE,KAAK,CAAC,KAAK,CAAC,CAAC;QAEvE,IAAI,KAAK,CAAC,YAAY,EAAE,CAAC;YACvB,MAAM,YAAY,CAAC,UAAU,CAAC,UAAU,CAAC,OAAO,EAAE,GAAG,CAAC,CAAC;QACzD,CAAC;QAED,OAAO,wBAAwB,CAAC,GAAG,EAAE,UAAU,EAAE,EAAE,QAAQ,EAAE,YAAY,EAAE,MAAM,EAAE,CAAC,CAAC;IACvF,CAAC;IAED,MAAM,EAAE,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,yBAAyB,CAAC,MAAM,CAAC,EAAE,CAAC;CAChF,CAAC,CAAC"}
|
|
@@ -8,6 +8,11 @@
|
|
|
8
8
|
* with a cheap `pageSize=1` count. Additive write — no observation is destroyed
|
|
9
9
|
* by this tool.
|
|
10
10
|
*
|
|
11
|
+
* The confirmation is a consent gate: asking stores a `ctx.state` record of
|
|
12
|
+
* what the prompt confirmed (operation, caller, target, hash of the rows) under
|
|
13
|
+
* a random id sent as `requestState`, and a write proceeds only on the round
|
|
14
|
+
* that redeems a matching record.
|
|
15
|
+
*
|
|
11
16
|
* @module mcp-server/tools/definitions/brapi-submit-observations.tool
|
|
12
17
|
*/
|
|
13
18
|
import { z } from '@cyanheads/mcp-ts-core';
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"brapi-submit-observations.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-submit-observations.tool.ts"],"names":[],"mappings":"AAAA
|
|
1
|
+
{"version":3,"file":"brapi-submit-observations.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-submit-observations.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;GAgBG;AAIH,OAAO,EAAqC,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC9E,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAgQjE,eAAO,MAAM,uBAAuB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;qBAjExB,eAAe;;mBAEjB,6DAA6D;uBAEjE,6HAA6H;uBACrH,SAAS;;qBAGX,0BAA0B;;mBAE5B,+CAA+C;uBAEnD,kJAAkJ;;qBAG5I,iBAAiB;;mBAEnB,+DAA+D;uBAEnE,6GAA6G;;qBAGvG,kBAAkB;;mBAEpB,6EAA6E;uBAEjF,2JAA2J;;qBAGrJ,iBAAiB;;mBAEnB,+EAA+E;uBAEnF,8KAA8K;;qBAGxK,eAAe;;mBAEjB,yFAAyF;uBAE7F,iIAAiI;cAmWrI,CAAC"}
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@@ -8,8 +8,15 @@
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8
8
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* with a cheap `pageSize=1` count. Additive write — no observation is destroyed
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* by this tool.
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*
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+
* The confirmation is a consent gate: asking stores a `ctx.state` record of
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* what the prompt confirmed (operation, caller, target, hash of the rows) under
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* a random id sent as `requestState`, and a write proceeds only on the round
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* that redeems a matching record.
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*
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* @module mcp-server/tools/definitions/brapi-submit-observations.tool
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*/
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+
import { createHash, randomUUID } from 'node:crypto';
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+
import { isDeepStrictEqual } from 'node:util';
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import { inputRequired, tool, z } from '@cyanheads/mcp-ts-core';
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14
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import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
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import { getServerConfig } from '../../../config/server-config.js';
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@@ -208,6 +215,17 @@ const ConfirmSchema = z.object({
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.boolean()
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.describe('Set to true to commit the writes; false to abort with no side effects.'),
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});
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+
const OPERATION = 'brapi_submit_observations';
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const CONSENT_KEY_PREFIX = 'brapi/consent/';
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const CONSENT_TTL_SECONDS = 600;
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const UUID_PATTERN = /^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$/;
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+
const ConsentRecordSchema = z.object({
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operation: z.string().describe('Tool the record was minted for.'),
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clientId: z.string().describe('Authenticated client that was asked; empty without auth.'),
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+
subject: z.string().describe('Authenticated subject that was asked; empty without auth.'),
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target: z.string().describe('BrAPI base URL and studyDbId the write targets.'),
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contentHash: z.string().describe('SHA-256 of the observation rows the user confirmed.'),
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});
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export const brapiSubmitObservations = tool('brapi_submit_observations', {
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description: 'Submit observations for a study. Default mode `preview` validates rows against the study variables and returns a routing breakdown without writing. Mode `apply` asks the caller to confirm the write, then creates new rows or updates existing ones based on observationDbId presence. Additive only — no observation is destroyed.',
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annotations: {
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@@ -237,6 +255,7 @@ export const brapiSubmitObservations = tool('brapi_submit_observations', {
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output: OutputSchema,
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|
auth: ['brapi:write:observations'],
|
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|
async handler(input, ctx) {
|
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258
|
+
const consent = await redeemConsent(ctx);
|
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|
const capabilities = getCapabilityRegistry();
|
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241
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|
const client = getBrapiClient();
|
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|
const config = getServerConfig();
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@@ -251,15 +270,11 @@ export const brapiSubmitObservations = tool('brapi_submit_observations', {
|
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251
270
|
const supportsPost = obsDescriptor?.methods?.includes('POST') ?? false;
|
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271
|
const supportsPut = obsDescriptor?.methods?.includes('PUT') ?? false;
|
|
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272
|
if (!obsDescriptor) {
|
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|
-
throw ctx.fail('observations_unsupported', `BrAPI server at ${connection.baseUrl} does not advertise '/observations' in /calls. Cannot submit observations.`, { baseUrl: connection.baseUrl
|
|
273
|
+
throw ctx.fail('observations_unsupported', `BrAPI server at ${connection.baseUrl} does not advertise '/observations' in /calls. Cannot submit observations.`, { baseUrl: connection.baseUrl });
|
|
255
274
|
}
|
|
256
275
|
const studyLookup = await fetchStudyExistence(input.studyDbId, connection, client, ctx);
|
|
257
276
|
if (!studyLookup.exists) {
|
|
258
|
-
throw ctx.fail('study_not_found', `Study '${input.studyDbId}' not found on ${connection.baseUrl}.`, {
|
|
259
|
-
studyDbId: input.studyDbId,
|
|
260
|
-
baseUrl: connection.baseUrl,
|
|
261
|
-
...ctx.recoveryFor('study_not_found'),
|
|
262
|
-
});
|
|
277
|
+
throw ctx.fail('study_not_found', `Study '${input.studyDbId}' not found on ${connection.baseUrl}.`, { studyDbId: input.studyDbId, baseUrl: connection.baseUrl });
|
|
263
278
|
}
|
|
264
279
|
const studyName = studyLookup.studyName;
|
|
265
280
|
const knownVariables = await fetchStudyVariables(input.studyDbId, connection, client, ctx);
|
|
@@ -328,14 +343,25 @@ export const brapiSubmitObservations = tool('brapi_submit_observations', {
|
|
|
328
343
|
return { alias: connection.alias, result: branch };
|
|
329
344
|
}
|
|
330
345
|
if (postCount > 0 && !supportsPost) {
|
|
331
|
-
throw ctx.fail('post_unsupported', `Server does not advertise POST on /observations. ${postCount} new row(s) cannot be created.`, { baseUrl: connection.baseUrl, postCount
|
|
346
|
+
throw ctx.fail('post_unsupported', `Server does not advertise POST on /observations. ${postCount} new row(s) cannot be created.`, { baseUrl: connection.baseUrl, postCount });
|
|
332
347
|
}
|
|
333
348
|
if (putCount > 0 && !supportsPut) {
|
|
334
|
-
throw ctx.fail('put_unsupported', `Server does not advertise PUT on /observations. ${putCount} update row(s) cannot be applied.`, { baseUrl: connection.baseUrl, putCount
|
|
349
|
+
throw ctx.fail('put_unsupported', `Server does not advertise PUT on /observations. ${putCount} update row(s) cannot be applied.`, { baseUrl: connection.baseUrl, putCount });
|
|
335
350
|
}
|
|
336
351
|
if (!input.force) {
|
|
352
|
+
const expected = {
|
|
353
|
+
operation: OPERATION,
|
|
354
|
+
clientId: ctx.auth?.clientId ?? '',
|
|
355
|
+
subject: ctx.auth?.sub ?? '',
|
|
356
|
+
target: `${connection.baseUrl}#${input.studyDbId}`,
|
|
357
|
+
contentHash: hashRows(input.observations),
|
|
358
|
+
};
|
|
337
359
|
const answered = ctx.inputs.view('confirm');
|
|
338
|
-
|
|
360
|
+
// An answer counts only on the round that redeemed a record matching this
|
|
361
|
+
// exact write; anything else (no record, a mismatch, no answer) asks afresh.
|
|
362
|
+
if (!isDeepStrictEqual(consent, expected) || answered.kind === 'missing') {
|
|
363
|
+
const id = randomUUID();
|
|
364
|
+
await ctx.state.set(`${CONSENT_KEY_PREFIX}${id}`, expected, { ttl: CONSENT_TTL_SECONDS });
|
|
339
365
|
return ctx.requestInput({
|
|
340
366
|
inputRequests: {
|
|
341
367
|
confirm: inputRequired.elicit({
|
|
@@ -346,6 +372,7 @@ export const brapiSubmitObservations = tool('brapi_submit_observations', {
|
|
|
346
372
|
requestedSchema: ConfirmSchema,
|
|
347
373
|
}),
|
|
348
374
|
},
|
|
375
|
+
requestState: id,
|
|
349
376
|
});
|
|
350
377
|
}
|
|
351
378
|
// Declined, cancelled, another response kind, or a payload the schema
|
|
@@ -355,7 +382,6 @@ export const brapiSubmitObservations = tool('brapi_submit_observations', {
|
|
|
355
382
|
throw ctx.fail('user_declined', 'User declined to apply observation writes.', {
|
|
356
383
|
studyDbId: input.studyDbId,
|
|
357
384
|
action: answered.kind === 'elicit' ? answered.action : answered.kind,
|
|
358
|
-
...ctx.recoveryFor('user_declined'),
|
|
359
385
|
});
|
|
360
386
|
}
|
|
361
387
|
}
|
|
@@ -478,6 +504,25 @@ export const brapiSubmitObservations = tool('brapi_submit_observations', {
|
|
|
478
504
|
return [{ type: 'text', text: lines.join('\n') }];
|
|
479
505
|
},
|
|
480
506
|
});
|
|
507
|
+
/**
|
|
508
|
+
* Reads and deletes the consent record named by this round's `requestState`,
|
|
509
|
+
* so a record confirms at most one call. `ctx.state` has no atomic take, so
|
|
510
|
+
* concurrent retries carrying the same id can each read it before the delete
|
|
511
|
+
* lands — the guarantee covers a sequential replay only.
|
|
512
|
+
*/
|
|
513
|
+
async function redeemConsent(ctx) {
|
|
514
|
+
const id = ctx.inputs.state();
|
|
515
|
+
if (typeof id !== 'string' || !UUID_PATTERN.test(id))
|
|
516
|
+
return null;
|
|
517
|
+
const key = `${CONSENT_KEY_PREFIX}${id}`;
|
|
518
|
+
const record = await ctx.state.get(key, ConsentRecordSchema);
|
|
519
|
+
if (record)
|
|
520
|
+
await ctx.state.delete(key);
|
|
521
|
+
return record;
|
|
522
|
+
}
|
|
523
|
+
function hashRows(rows) {
|
|
524
|
+
return createHash('sha256').update(JSON.stringify(rows)).digest('hex');
|
|
525
|
+
}
|
|
481
526
|
function isStructural(warning) {
|
|
482
527
|
return warning.endsWith('is required.');
|
|
483
528
|
}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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1
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+
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