@galaxy-tool-util/cli 1.7.0 → 1.7.1
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/dist/commands/add.d.ts +1 -1
- package/dist/commands/add.d.ts.map +1 -1
- package/dist/commands/add.js +1 -1
- package/dist/commands/add.js.map +1 -1
- package/dist/commands/info.d.ts +1 -1
- package/dist/commands/info.d.ts.map +1 -1
- package/dist/commands/info.js +1 -1
- package/dist/commands/info.js.map +1 -1
- package/dist/commands/schema.d.ts +1 -1
- package/dist/commands/schema.d.ts.map +1 -1
- package/dist/commands/schema.js +1 -1
- package/dist/commands/schema.js.map +1 -1
- package/dist/commands/summarize.d.ts +1 -1
- package/dist/commands/summarize.d.ts.map +1 -1
- package/dist/commands/summarize.js +1 -1
- package/dist/commands/summarize.js.map +1 -1
- package/dist/commands/tool-versions.d.ts +2 -1
- package/dist/commands/tool-versions.d.ts.map +1 -1
- package/dist/commands/tool-versions.js +3 -9
- package/dist/commands/tool-versions.js.map +1 -1
- package/dist/spec/build-program.d.ts.map +1 -1
- package/dist/spec/build-program.js +12 -0
- package/dist/spec/build-program.js.map +1 -1
- package/package.json +5 -5
- package/spec/galaxy-tool-cache.json +4 -4
package/dist/commands/add.d.ts
CHANGED
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"add.d.ts","sourceRoot":"","sources":["../../src/commands/add.ts"],"names":[],"mappings":"AAEA,MAAM,WAAW,UAAU;IACzB,
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1
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+
{"version":3,"file":"add.d.ts","sourceRoot":"","sources":["../../src/commands/add.ts"],"names":[],"mappings":"AAEA,MAAM,WAAW,UAAU;IACzB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,SAAS,CAAC,EAAE,MAAM,CAAC;CACpB;AAED,wBAAsB,MAAM,CAAC,MAAM,EAAE,MAAM,EAAE,IAAI,EAAE,UAAU,GAAG,OAAO,CAAC,IAAI,CAAC,CAa5E"}
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package/dist/commands/add.js
CHANGED
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@@ -4,7 +4,7 @@ export async function runAdd(toolId, opts) {
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cacheDir: opts.cacheDir,
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galaxyUrl: opts.galaxyUrl,
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});
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7
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-
const result = await service.getToolInfo(toolId, opts.
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7
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+
const result = await service.getToolInfo(toolId, opts.toolVersion);
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if (result === null) {
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console.error(`Failed to fetch tool: ${toolId}`);
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process.exitCode = 1;
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package/dist/commands/add.js.map
CHANGED
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"add.js","sourceRoot":"","sources":["../../src/commands/add.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,uBAAuB,EAAE,MAAM,6BAA6B,CAAC;AAQtE,MAAM,CAAC,KAAK,UAAU,MAAM,CAAC,MAAc,EAAE,IAAgB;IAC3D,MAAM,OAAO,GAAG,uBAAuB,CAAC;QACtC,QAAQ,EAAE,IAAI,CAAC,QAAQ;QACvB,SAAS,EAAE,IAAI,CAAC,SAAS;KAC1B,CAAC,CAAC;IAEH,MAAM,MAAM,GAAG,MAAM,OAAO,CAAC,WAAW,CAAC,MAAM,EAAE,IAAI,CAAC,
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1
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+
{"version":3,"file":"add.js","sourceRoot":"","sources":["../../src/commands/add.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,uBAAuB,EAAE,MAAM,6BAA6B,CAAC;AAQtE,MAAM,CAAC,KAAK,UAAU,MAAM,CAAC,MAAc,EAAE,IAAgB;IAC3D,MAAM,OAAO,GAAG,uBAAuB,CAAC;QACtC,QAAQ,EAAE,IAAI,CAAC,QAAQ;QACvB,SAAS,EAAE,IAAI,CAAC,SAAS;KAC1B,CAAC,CAAC;IAEH,MAAM,MAAM,GAAG,MAAM,OAAO,CAAC,WAAW,CAAC,MAAM,EAAE,IAAI,CAAC,WAAW,CAAC,CAAC;IACnE,IAAI,MAAM,KAAK,IAAI,EAAE,CAAC;QACpB,OAAO,CAAC,KAAK,CAAC,yBAAyB,MAAM,EAAE,CAAC,CAAC;QACjD,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;QACrB,OAAO;IACT,CAAC;IACD,OAAO,CAAC,GAAG,CAAC,WAAW,MAAM,CAAC,IAAI,KAAK,MAAM,CAAC,EAAE,KAAK,MAAM,CAAC,OAAO,GAAG,CAAC,CAAC;AAC1E,CAAC"}
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package/dist/commands/info.d.ts
CHANGED
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"info.d.ts","sourceRoot":"","sources":["../../src/commands/info.ts"],"names":[],"mappings":"AAGA,MAAM,WAAW,WAAW;IAC1B,
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1
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+
{"version":3,"file":"info.d.ts","sourceRoot":"","sources":["../../src/commands/info.ts"],"names":[],"mappings":"AAGA,MAAM,WAAW,WAAW;IAC1B,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,QAAQ,CAAC,EAAE,MAAM,CAAC;CACnB;AAED,wBAAsB,OAAO,CAAC,MAAM,EAAE,MAAM,EAAE,IAAI,EAAE,WAAW,GAAG,OAAO,CAAC,IAAI,CAAC,CA+B9E"}
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package/dist/commands/info.js
CHANGED
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@@ -3,7 +3,7 @@ import { makeNodeToolCache } from "@galaxy-tool-util/core/node";
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export async function runInfo(toolId, opts) {
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const cache = makeNodeToolCache({ cacheDir: opts.cacheDir });
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await cache.index.load();
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const coords = cache.resolveToolCoordinates(toolId, opts.
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const coords = cache.resolveToolCoordinates(toolId, opts.toolVersion);
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if (coords.version === null) {
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console.error(`No version specified for tool: ${toolId}`);
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process.exitCode = 1;
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"info.js","sourceRoot":"","sources":["../../src/commands/info.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,QAAQ,EAAE,MAAM,wBAAwB,CAAC;AAClD,OAAO,EAAE,iBAAiB,EAAE,MAAM,6BAA6B,CAAC;AAOhE,MAAM,CAAC,KAAK,UAAU,OAAO,CAAC,MAAc,EAAE,IAAiB;IAC7D,MAAM,KAAK,GAAG,iBAAiB,CAAC,EAAE,QAAQ,EAAE,IAAI,CAAC,QAAQ,EAAE,CAAC,CAAC;IAC7D,MAAM,KAAK,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC;IACzB,MAAM,MAAM,GAAG,KAAK,CAAC,sBAAsB,CAAC,MAAM,EAAE,IAAI,CAAC,
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1
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+
{"version":3,"file":"info.js","sourceRoot":"","sources":["../../src/commands/info.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,QAAQ,EAAE,MAAM,wBAAwB,CAAC;AAClD,OAAO,EAAE,iBAAiB,EAAE,MAAM,6BAA6B,CAAC;AAOhE,MAAM,CAAC,KAAK,UAAU,OAAO,CAAC,MAAc,EAAE,IAAiB;IAC7D,MAAM,KAAK,GAAG,iBAAiB,CAAC,EAAE,QAAQ,EAAE,IAAI,CAAC,QAAQ,EAAE,CAAC,CAAC;IAC7D,MAAM,KAAK,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC;IACzB,MAAM,MAAM,GAAG,KAAK,CAAC,sBAAsB,CAAC,MAAM,EAAE,IAAI,CAAC,WAAW,CAAC,CAAC;IACtE,IAAI,MAAM,CAAC,OAAO,KAAK,IAAI,EAAE,CAAC;QAC5B,OAAO,CAAC,KAAK,CAAC,kCAAkC,MAAM,EAAE,CAAC,CAAC;QAC1D,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;QACrB,OAAO;IACT,CAAC;IACD,MAAM,GAAG,GAAG,MAAM,QAAQ,CAAC,MAAM,CAAC,WAAW,EAAE,MAAM,CAAC,SAAS,EAAE,MAAM,CAAC,OAAO,CAAC,CAAC;IACjF,MAAM,IAAI,GAAG,MAAM,KAAK,CAAC,UAAU,CAAC,GAAG,CAAC,CAAC;IACzC,IAAI,IAAI,KAAK,IAAI,EAAE,CAAC;QAClB,OAAO,CAAC,KAAK,CAAC,4BAA4B,MAAM,EAAE,CAAC,CAAC;QACpD,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;QACrB,OAAO;IACT,CAAC;IAED,MAAM,UAAU,GAAG,CAAC,MAAM,KAAK,CAAC,KAAK,CAAC,OAAO,EAAE,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,SAAS,KAAK,GAAG,CAAC,CAAC;IAElF,OAAO,CAAC,GAAG,CAAC,gBAAgB,IAAI,CAAC,IAAI,EAAE,CAAC,CAAC;IACzC,OAAO,CAAC,GAAG,CAAC,gBAAgB,IAAI,CAAC,EAAE,EAAE,CAAC,CAAC;IACvC,OAAO,CAAC,GAAG,CAAC,gBAAgB,IAAI,CAAC,OAAO,IAAI,SAAS,EAAE,CAAC,CAAC;IACzD,OAAO,CAAC,GAAG,CAAC,gBAAgB,IAAI,CAAC,WAAW,IAAI,EAAE,EAAE,CAAC,CAAC;IACtD,OAAO,CAAC,GAAG,CAAC,gBAAgB,IAAI,CAAC,MAAM,CAAC,MAAM,EAAE,CAAC,CAAC;IAClD,OAAO,CAAC,GAAG,CAAC,gBAAgB,IAAI,CAAC,OAAO,CAAC,MAAM,EAAE,CAAC,CAAC;IACnD,OAAO,CAAC,GAAG,CAAC,gBAAgB,IAAI,CAAC,OAAO,IAAI,MAAM,EAAE,CAAC,CAAC;IACtD,OAAO,CAAC,GAAG,CAAC,gBAAgB,IAAI,CAAC,OAAO,IAAI,MAAM,EAAE,CAAC,CAAC;IACtD,IAAI,UAAU,EAAE,CAAC;QACf,OAAO,CAAC,GAAG,CAAC,gBAAgB,UAAU,CAAC,MAAM,EAAE,CAAC,CAAC;QACjD,OAAO,CAAC,GAAG,CAAC,gBAAgB,UAAU,CAAC,SAAS,EAAE,CAAC,CAAC;IACtD,CAAC;AACH,CAAC"}
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@@ -1 +1 @@
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1
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{"version":3,"file":"schema.d.ts","sourceRoot":"","sources":["../../src/commands/schema.ts"],"names":[],"mappings":"AAWA,MAAM,WAAW,aAAa;IAC5B,
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1
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+
{"version":3,"file":"schema.d.ts","sourceRoot":"","sources":["../../src/commands/schema.ts"],"names":[],"mappings":"AAWA,MAAM,WAAW,aAAa;IAC5B,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,QAAQ,CAAC,EAAE,MAAM,CAAC;CACnB;AAED,wBAAsB,SAAS,CAAC,MAAM,EAAE,MAAM,EAAE,IAAI,EAAE,aAAa,GAAG,OAAO,CAAC,IAAI,CAAC,CAoDlF"}
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package/dist/commands/schema.js
CHANGED
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@@ -13,7 +13,7 @@ export async function runSchema(toolId, opts) {
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const stateRep = repName;
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const cache = makeNodeToolCache({ cacheDir: opts.cacheDir });
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await cache.index.load();
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const result = await loadCachedTool(cache, toolId, opts.
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const result = await loadCachedTool(cache, toolId, opts.toolVersion);
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if (isResolveError(result)) {
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if (result.kind === "no_version") {
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console.error(`No version specified for tool: ${toolId}`);
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"schema.js","sourceRoot":"","sources":["../../src/commands/schema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,iBAAiB,EAAE,MAAM,6BAA6B,CAAC;AAChE,OAAO,EACL,gBAAgB,EAChB,qBAAqB,GAGtB,MAAM,0BAA0B,CAAC;AAClC,OAAO,KAAK,UAAU,MAAM,mBAAmB,CAAC;AAChD,OAAO,EAAE,SAAS,EAAE,MAAM,kBAAkB,CAAC;AAC7C,OAAO,EAAE,cAAc,EAAE,cAAc,EAAE,MAAM,mBAAmB,CAAC;AASnE,MAAM,CAAC,KAAK,UAAU,SAAS,CAAC,MAAc,EAAE,IAAmB;IACjE,MAAM,OAAO,GAAG,IAAI,CAAC,cAAc,IAAI,eAAe,CAAC;IACvD,IAAI,CAAC,qBAAqB,CAAC,QAAQ,CAAC,OAA8B,CAAC,EAAE,CAAC;QACpE,OAAO,CAAC,KAAK,CACX,2BAA2B,OAAO,gBAAgB,qBAAqB,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CACrF,CAAC;QACF,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;QACrB,OAAO;IACT,CAAC;IACD,MAAM,QAAQ,GAAG,OAA8B,CAAC;IAEhD,MAAM,KAAK,GAAG,iBAAiB,CAAC,EAAE,QAAQ,EAAE,IAAI,CAAC,QAAQ,EAAE,CAAC,CAAC;IAC7D,MAAM,KAAK,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC;IACzB,MAAM,MAAM,GAAG,MAAM,cAAc,CAAC,KAAK,EAAE,MAAM,EAAE,IAAI,CAAC,
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1
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{"version":3,"file":"schema.js","sourceRoot":"","sources":["../../src/commands/schema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,iBAAiB,EAAE,MAAM,6BAA6B,CAAC;AAChE,OAAO,EACL,gBAAgB,EAChB,qBAAqB,GAGtB,MAAM,0BAA0B,CAAC;AAClC,OAAO,KAAK,UAAU,MAAM,mBAAmB,CAAC;AAChD,OAAO,EAAE,SAAS,EAAE,MAAM,kBAAkB,CAAC;AAC7C,OAAO,EAAE,cAAc,EAAE,cAAc,EAAE,MAAM,mBAAmB,CAAC;AASnE,MAAM,CAAC,KAAK,UAAU,SAAS,CAAC,MAAc,EAAE,IAAmB;IACjE,MAAM,OAAO,GAAG,IAAI,CAAC,cAAc,IAAI,eAAe,CAAC;IACvD,IAAI,CAAC,qBAAqB,CAAC,QAAQ,CAAC,OAA8B,CAAC,EAAE,CAAC;QACpE,OAAO,CAAC,KAAK,CACX,2BAA2B,OAAO,gBAAgB,qBAAqB,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CACrF,CAAC;QACF,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;QACrB,OAAO;IACT,CAAC;IACD,MAAM,QAAQ,GAAG,OAA8B,CAAC;IAEhD,MAAM,KAAK,GAAG,iBAAiB,CAAC,EAAE,QAAQ,EAAE,IAAI,CAAC,QAAQ,EAAE,CAAC,CAAC;IAC7D,MAAM,KAAK,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC;IACzB,MAAM,MAAM,GAAG,MAAM,cAAc,CAAC,KAAK,EAAE,MAAM,EAAE,IAAI,CAAC,WAAW,CAAC,CAAC;IACrE,IAAI,cAAc,CAAC,MAAM,CAAC,EAAE,CAAC;QAC3B,IAAI,MAAM,CAAC,IAAI,KAAK,YAAY,EAAE,CAAC;YACjC,OAAO,CAAC,KAAK,CAAC,kCAAkC,MAAM,EAAE,CAAC,CAAC;QAC5D,CAAC;aAAM,CAAC;YACN,OAAO,CAAC,KAAK,CAAC,4BAA4B,MAAM,sCAAsC,CAAC,CAAC;QAC1F,CAAC;QACD,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;QACrB,OAAO;IACT,CAAC;IAED,MAAM,MAAM,GAA6B;QACvC,UAAU,EAAE,MAAM,CAAC,IAAI,CAAC,MAAgD;KACzE,CAAC;IAEF,MAAM,YAAY,GAAG,gBAAgB,CAAC,MAAM,EAAE,QAA+B,CAAC,CAAC;IAC/E,IAAI,YAAY,KAAK,SAAS,EAAE,CAAC;QAC/B,OAAO,CAAC,KAAK,CAAC,2EAA2E,CAAC,CAAC;QAC3F,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;QACrB,OAAO;IACT,CAAC;IAED,IAAI,UAAmB,CAAC;IACxB,IAAI,CAAC;QACH,UAAU,GAAG,UAAU,CAAC,IAAI,CAAC,YAAY,CAAC,CAAC;IAC7C,CAAC;IAAC,OAAO,CAAC,EAAE,CAAC;QACX,MAAM,GAAG,GAAG,CAAC,YAAY,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC;QACvD,OAAO,CAAC,KAAK,CAAC,kCAAkC,GAAG,EAAE,CAAC,CAAC;QACvD,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;QACrB,OAAO;IACT,CAAC;IACD,MAAM,MAAM,GAAG,IAAI,CAAC,SAAS,CAAC,UAAU,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC;IAEnD,IAAI,IAAI,CAAC,MAAM,EAAE,CAAC;QAChB,MAAM,SAAS,CAAC,IAAI,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;QACrC,OAAO,CAAC,GAAG,CAAC,qBAAqB,IAAI,CAAC,MAAM,EAAE,CAAC,CAAC;IAClD,CAAC;SAAM,CAAC;QACN,OAAO,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC;IACtB,CAAC;AACH,CAAC"}
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@@ -1 +1 @@
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{"version":3,"file":"summarize.d.ts","sourceRoot":"","sources":["../../src/commands/summarize.ts"],"names":[],"mappings":"AAGA,OAAO,EAEL,KAAK,UAAU,EAGhB,MAAM,0BAA0B,CAAC;AAIlC,MAAM,WAAW,gBAAgB;IAC/B,
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{"version":3,"file":"summarize.d.ts","sourceRoot":"","sources":["../../src/commands/summarize.ts"],"names":[],"mappings":"AAGA,OAAO,EAEL,KAAK,UAAU,EAGhB,MAAM,0BAA0B,CAAC;AAIlC,MAAM,WAAW,gBAAgB;IAC/B,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,QAAQ,CAAC,EAAE,MAAM,CAAC;CACnB;AAED,MAAM,WAAW,yBAAyB;IACxC,cAAc,EAAE,CAAC,CAAC;IAClB,OAAO,EAAE,MAAM,CAAC;IAChB,YAAY,EAAE,MAAM,GAAG,IAAI,CAAC;IAC5B,SAAS,EAAE,MAAM,CAAC;IAClB,MAAM,EAAE;QACN,IAAI,EAAE,UAAU,GAAG,QAAQ,GAAG,OAAO,GAAG,QAAQ,GAAG,SAAS,CAAC;QAC7D,KAAK,EAAE,MAAM,CAAC;QACd,GAAG,EAAE,MAAM,CAAC;QACZ,SAAS,EAAE,MAAM,GAAG,IAAI,CAAC;KAC1B,CAAC;IACF,SAAS,EAAE;QACT,gBAAgB,EAAE,MAAM,CAAC;QACzB,oBAAoB,EAAE,MAAM,GAAG,IAAI,CAAC;KACrC,CAAC;IACF,WAAW,EAAE,UAAU,CAAC;IACxB,aAAa,EAAE;QACb,aAAa,EAAE,OAAO,GAAG,IAAI,CAAC;QAC9B,oBAAoB,EAAE,OAAO,GAAG,IAAI,CAAC;KACtC,CAAC;IACF,QAAQ,EAAE,MAAM,EAAE,CAAC;CACpB;AA+BD,wBAAsB,wBAAwB,CAC5C,MAAM,EAAE,MAAM,EACd,IAAI,EAAE,gBAAgB,GACrB,OAAO,CAAC,yBAAyB,GAAG,IAAI,CAAC,CAwC3C;AAED,wBAAsB,YAAY,CAAC,MAAM,EAAE,MAAM,EAAE,IAAI,EAAE,gBAAgB,GAAG,OAAO,CAAC,IAAI,CAAC,CAUxF"}
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@@ -32,7 +32,7 @@ export async function buildToolSummaryManifest(toolId, opts) {
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const cacheDir = getCacheDir(opts.cacheDir);
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const cache = makeNodeToolCache({ cacheDir });
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await cache.index.load();
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const result = await loadCachedTool(cache, toolId, opts.
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const result = await loadCachedTool(cache, toolId, opts.toolVersion);
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if (isResolveError(result)) {
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if (result.kind === "no_version") {
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console.error(`No version specified for tool: ${toolId}`);
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@@ -1 +1 @@
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|
-
{"version":3,"file":"summarize.js","sourceRoot":"","sources":["../../src/commands/summarize.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,MAAM,WAAW,CAAC;AACjC,OAAO,EAAE,SAAS,EAAE,MAAM,kBAAkB,CAAC;AAC7C,OAAO,EAAE,WAAW,EAAE,iBAAiB,EAAE,MAAM,6BAA6B,CAAC;AAC7E,OAAO,EACL,gBAAgB,GAIjB,MAAM,0BAA0B,CAAC;AAClC,OAAO,KAAK,UAAU,MAAM,mBAAmB,CAAC;AAChD,OAAO,EAAE,cAAc,EAAE,cAAc,EAAE,MAAM,mBAAmB,CAAC;AA+BnE,SAAS,UAAU,CAAC,KAAyB;IAC3C,IAAI,KAAK,KAAK,KAAK;QAAE,OAAO,UAAU,CAAC;IACvC,IAAI,KAAK,KAAK,QAAQ,IAAI,KAAK,KAAK,OAAO,IAAI,KAAK,KAAK,QAAQ;QAAE,OAAO,KAAK,CAAC;IAChF,OAAO,SAAS,CAAC;AACnB,CAAC;AAED,SAAS,cAAc,CACrB,IAAgB,EAChB,GAAwB,EACxB,QAAkB;IAElB,MAAM,MAAM,GAA6B;QACvC,UAAU,EAAE,IAAI,CAAC,MAAgD;KAClE,CAAC;IACF,MAAM,YAAY,GAAG,gBAAgB,CAAC,MAAM,EAAE,GAAG,CAAC,CAAC;IACnD,IAAI,YAAY,KAAK,SAAS,EAAE,CAAC;QAC/B,QAAQ,CAAC,IAAI,CAAC,GAAG,GAAG,oDAAoD,CAAC,CAAC;QAC1E,OAAO,IAAI,CAAC;IACd,CAAC;IACD,IAAI,CAAC;QACH,OAAO,UAAU,CAAC,IAAI,CAAC,YAAY,CAAC,CAAC;IACvC,CAAC;IAAC,OAAO,GAAG,EAAE,CAAC;QACb,QAAQ,CAAC,IAAI,CACX,GAAG,GAAG,oCAAoC,GAAG,YAAY,KAAK,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,CAC7F,CAAC;QACF,OAAO,IAAI,CAAC;IACd,CAAC;AACH,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,wBAAwB,CAC5C,MAAc,EACd,IAAsB;IAEtB,MAAM,QAAQ,GAAG,WAAW,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAC;IAC5C,MAAM,KAAK,GAAG,iBAAiB,CAAC,EAAE,QAAQ,EAAE,CAAC,CAAC;IAC9C,MAAM,KAAK,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC;IACzB,MAAM,MAAM,GAAG,MAAM,cAAc,CAAC,KAAK,EAAE,MAAM,EAAE,IAAI,CAAC,
|
|
1
|
+
{"version":3,"file":"summarize.js","sourceRoot":"","sources":["../../src/commands/summarize.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,MAAM,WAAW,CAAC;AACjC,OAAO,EAAE,SAAS,EAAE,MAAM,kBAAkB,CAAC;AAC7C,OAAO,EAAE,WAAW,EAAE,iBAAiB,EAAE,MAAM,6BAA6B,CAAC;AAC7E,OAAO,EACL,gBAAgB,GAIjB,MAAM,0BAA0B,CAAC;AAClC,OAAO,KAAK,UAAU,MAAM,mBAAmB,CAAC;AAChD,OAAO,EAAE,cAAc,EAAE,cAAc,EAAE,MAAM,mBAAmB,CAAC;AA+BnE,SAAS,UAAU,CAAC,KAAyB;IAC3C,IAAI,KAAK,KAAK,KAAK;QAAE,OAAO,UAAU,CAAC;IACvC,IAAI,KAAK,KAAK,QAAQ,IAAI,KAAK,KAAK,OAAO,IAAI,KAAK,KAAK,QAAQ;QAAE,OAAO,KAAK,CAAC;IAChF,OAAO,SAAS,CAAC;AACnB,CAAC;AAED,SAAS,cAAc,CACrB,IAAgB,EAChB,GAAwB,EACxB,QAAkB;IAElB,MAAM,MAAM,GAA6B;QACvC,UAAU,EAAE,IAAI,CAAC,MAAgD;KAClE,CAAC;IACF,MAAM,YAAY,GAAG,gBAAgB,CAAC,MAAM,EAAE,GAAG,CAAC,CAAC;IACnD,IAAI,YAAY,KAAK,SAAS,EAAE,CAAC;QAC/B,QAAQ,CAAC,IAAI,CAAC,GAAG,GAAG,oDAAoD,CAAC,CAAC;QAC1E,OAAO,IAAI,CAAC;IACd,CAAC;IACD,IAAI,CAAC;QACH,OAAO,UAAU,CAAC,IAAI,CAAC,YAAY,CAAC,CAAC;IACvC,CAAC;IAAC,OAAO,GAAG,EAAE,CAAC;QACb,QAAQ,CAAC,IAAI,CACX,GAAG,GAAG,oCAAoC,GAAG,YAAY,KAAK,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,CAC7F,CAAC;QACF,OAAO,IAAI,CAAC;IACd,CAAC;AACH,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,wBAAwB,CAC5C,MAAc,EACd,IAAsB;IAEtB,MAAM,QAAQ,GAAG,WAAW,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAC;IAC5C,MAAM,KAAK,GAAG,iBAAiB,CAAC,EAAE,QAAQ,EAAE,CAAC,CAAC;IAC9C,MAAM,KAAK,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC;IACzB,MAAM,MAAM,GAAG,MAAM,cAAc,CAAC,KAAK,EAAE,MAAM,EAAE,IAAI,CAAC,WAAW,CAAC,CAAC;IACrE,IAAI,cAAc,CAAC,MAAM,CAAC,EAAE,CAAC;QAC3B,IAAI,MAAM,CAAC,IAAI,KAAK,YAAY,EAAE,CAAC;YACjC,OAAO,CAAC,KAAK,CAAC,kCAAkC,MAAM,EAAE,CAAC,CAAC;QAC5D,CAAC;aAAM,CAAC;YACN,OAAO,CAAC,KAAK,CAAC,4BAA4B,MAAM,sCAAsC,CAAC,CAAC;QAC1F,CAAC;QACD,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;QACrB,OAAO,IAAI,CAAC;IACd,CAAC;IAED,MAAM,UAAU,GAAG,CAAC,MAAM,KAAK,CAAC,KAAK,CAAC,OAAO,EAAE,CAAC,CAAC,IAAI,CAAC,CAAC,KAAK,EAAE,EAAE,CAAC,KAAK,CAAC,SAAS,KAAK,MAAM,CAAC,GAAG,CAAC,CAAC;IACjG,MAAM,QAAQ,GAAa,EAAE,CAAC;IAC9B,MAAM,QAAQ,GAA8B;QAC1C,cAAc,EAAE,CAAC;QACjB,OAAO,EAAE,MAAM,CAAC,IAAI,CAAC,EAAE;QACvB,YAAY,EAAE,MAAM,CAAC,IAAI,CAAC,OAAO;QACjC,SAAS,EAAE,MAAM,CAAC,GAAG;QACrB,MAAM,EAAE;YACN,IAAI,EAAE,UAAU,CAAC,UAAU,EAAE,MAAM,CAAC;YACpC,KAAK,EAAE,UAAU,EAAE,MAAM,IAAI,SAAS;YACtC,GAAG,EAAE,UAAU,EAAE,UAAU,IAAI,EAAE;YACjC,SAAS,EAAE,UAAU,EAAE,SAAS,IAAI,IAAI;SACzC;QACD,SAAS,EAAE;YACT,gBAAgB,EAAE,IAAI,CAAC,QAAQ,EAAE,GAAG,MAAM,CAAC,GAAG,OAAO,CAAC;YACtD,oBAAoB,EAAE,IAAI;SAC3B;QACD,WAAW,EAAE,MAAM,CAAC,IAAI;QACxB,aAAa,EAAE;YACb,aAAa,EAAE,cAAc,CAAC,MAAM,CAAC,IAAI,EAAE,eAAe,EAAE,QAAQ,CAAC;YACrE,oBAAoB,EAAE,cAAc,CAAC,MAAM,CAAC,IAAI,EAAE,sBAAsB,EAAE,QAAQ,CAAC;SACpF;QACD,QAAQ;KACT,CAAC;IACF,OAAO,QAAQ,CAAC;AAClB,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,YAAY,CAAC,MAAc,EAAE,IAAsB;IACvE,MAAM,QAAQ,GAAG,MAAM,wBAAwB,CAAC,MAAM,EAAE,IAAI,CAAC,CAAC;IAC9D,IAAI,QAAQ,KAAK,IAAI;QAAE,OAAO;IAC9B,MAAM,MAAM,GAAG,GAAG,IAAI,CAAC,SAAS,CAAC,QAAQ,EAAE,IAAI,EAAE,CAAC,CAAC,IAAI,CAAC;IACxD,IAAI,IAAI,CAAC,MAAM,EAAE,CAAC;QAChB,MAAM,SAAS,CAAC,IAAI,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;QACrC,OAAO,CAAC,GAAG,CAAC,sBAAsB,IAAI,CAAC,MAAM,EAAE,CAAC,CAAC;IACnD,CAAC;SAAM,CAAC;QACN,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC;IAC/B,CAAC;AACH,CAAC"}
|
|
@@ -1,3 +1,5 @@
|
|
|
1
|
+
import { toTrsToolId } from "@galaxy-tool-util/core";
|
|
2
|
+
export { toTrsToolId };
|
|
1
3
|
export interface ToolVersionsOptions {
|
|
2
4
|
json?: boolean;
|
|
3
5
|
latest?: boolean;
|
|
@@ -6,6 +8,5 @@ export interface ToolVersionsJsonOutput {
|
|
|
6
8
|
trsToolId: string;
|
|
7
9
|
versions: string[];
|
|
8
10
|
}
|
|
9
|
-
export declare function toTrsToolId(input: string): string;
|
|
10
11
|
export declare function runToolVersions(toolId: string, opts: ToolVersionsOptions): Promise<void>;
|
|
11
12
|
//# sourceMappingURL=tool-versions.d.ts.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"tool-versions.d.ts","sourceRoot":"","sources":["../../src/commands/tool-versions.ts"],"names":[],"mappings":"
|
|
1
|
+
{"version":3,"file":"tool-versions.d.ts","sourceRoot":"","sources":["../../src/commands/tool-versions.ts"],"names":[],"mappings":"AAAA,OAAO,EAAwB,WAAW,EAAE,MAAM,wBAAwB,CAAC;AAI3E,OAAO,EAAE,WAAW,EAAE,CAAC;AAEvB,MAAM,WAAW,mBAAmB;IAClC,IAAI,CAAC,EAAE,OAAO,CAAC;IACf,MAAM,CAAC,EAAE,OAAO,CAAC;CAClB;AAED,MAAM,WAAW,sBAAsB;IACrC,SAAS,EAAE,MAAM,CAAC;IAClB,QAAQ,EAAE,MAAM,EAAE,CAAC;CACpB;AAED,wBAAsB,eAAe,CAAC,MAAM,EAAE,MAAM,EAAE,IAAI,EAAE,mBAAmB,GAAG,OAAO,CAAC,IAAI,CAAC,CAwD9F"}
|
|
@@ -1,13 +1,7 @@
|
|
|
1
|
-
import { DEFAULT_TOOLSHED_URL } from "@galaxy-tool-util/core";
|
|
1
|
+
import { DEFAULT_TOOLSHED_URL, toTrsToolId } from "@galaxy-tool-util/core";
|
|
2
2
|
import { ToolFetchError, getTRSToolVersions } from "@galaxy-tool-util/search";
|
|
3
|
-
|
|
4
|
-
|
|
5
|
-
return input;
|
|
6
|
-
const parts = input.split("/").filter((p) => p.length > 0);
|
|
7
|
-
if (parts.length === 3)
|
|
8
|
-
return `${parts[0]}~${parts[1]}~${parts[2]}`;
|
|
9
|
-
throw new Error(`Invalid tool id: expected \`<owner>~<repo>~<tool_id>\` or \`<owner>/<repo>/<tool_id>\`, got: ${input}`);
|
|
10
|
-
}
|
|
3
|
+
// Re-exported for tool-revisions and tests; canonical impl lives in @galaxy-tool-util/core.
|
|
4
|
+
export { toTrsToolId };
|
|
11
5
|
export async function runToolVersions(toolId, opts) {
|
|
12
6
|
let trsToolId;
|
|
13
7
|
try {
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"tool-versions.js","sourceRoot":"","sources":["../../src/commands/tool-versions.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,oBAAoB,EAAE,MAAM,wBAAwB,CAAC;
|
|
1
|
+
{"version":3,"file":"tool-versions.js","sourceRoot":"","sources":["../../src/commands/tool-versions.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,oBAAoB,EAAE,WAAW,EAAE,MAAM,wBAAwB,CAAC;AAC3E,OAAO,EAAE,cAAc,EAAE,kBAAkB,EAAE,MAAM,0BAA0B,CAAC;AAE9E,4FAA4F;AAC5F,OAAO,EAAE,WAAW,EAAE,CAAC;AAYvB,MAAM,CAAC,KAAK,UAAU,eAAe,CAAC,MAAc,EAAE,IAAyB;IAC7E,IAAI,SAAiB,CAAC;IACtB,IAAI,CAAC;QACH,SAAS,GAAG,WAAW,CAAC,MAAM,CAAC,CAAC;IAClC,CAAC;IAAC,OAAO,GAAG,EAAE,CAAC;QACb,OAAO,CAAC,KAAK,CAAE,GAAa,CAAC,OAAO,CAAC,CAAC;QACtC,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;QACrB,OAAO;IACT,CAAC;IAED,IAAI,WAAW,CAAC;IAChB,IAAI,CAAC;QACH,WAAW,GAAG,MAAM,kBAAkB,CAAC,oBAAoB,EAAE,SAAS,CAAC,CAAC;IAC1E,CAAC;IAAC,OAAO,GAAG,EAAE,CAAC;QACb,IAAI,GAAG,YAAY,cAAc,EAAE,CAAC;YAClC,OAAO,CAAC,KAAK,CAAC,uBAAuB,GAAG,CAAC,OAAO,EAAE,CAAC,CAAC;YACpD,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;YACrB,OAAO;QACT,CAAC;QACD,MAAM,GAAG,CAAC;IACZ,CAAC;IAED,sEAAsE;IACtE,MAAM,QAAQ,GAAG,WAAW,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC;IAE9C,IAAI,IAAI,CAAC,MAAM,EAAE,CAAC;QAChB,MAAM,MAAM,GAAG,QAAQ,CAAC,QAAQ,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC;QAC7C,IAAI,MAAM,KAAK,SAAS,EAAE,CAAC;YACzB,IAAI,IAAI,CAAC,IAAI,EAAE,CAAC;gBACd,OAAO,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,EAAE,SAAS,EAAE,QAAQ,EAAE,EAAE,EAAE,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAC;YACpE,CAAC;iBAAM,CAAC;gBACN,OAAO,CAAC,KAAK,CAAC,6BAA6B,SAAS,EAAE,CAAC,CAAC;YAC1D,CAAC;YACD,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;YACrB,OAAO;QACT,CAAC;QACD,IAAI,IAAI,CAAC,IAAI,EAAE,CAAC;YACd,OAAO,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,EAAE,SAAS,EAAE,QAAQ,EAAE,CAAC,MAAM,CAAC,EAAE,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAC;QAC1E,CAAC;aAAM,CAAC;YACN,OAAO,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC;QACtB,CAAC;QACD,OAAO;IACT,CAAC;IAED,IAAI,IAAI,CAAC,IAAI,EAAE,CAAC;QACd,MAAM,QAAQ,GAA2B,EAAE,SAAS,EAAE,QAAQ,EAAE,CAAC;QACjE,OAAO,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,QAAQ,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAC;IACjD,CAAC;SAAM,IAAI,QAAQ,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;QACjC,OAAO,CAAC,KAAK,CAAC,6BAA6B,SAAS,EAAE,CAAC,CAAC;IAC1D,CAAC;SAAM,CAAC;QACN,KAAK,MAAM,CAAC,IAAI,QAAQ;YAAE,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC;IAC3C,CAAC;IAED,IAAI,QAAQ,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;QAC1B,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAC;IACvB,CAAC;AACH,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"build-program.d.ts","sourceRoot":"","sources":["../../src/spec/build-program.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AACH,OAAO,EAAE,OAAO,EAAE,MAAM,WAAW,CAAC;AACpC,OAAO,KAAK,EAAE,WAAW,EAA2B,MAAM,uBAAuB,CAAC;AAElF,MAAM,MAAM,SAAS,GAAG,CAAC,GAAG,IAAI,EAAE,GAAG,EAAE,KAAK,IAAI,GAAG,OAAO,CAAC,IAAI,CAAC,CAAC;AACjE,MAAM,MAAM,eAAe,GAAG,MAAM,CAAC,MAAM,EAAE,SAAS,CAAC,CAAC;
|
|
1
|
+
{"version":3,"file":"build-program.d.ts","sourceRoot":"","sources":["../../src/spec/build-program.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AACH,OAAO,EAAE,OAAO,EAAE,MAAM,WAAW,CAAC;AACpC,OAAO,KAAK,EAAE,WAAW,EAA2B,MAAM,uBAAuB,CAAC;AAElF,MAAM,MAAM,SAAS,GAAG,CAAC,GAAG,IAAI,EAAE,GAAG,EAAE,KAAK,IAAI,GAAG,OAAO,CAAC,IAAI,CAAC,CAAC;AACjE,MAAM,MAAM,eAAe,GAAG,MAAM,CAAC,MAAM,EAAE,SAAS,CAAC,CAAC;AAUxD,wBAAgB,oBAAoB,CAAC,IAAI,EAAE,WAAW,EAAE,QAAQ,EAAE,eAAe,GAAG,OAAO,CAS1F"}
|
|
@@ -5,6 +5,13 @@
|
|
|
5
5
|
* runtime action functions.
|
|
6
6
|
*/
|
|
7
7
|
import { Command } from "commander";
|
|
8
|
+
/**
|
|
9
|
+
* Attribute names commander reserves for its built-in flags. `.version()`
|
|
10
|
+
* registers `--version` on the program (and it propagates to subcommands);
|
|
11
|
+
* `--help` is auto-added to every command. A spec data option with either
|
|
12
|
+
* name silently triggers the built-in action instead of binding a value.
|
|
13
|
+
*/
|
|
14
|
+
const RESERVED_OPTION_NAMES = new Set(["version", "help"]);
|
|
8
15
|
export function buildProgramFromSpec(spec, handlers) {
|
|
9
16
|
validateSpec(spec, handlers);
|
|
10
17
|
const program = new Command();
|
|
@@ -35,6 +42,11 @@ function validateSpec(spec, handlers) {
|
|
|
35
42
|
const seenOptions = new Set();
|
|
36
43
|
const checkOptName = (flags) => {
|
|
37
44
|
const optName = attributeNameFromFlags(flags);
|
|
45
|
+
if (RESERVED_OPTION_NAMES.has(optName)) {
|
|
46
|
+
throw new Error(`Option "--${optName}" on command "${cmd.name}" collides with commander's built-in ` +
|
|
47
|
+
`--${optName} flag (it would silently trigger ${optName === "version" ? "the version" : "the help"} ` +
|
|
48
|
+
`action instead of binding). Rename it (e.g. --tool-version).`);
|
|
49
|
+
}
|
|
38
50
|
if (seenOptions.has(optName)) {
|
|
39
51
|
throw new Error(`Duplicate option "${optName}" on command "${cmd.name}"`);
|
|
40
52
|
}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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|
|
1
|
+
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|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@galaxy-tool-util/cli",
|
|
3
|
-
"version": "1.7.
|
|
3
|
+
"version": "1.7.1",
|
|
4
4
|
"description": "galaxy-tool-cache CLI — cache and inspect Galaxy tool metadata",
|
|
5
5
|
"type": "module",
|
|
6
6
|
"bin": {
|
|
@@ -39,10 +39,10 @@
|
|
|
39
39
|
"effect": "^3.21.0",
|
|
40
40
|
"nunjucks": "^3.2.4",
|
|
41
41
|
"yaml": "^2.8.3",
|
|
42
|
-
"@galaxy-tool-util/connection-validation": "1.7.
|
|
43
|
-
"@galaxy-tool-util/core": "1.7.
|
|
44
|
-
"@galaxy-tool-util/schema": "1.7.
|
|
45
|
-
"@galaxy-tool-util/search": "1.7.
|
|
42
|
+
"@galaxy-tool-util/connection-validation": "1.7.1",
|
|
43
|
+
"@galaxy-tool-util/core": "1.7.1",
|
|
44
|
+
"@galaxy-tool-util/schema": "1.7.1",
|
|
45
|
+
"@galaxy-tool-util/search": "1.7.1"
|
|
46
46
|
},
|
|
47
47
|
"devDependencies": {
|
|
48
48
|
"@types/node": "^25.5.0",
|
|
@@ -15,7 +15,7 @@
|
|
|
15
15
|
],
|
|
16
16
|
"options": [
|
|
17
17
|
{
|
|
18
|
-
"flags": "--version <ver>",
|
|
18
|
+
"flags": "--tool-version <ver>",
|
|
19
19
|
"description": "Tool version"
|
|
20
20
|
},
|
|
21
21
|
{
|
|
@@ -55,7 +55,7 @@
|
|
|
55
55
|
],
|
|
56
56
|
"options": [
|
|
57
57
|
{
|
|
58
|
-
"flags": "--version <ver>",
|
|
58
|
+
"flags": "--tool-version <ver>",
|
|
59
59
|
"description": "Tool version"
|
|
60
60
|
},
|
|
61
61
|
{
|
|
@@ -93,7 +93,7 @@
|
|
|
93
93
|
],
|
|
94
94
|
"options": [
|
|
95
95
|
{
|
|
96
|
-
"flags": "--version <ver>",
|
|
96
|
+
"flags": "--tool-version <ver>",
|
|
97
97
|
"description": "Tool version"
|
|
98
98
|
},
|
|
99
99
|
{
|
|
@@ -123,7 +123,7 @@
|
|
|
123
123
|
],
|
|
124
124
|
"options": [
|
|
125
125
|
{
|
|
126
|
-
"flags": "--version <ver>",
|
|
126
|
+
"flags": "--tool-version <ver>",
|
|
127
127
|
"description": "Tool version"
|
|
128
128
|
},
|
|
129
129
|
{
|