@citeark/agent 0.3.20

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Files changed (347) hide show
  1. package/LICENSE +202 -0
  2. package/README.md +128 -0
  3. package/data/dataset-source-registry.v1.json +300 -0
  4. package/dist/arkgraph/boot.js +6 -0
  5. package/dist/arkgraph/index.html +1 -0
  6. package/dist/arkgraph/viewer.css +1 -0
  7. package/dist/arkgraph/viewer.en.css +1 -0
  8. package/dist/arkgraph/viewer.en.js +49 -0
  9. package/dist/arkgraph/viewer.en.js.LEGAL.txt +56 -0
  10. package/dist/arkgraph/viewer.js +49 -0
  11. package/dist/arkgraph/viewer.js.LEGAL.txt +56 -0
  12. package/docker/claude-code/Dockerfile +97 -0
  13. package/docker/claude-code/codex-pro-relay.mjs +466 -0
  14. package/docker/claude-code/runtime-contract-check.mjs +79 -0
  15. package/docs/arkgraph-reading.md +79 -0
  16. package/docs/configuration.md +100 -0
  17. package/docs/integration.md +92 -0
  18. package/docs/maturity-plan.md +27 -0
  19. package/docs/npm-release.md +44 -0
  20. package/docs/paper-reading.md +40 -0
  21. package/docs/research-plan-granularity.md +27 -0
  22. package/docs/terminal.md +49 -0
  23. package/examples/toy-evaluation/compile-task.json +27 -0
  24. package/examples/toy-evaluation/paper.md +5 -0
  25. package/examples/toy-evaluation/repository/README.md +9 -0
  26. package/examples/toy-evaluation/repository/checkpoint.json +4 -0
  27. package/examples/toy-evaluation/repository/evaluate.py +17 -0
  28. package/examples/toy-evaluation/task.json +81 -0
  29. package/package.json +59 -0
  30. package/prompts/compile-research.md +58 -0
  31. package/prompts/execute-contract.md +72 -0
  32. package/prompts/execute-workspace-simple.md +51 -0
  33. package/prompts/execute-workspace.md +34 -0
  34. package/prompts/prepare-reproduction.md +82 -0
  35. package/prompts/repair-research.md +45 -0
  36. package/protocol/CAP.md +129 -0
  37. package/protocol/LICENSE +12 -0
  38. package/protocol/MAPPINGS.md +72 -0
  39. package/protocol/README.md +38 -0
  40. package/protocol/conformance-v2.0-alpha.1.json +36 -0
  41. package/protocol/examples/arkgraph/checkpoint-evaluation.json +309 -0
  42. package/protocol/examples/arkgraph/fixtures.mjs +49 -0
  43. package/protocol/examples/arkgraph/paper-free.json +291 -0
  44. package/protocol/examples/arkgraph/partial-failure.json +344 -0
  45. package/protocol/examples/arkgraph/training-evaluation.json +443 -0
  46. package/protocol/profiles/agent-trace.md +16 -0
  47. package/protocol/profiles/computational-run.md +16 -0
  48. package/protocol/profiles/core.md +15 -0
  49. package/protocol/profiles/public-bundle.md +18 -0
  50. package/protocol/profiles/reproduction.md +29 -0
  51. package/protocol/profiles/research-compilation.md +44 -0
  52. package/protocol/profiles/research-plan.md +39 -0
  53. package/protocol/profiles/restricted-evidence.md +15 -0
  54. package/runtime/bootstrap-autodl-runtime.sh +314 -0
  55. package/runtime/create-runtime-venv.sh +41 -0
  56. package/runtime/install-local-cpu-runtime.sh +23 -0
  57. package/runtime/install-scientific-runtime.sh +153 -0
  58. package/runtime/mineru/parse.py +62 -0
  59. package/runtime/mineru/requirements.txt +4 -0
  60. package/runtime/requirements-baseline.txt +38 -0
  61. package/schemas/cap/v2/activity.schema.json +47 -0
  62. package/schemas/cap/v2/agent.schema.json +32 -0
  63. package/schemas/cap/v2/assertion.schema.json +110 -0
  64. package/schemas/cap/v2/descriptor.schema.json +243 -0
  65. package/schemas/cap/v2/entity.schema.json +64 -0
  66. package/schemas/cap/v2/manifest.schema.json +67 -0
  67. package/schemas/cap/v2/relation.schema.json +82 -0
  68. package/schemas/compute-catalog.schema.json +63 -0
  69. package/schemas/compute-decision.schema.json +27 -0
  70. package/schemas/execution-contract.schema.json +1024 -0
  71. package/schemas/research-card.schema.json +30 -0
  72. package/schemas/research-inventory-draft.schema.json +366 -0
  73. package/schemas/research.schema.json +1044 -0
  74. package/schemas/result.schema.json +173 -0
  75. package/schemas/verification-policy.schema.json +47 -0
  76. package/schemas/verified-conclusion.schema.json +58 -0
  77. package/schemas/workspace-summary.schema.json +24 -0
  78. package/scripts/build-arkgraph-view.mjs +12 -0
  79. package/scripts/check-execution-feasibility.mjs +24 -0
  80. package/scripts/check-syntax.mjs +15 -0
  81. package/scripts/deterministic-asset-preparation.py +438 -0
  82. package/scripts/package-cap.mjs +23 -0
  83. package/scripts/package-local-agent.mjs +23 -0
  84. package/scripts/preview-arkgraph.mjs +25 -0
  85. package/scripts/replay-research-compiler-candidate.mjs +134 -0
  86. package/scripts/review-compiler-sources.mjs +44 -0
  87. package/scripts/run-asset-preparation.sh +17 -0
  88. package/scripts/run-research-plan.mjs +98 -0
  89. package/scripts/validate-asset-preparation.py +290 -0
  90. package/scripts/verify-local-runtime.mjs +57 -0
  91. package/scripts/verify-npm-package.mjs +57 -0
  92. package/src/adapters/paper2agent.mjs +107 -0
  93. package/src/assets/cache.mjs +159 -0
  94. package/src/assets/compute.mjs +98 -0
  95. package/src/assets/executor.mjs +145 -0
  96. package/src/assets/lifecycle.mjs +213 -0
  97. package/src/assets/manifest.mjs +242 -0
  98. package/src/assets/opportunistic-preparation.mjs +81 -0
  99. package/src/assets/plan.mjs +411 -0
  100. package/src/assets/prompts.mjs +29 -0
  101. package/src/assets/public-asset-probe.mjs +525 -0
  102. package/src/assets/qualification.mjs +119 -0
  103. package/src/assets/readiness.mjs +130 -0
  104. package/src/assets/reproduction-admission.mjs +355 -0
  105. package/src/assets/requirements.mjs +152 -0
  106. package/src/assets/source-grounding.mjs +341 -0
  107. package/src/assets/source-policy.mjs +118 -0
  108. package/src/autodl/client.mjs +260 -0
  109. package/src/autodl/ssh.mjs +380 -0
  110. package/src/autodl/tools.mjs +129 -0
  111. package/src/cap/redaction.mjs +38 -0
  112. package/src/cap/v2/archive.mjs +152 -0
  113. package/src/cap/v2/attestation.mjs +204 -0
  114. package/src/cap/v2/canonical-json.mjs +114 -0
  115. package/src/cap/v2/compilation-artifact.mjs +240 -0
  116. package/src/cap/v2/core.mjs +282 -0
  117. package/src/cap/v2/measurement-assessment-records.mjs +23 -0
  118. package/src/cap/v2/pipeline-artifact.mjs +922 -0
  119. package/src/cap/v2/read.mjs +41 -0
  120. package/src/cap/v2/reassessment-artifact.mjs +383 -0
  121. package/src/cap/v2/research-artifact.mjs +231 -0
  122. package/src/cap/v2/research-map-records.mjs +46 -0
  123. package/src/cap/v2/research-object-records.mjs +163 -0
  124. package/src/cap/v2/research-records.mjs +187 -0
  125. package/src/cap/v2/verify.mjs +642 -0
  126. package/src/cli.mjs +1146 -0
  127. package/src/compute/autodl-pro-compiler.mjs +347 -0
  128. package/src/compute/autodl-pro-executor.mjs +459 -0
  129. package/src/compute/autodl-pro-job.mjs +843 -0
  130. package/src/compute/autodl-pro-network.mjs +295 -0
  131. package/src/compute/autodl-pro-remote.mjs +810 -0
  132. package/src/compute/autodl-pro-staging.mjs +117 -0
  133. package/src/compute/campaign.mjs +110 -0
  134. package/src/compute/catalog.mjs +123 -0
  135. package/src/compute/checkpoint-protocol.mjs +154 -0
  136. package/src/compute/codex-account-lock.mjs +111 -0
  137. package/src/compute/codex-account-session.mjs +107 -0
  138. package/src/compute/compiler-profile.mjs +38 -0
  139. package/src/compute/compiler-router.mjs +23 -0
  140. package/src/compute/coordinator-recovery.mjs +210 -0
  141. package/src/compute/executor-router.mjs +29 -0
  142. package/src/compute/gcp-batch-compiler.mjs +685 -0
  143. package/src/compute/gcp-batch-executor.mjs +1215 -0
  144. package/src/compute/gcp-batch-failure.mjs +92 -0
  145. package/src/compute/gcp-batch-job.mjs +527 -0
  146. package/src/compute/gcp-batch-lifecycle.mjs +81 -0
  147. package/src/compute/gcp-checkpoint-worker.mjs +1633 -0
  148. package/src/compute/local-codex-compiler.mjs +52 -0
  149. package/src/compute/measurement-hardware.mjs +128 -0
  150. package/src/compute/remote-attempt.mjs +226 -0
  151. package/src/compute/requirements.mjs +124 -0
  152. package/src/compute/research-phases.mjs +48 -0
  153. package/src/compute/scheduler.mjs +452 -0
  154. package/src/compute/shared-workloads.mjs +26 -0
  155. package/src/compute/stage-archive.mjs +79 -0
  156. package/src/contracts/campaign-contract.mjs +52 -0
  157. package/src/contracts/execution-contract.mjs +819 -0
  158. package/src/contracts/execution-mode.mjs +19 -0
  159. package/src/contracts/execution-timeouts.mjs +45 -0
  160. package/src/contracts/execution-workload.mjs +68 -0
  161. package/src/contracts/preflight-schema.mjs +25 -0
  162. package/src/contracts/public-contract.mjs +63 -0
  163. package/src/contracts/subject-tags.mjs +31 -0
  164. package/src/dashboard/data.mjs +898 -0
  165. package/src/dashboard/server.mjs +79 -0
  166. package/src/dashboard/static/dashboard.css +366 -0
  167. package/src/dashboard/static/dashboard.js +560 -0
  168. package/src/dashboard/static/index.html +85 -0
  169. package/src/deployment/community-policy.mjs +9 -0
  170. package/src/deployment/environment.mjs +112 -0
  171. package/src/deployment/guided.mjs +98 -0
  172. package/src/deployment/handoff.mjs +102 -0
  173. package/src/deployment/local-contract.mjs +31 -0
  174. package/src/deployment/local.mjs +100 -0
  175. package/src/deployment/prepare.mjs +46 -0
  176. package/src/deployment/recipe.mjs +108 -0
  177. package/src/deployment/supplement.mjs +51 -0
  178. package/src/deployment/terminal.mjs +43 -0
  179. package/src/diagnosis/renderer.mjs +75 -0
  180. package/src/diagnosis/target-failure.mjs +46 -0
  181. package/src/evidence/parser-registry.mjs +54 -0
  182. package/src/evidence/parsers/fasttext-classification.mjs +82 -0
  183. package/src/evidence/parsers/json-scalar.mjs +96 -0
  184. package/src/evidence/parsers/simcse-senteval.mjs +104 -0
  185. package/src/evidence/parsers/starspace-classification.mjs +78 -0
  186. package/src/evidence/registry.mjs +147 -0
  187. package/src/execution/runner-audit.mjs +473 -0
  188. package/src/gcp/auth.mjs +106 -0
  189. package/src/gcp/batch-client.mjs +120 -0
  190. package/src/gcp/resource-discovery.mjs +177 -0
  191. package/src/gcp/rest.mjs +82 -0
  192. package/src/gcp/secret-manager.mjs +34 -0
  193. package/src/gcp/signed-url.mjs +133 -0
  194. package/src/gcp/storage.mjs +220 -0
  195. package/src/graph/command.mjs +41 -0
  196. package/src/graph/execution.mjs +97 -0
  197. package/src/graph/model.mjs +37 -0
  198. package/src/graph/presentation.mjs +110 -0
  199. package/src/graph/query.mjs +159 -0
  200. package/src/graph/research-relations.mjs +69 -0
  201. package/src/graph/source-page.mjs +12 -0
  202. package/src/graph/source-preview.mjs +34 -0
  203. package/src/graph/validate.mjs +76 -0
  204. package/src/job.mjs +496 -0
  205. package/src/network/autodl-routing-proxy.mjs +462 -0
  206. package/src/network/egress-proxy.mjs +158 -0
  207. package/src/observability/event-contract.mjs +230 -0
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  209. package/src/pipeline/orchestrator.mjs +1281 -0
  210. package/src/pipeline/recovery-error.mjs +11 -0
  211. package/src/pipeline/replay.mjs +304 -0
  212. package/src/pipeline/shared-execution.mjs +115 -0
  213. package/src/pipeline/stage-checkpoint.mjs +86 -0
  214. package/src/pipeline/stage-recovery.mjs +101 -0
  215. package/src/pipeline/targets.mjs +110 -0
  216. package/src/process.mjs +143 -0
  217. package/src/protocol.mjs +312 -0
  218. package/src/provider/codex-account.mjs +44 -0
  219. package/src/provider/codex-completion.mjs +49 -0
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  221. package/src/provider/model-client.mjs +44 -0
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  224. package/src/provider/reader-bridge.mjs +35 -0
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  226. package/src/provider/runtime-auth.mjs +40 -0
  227. package/src/public/cap.d.mts +90 -0
  228. package/src/public/cap.mjs +12 -0
  229. package/src/public/contracts.d.mts +2 -0
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  235. package/src/remote/ssh.mjs +59 -0
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  237. package/src/reproduction/evidence-feedback.mjs +96 -0
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  241. package/src/reproduction/prompts.mjs +70 -0
  242. package/src/reproduction/runner.mjs +188 -0
  243. package/src/reproduction/summary.mjs +130 -0
  244. package/src/reproduction/workspace-mode.mjs +7 -0
  245. package/src/research/automatic-admission.mjs +156 -0
  246. package/src/research/compiler-coverage.mjs +85 -0
  247. package/src/research/compiler-failure.mjs +24 -0
  248. package/src/research/compiler-normalization-guards.mjs +112 -0
  249. package/src/research/compiler-repair.mjs +3 -0
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  252. package/src/research/execution-graph-context.mjs +43 -0
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  254. package/src/research/inventory-handoff.mjs +104 -0
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  274. package/src/research-card/verified-conclusion.mjs +143 -0
  275. package/src/results/output-registry.mjs +183 -0
  276. package/src/runtime/claude-code.mjs +52 -0
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package/schemas/compute-catalog.schema.json ADDED
@@ -0,0 +1,63 @@
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+ {
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+ "$schema": "https://json-schema.org/draft/2020-12/schema",
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+ "$id": "https://citeark.com/schemas/compute/catalog-0.1.json",
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+ "title": "CiteArk compute resource catalog",
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+ "type": "object",
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+ "additionalProperties": false,
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+ "required": ["schemaVersion", "profiles"],
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+ "properties": {
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+ "schemaVersion": { "const": "0.1" },
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+ "profiles": {
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+ "type": "array",
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+ "minItems": 1,
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+ "items": {
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+ "type": "object",
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+ "additionalProperties": false,
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+ "required": ["id", "executor", "accelerator", "cpuCores", "memoryGb"],
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+ "properties": {
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+ "id": { "type": "string", "minLength": 1 },
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+ "label": { "type": "string", "minLength": 1 },
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+ "executor": { "type": "string", "minLength": 1 },
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+ "accelerator": { "enum": ["cpu", "gpu"] },
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+ "cpuCores": { "type": "number", "exclusiveMinimum": 0 },
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+ "memoryGb": { "type": "number", "exclusiveMinimum": 0 },
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+ "shmGb": { "type": "number", "exclusiveMinimum": 0 },
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+ "gpu": {
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+ "type": "object",
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+ "required": ["count", "type", "vramGb"],
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+ "properties": {
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+ "count": { "type": "number", "exclusiveMinimum": 0 },
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+ "type": { "type": "string", "minLength": 1 },
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+ "vramGb": { "type": "number", "exclusiveMinimum": 0 }
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+ }
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+ },
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+ "hourlyUsd": { "type": ["number", "null"], "minimum": 0 },
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+ "image": { "type": "string", "minLength": 1 },
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+ "timeoutMinutes": { "type": "number", "exclusiveMinimum": 0 },
37
+ "executorConfig": {
38
+ "type": "object",
39
+ "additionalProperties": false,
40
+ "properties": {
41
+ "projectId": { "type": "string", "minLength": 1 },
42
+ "region": { "type": "string", "minLength": 1 },
43
+ "stagingBucket": { "type": "string", "minLength": 1 },
44
+ "serviceAccount": { "type": "string", "minLength": 1 },
45
+ "machineType": { "type": "string", "minLength": 1 },
46
+ "provisioningModel": { "enum": ["STANDARD", "SPOT", "FLEX_START"] },
47
+ "acceleratorType": { "type": "string", "minLength": 1 },
48
+ "bootDiskType": { "enum": ["pd-standard", "pd-balanced", "pd-ssd"] },
49
+ "bootDiskGb": { "type": "integer", "minimum": 30 },
50
+ "infrastructureRetryCount": { "type": "integer", "minimum": 0, "maximum": 10 },
51
+ "waitTimeoutMinutes": { "type": "integer", "minimum": 1 },
52
+ "checkpointEnabled": { "type": "boolean" },
53
+ "criticalCheckpointIntervalSeconds": { "type": "integer", "minimum": 5 },
54
+ "fullCheckpointIntervalSeconds": { "type": "integer", "minimum": 30 },
55
+ "checkpointRetention": { "type": "integer", "minimum": 1, "maximum": 20 }
56
+ }
57
+ },
58
+ "available": { "type": "boolean" }
59
+ }
60
+ }
61
+ }
62
+ }
63
+ }
package/schemas/compute-decision.schema.json ADDED
@@ -0,0 +1,27 @@
1
+ {
2
+ "$schema": "https://json-schema.org/draft/2020-12/schema",
3
+ "$id": "https://citeark.com/schemas/compute/decision-0.1.json",
4
+ "title": "CiteArk auditable compute decision",
5
+ "type": "object",
6
+ "required": ["schemaVersion", "kind", "requirement", "selectedProfile", "environment", "estimate", "alternatives", "decidedAt", "scheduler", "decisionDigest"],
7
+ "properties": {
8
+ "schemaVersion": { "const": "0.1" },
9
+ "kind": { "const": "citeark.compute-decision" },
10
+ "experimentId": { "type": ["string", "null"] },
11
+ "experimentVersionId": { "type": ["string", "null"] },
12
+ "contractDigest": { "type": ["string", "null"] },
13
+ "requirement": { "type": "object" },
14
+ "selectedProfile": { "type": "object" },
15
+ "environment": { "type": "object" },
16
+ "estimate": { "type": "object" },
17
+ "policy": { "type": "object" },
18
+ "catalogDigest": { "type": "string", "pattern": "^sha256:[0-9a-f]{64}$" },
19
+ "policyDigest": { "type": "string", "pattern": "^sha256:[0-9a-f]{64}$" },
20
+ "reasonCodes": { "type": "array", "items": { "type": "string" } },
21
+ "rationale": { "type": "string" },
22
+ "alternatives": { "type": "array" },
23
+ "decidedAt": { "type": "string" },
24
+ "scheduler": { "type": "object" },
25
+ "decisionDigest": { "type": "string", "pattern": "^sha256:[0-9a-f]{64}$" }
26
+ }
27
+ }