diff-grok 1.2.0 → 1.3.0
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/README.MD +39 -8
- package/dist/index.d.ts +6 -0
- package/{index.js → dist/index.js} +1 -0
- package/dist/index.js.map +1 -0
- package/dist/src/examples/basic-use.d.ts +10 -0
- package/dist/src/examples/basic-use.js.map +1 -0
- package/dist/src/examples/check-methods.d.ts +1 -0
- package/dist/src/examples/check-methods.js.map +1 -0
- package/dist/src/examples/corr-probs.d.ts +15 -0
- package/{src → dist/src}/examples/corr-probs.js +2 -2
- package/dist/src/examples/corr-probs.js.map +1 -0
- package/dist/src/examples/cyclic-model.d.ts +6 -0
- package/dist/src/examples/cyclic-model.js.map +1 -0
- package/dist/src/examples/e5.d.ts +15 -0
- package/dist/src/examples/e5.js.map +1 -0
- package/dist/src/examples/hires.d.ts +15 -0
- package/dist/src/examples/hires.js.map +1 -0
- package/dist/src/examples/index.d.ts +22 -0
- package/dist/src/examples/index.js.map +1 -0
- package/dist/src/examples/model-updates.d.ts +6 -0
- package/dist/src/examples/model-updates.js.map +1 -0
- package/dist/src/examples/orego.d.ts +15 -0
- package/dist/src/examples/orego.js.map +1 -0
- package/dist/src/examples/pipeline-use.d.ts +6 -0
- package/dist/src/examples/pipeline-use.js.map +1 -0
- package/dist/src/examples/pollution.d.ts +15 -0
- package/dist/src/examples/pollution.js.map +1 -0
- package/{src/examples/print-benchmark.ts → dist/src/examples/print-benchmark.d.ts} +8 -58
- package/dist/src/examples/print-benchmark.js.map +1 -0
- package/dist/src/examples/robertson.d.ts +15 -0
- package/{docs/media → dist/src/examples}/robertson.js +2 -2
- package/dist/src/examples/robertson.js.map +1 -0
- package/dist/src/examples/scripting.d.ts +1 -0
- package/dist/src/examples/scripting.js.map +1 -0
- package/dist/src/examples/vdpol.d.ts +15 -0
- package/dist/src/examples/vdpol.js.map +1 -0
- package/dist/src/latex-export/examples/advanced-to-latex.d.ts +2 -0
- package/dist/src/latex-export/examples/advanced-to-latex.js +41 -0
- package/dist/src/latex-export/examples/advanced-to-latex.js.map +1 -0
- package/dist/src/latex-export/examples/basic-to-latex.d.ts +2 -0
- package/dist/src/latex-export/examples/basic-to-latex.js +17 -0
- package/dist/src/latex-export/examples/basic-to-latex.js.map +1 -0
- package/dist/src/latex-export/examples/bioreactor-to-latex-selective.d.ts +2 -0
- package/dist/src/latex-export/examples/bioreactor-to-latex-selective.js +145 -0
- package/dist/src/latex-export/examples/bioreactor-to-latex-selective.js.map +1 -0
- package/dist/src/latex-export/examples/chem-react-to-latex-no-cdot.d.ts +2 -0
- package/dist/src/latex-export/examples/chem-react-to-latex-no-cdot.js +41 -0
- package/dist/src/latex-export/examples/chem-react-to-latex-no-cdot.js.map +1 -0
- package/dist/src/latex-export/examples/energy-n-control-to-markdown.d.ts +2 -0
- package/dist/src/latex-export/examples/energy-n-control-to-markdown.js +58 -0
- package/dist/src/latex-export/examples/energy-n-control-to-markdown.js.map +1 -0
- package/dist/src/latex-export/examples/extended-to-markdown.d.ts +2 -0
- package/dist/src/latex-export/examples/extended-to-markdown.js +37 -0
- package/dist/src/latex-export/examples/extended-to-markdown.js.map +1 -0
- package/dist/src/latex-export/examples/fermentation-to-latex.d.ts +2 -0
- package/dist/src/latex-export/examples/fermentation-to-latex.js +32 -0
- package/dist/src/latex-export/examples/fermentation-to-latex.js.map +1 -0
- package/dist/src/latex-export/examples/ga-production-to-markdown.d.ts +2 -0
- package/dist/src/latex-export/examples/ga-production-to-markdown.js +58 -0
- package/dist/src/latex-export/examples/ga-production-to-markdown.js.map +1 -0
- package/dist/src/latex-export/examples/nimotuzumab-to-latex.d.ts +2 -0
- package/dist/src/latex-export/examples/nimotuzumab-to-latex.js +53 -0
- package/dist/src/latex-export/examples/nimotuzumab-to-latex.js.map +1 -0
- package/dist/src/latex-export/examples/pk-pd-to-markdown-minimal.d.ts +2 -0
- package/dist/src/latex-export/examples/pk-pd-to-markdown-minimal.js +50 -0
- package/dist/src/latex-export/examples/pk-pd-to-markdown-minimal.js.map +1 -0
- package/dist/src/latex-export/examples/pk-to-markdown.d.ts +2 -0
- package/dist/src/latex-export/examples/pk-to-markdown.js +35 -0
- package/dist/src/latex-export/examples/pk-to-markdown.js.map +1 -0
- package/dist/src/latex-export/examples/pollution-to-latex.d.ts +2 -0
- package/dist/src/latex-export/examples/pollution-to-latex.js +141 -0
- package/dist/src/latex-export/examples/pollution-to-latex.js.map +1 -0
- package/dist/src/latex-export/examples/robertson-to-latex-no-meta.d.ts +2 -0
- package/dist/src/latex-export/examples/robertson-to-latex-no-meta.js +25 -0
- package/dist/src/latex-export/examples/robertson-to-latex-no-meta.js.map +1 -0
- package/dist/src/latex-export/generator/bracket-manager.d.ts +19 -0
- package/dist/src/latex-export/generator/bracket-manager.js +58 -0
- package/dist/src/latex-export/generator/bracket-manager.js.map +1 -0
- package/dist/src/latex-export/generator/document-builder.d.ts +13 -0
- package/dist/src/latex-export/generator/document-builder.js +433 -0
- package/dist/src/latex-export/generator/document-builder.js.map +1 -0
- package/dist/src/latex-export/generator/latex-generator.d.ts +23 -0
- package/dist/src/latex-export/generator/latex-generator.js +176 -0
- package/dist/src/latex-export/generator/latex-generator.js.map +1 -0
- package/dist/src/latex-export/index.d.ts +8 -0
- package/dist/src/latex-export/index.js +25 -0
- package/dist/src/latex-export/index.js.map +1 -0
- package/dist/src/latex-export/output/md-formatter.d.ts +16 -0
- package/dist/src/latex-export/output/md-formatter.js +27 -0
- package/dist/src/latex-export/output/md-formatter.js.map +1 -0
- package/dist/src/latex-export/output/tex-formatter.d.ts +5 -0
- package/dist/src/latex-export/output/tex-formatter.js +20 -0
- package/dist/src/latex-export/output/tex-formatter.js.map +1 -0
- package/dist/src/latex-export/parser/ast-parser.d.ts +7 -0
- package/dist/src/latex-export/parser/ast-parser.js +153 -0
- package/dist/src/latex-export/parser/ast-parser.js.map +1 -0
- package/dist/src/latex-export/parser/ivp-parser.d.ts +6 -0
- package/dist/src/latex-export/parser/ivp-parser.js +219 -0
- package/dist/src/latex-export/parser/ivp-parser.js.map +1 -0
- package/dist/src/latex-export/parser/line-joiner.d.ts +25 -0
- package/dist/src/latex-export/parser/line-joiner.js +80 -0
- package/dist/src/latex-export/parser/line-joiner.js.map +1 -0
- package/dist/src/latex-export/parser/tokenizer.d.ts +7 -0
- package/dist/src/latex-export/parser/tokenizer.js +143 -0
- package/dist/src/latex-export/parser/tokenizer.js.map +1 -0
- package/dist/src/latex-export/transformer/functions.d.ts +12 -0
- package/dist/src/latex-export/transformer/functions.js +47 -0
- package/dist/src/latex-export/transformer/functions.js.map +1 -0
- package/dist/src/latex-export/transformer/identifier.d.ts +23 -0
- package/dist/src/latex-export/transformer/identifier.js +194 -0
- package/dist/src/latex-export/transformer/identifier.js.map +1 -0
- package/dist/src/latex-export/transformer/operators.d.ts +9 -0
- package/dist/src/latex-export/transformer/operators.js +41 -0
- package/dist/src/latex-export/transformer/operators.js.map +1 -0
- package/dist/src/latex-export/types.d.ts +122 -0
- package/dist/src/latex-export/types.js +10 -0
- package/dist/src/latex-export/types.js.map +1 -0
- package/{src/pipeline/basic-pipeline-creator.ts → dist/src/pipeline/basic-pipeline-creator.d.ts} +11 -28
- package/dist/src/pipeline/basic-pipeline-creator.js.map +1 -0
- package/dist/src/pipeline/constants.d.ts +14 -0
- package/dist/src/pipeline/constants.js.map +1 -0
- package/dist/src/pipeline/index.d.ts +7 -0
- package/dist/src/pipeline/index.js.map +1 -0
- package/dist/src/pipeline/input.d.ts +3 -0
- package/dist/src/pipeline/input.js.map +1 -0
- package/dist/src/pipeline/loops-pipeline-creator.d.ts +124 -0
- package/dist/src/pipeline/loops-pipeline-creator.js.map +1 -0
- package/dist/src/pipeline/output.d.ts +10 -0
- package/{src → dist/src}/pipeline/output.js +1 -1
- package/dist/src/pipeline/output.js.map +1 -0
- package/dist/src/pipeline/pipeline-creator.d.ts +12 -0
- package/{src → dist/src}/pipeline/pipeline-creator.js +2 -0
- package/dist/src/pipeline/pipeline-creator.js.map +1 -0
- package/{src/pipeline/pipeline.ts → dist/src/pipeline/pipeline.d.ts} +10 -97
- package/dist/src/pipeline/pipeline.js.map +1 -0
- package/{src/pipeline/updates-pipeline-creator.ts → dist/src/pipeline/updates-pipeline-creator.d.ts} +15 -131
- package/dist/src/pipeline/updates-pipeline-creator.js.map +1 -0
- package/dist/src/scripting-tools/constants.d.ts +59 -0
- package/dist/src/scripting-tools/constants.js.map +1 -0
- package/dist/src/scripting-tools/index.d.ts +3 -0
- package/dist/src/scripting-tools/index.js.map +1 -0
- package/dist/src/scripting-tools/model-error.d.ts +10 -0
- package/{src → dist/src}/scripting-tools/model-error.js +2 -1
- package/dist/src/scripting-tools/model-error.js.map +1 -0
- package/dist/src/scripting-tools/scripting-tools.d.ts +277 -0
- package/{src → dist/src}/scripting-tools/scripting-tools.js +2 -4
- package/dist/src/scripting-tools/scripting-tools.js.map +1 -0
- package/dist/src/solver-tools/ab4-method.d.ts +46 -0
- package/{src → dist/src}/solver-tools/ab4-method.js +3 -3
- package/dist/src/solver-tools/ab4-method.js.map +1 -0
- package/dist/src/solver-tools/ab5-method.d.ts +46 -0
- package/{src → dist/src}/solver-tools/ab5-method.js +3 -3
- package/dist/src/solver-tools/ab5-method.js.map +1 -0
- package/dist/src/solver-tools/callbacks/callback-base.d.ts +8 -0
- package/dist/src/solver-tools/callbacks/callback-base.js.map +1 -0
- package/dist/src/solver-tools/callbacks/callback-tools.d.ts +6 -0
- package/dist/src/solver-tools/callbacks/callback-tools.js.map +1 -0
- package/dist/src/solver-tools/callbacks/iter-checker-callback.d.ts +12 -0
- package/{src → dist/src}/solver-tools/callbacks/iter-checker-callback.js +2 -0
- package/dist/src/solver-tools/callbacks/iter-checker-callback.js.map +1 -0
- package/dist/src/solver-tools/callbacks/time-checker-callback.d.ts +12 -0
- package/{src → dist/src}/solver-tools/callbacks/time-checker-callback.js +2 -2
- package/dist/src/solver-tools/callbacks/time-checker-callback.js.map +1 -0
- package/dist/src/solver-tools/cvode/common.d.ts +395 -0
- package/dist/src/solver-tools/cvode/common.js +483 -0
- package/dist/src/solver-tools/cvode/common.js.map +1 -0
- package/dist/src/solver-tools/cvode/cvode.d.ts +23 -0
- package/dist/src/solver-tools/cvode/cvode.js.map +1 -0
- package/dist/src/solver-tools/cvode/cvode_adams.d.ts +22 -0
- package/dist/src/solver-tools/cvode/cvode_adams.js.map +1 -0
- package/dist/src/solver-tools/cvode/cvode_bdf.d.ts +37 -0
- package/dist/src/solver-tools/cvode/cvode_bdf.js.map +1 -0
- package/dist/src/solver-tools/cvode/cvode_class.d.ts +116 -0
- package/{src → dist/src}/solver-tools/cvode/cvode_class.js +9 -4
- package/dist/src/solver-tools/cvode/cvode_class.js.map +1 -0
- package/dist/src/solver-tools/cvode/cvode_hin.d.ts +24 -0
- package/dist/src/solver-tools/cvode/cvode_hin.js.map +1 -0
- package/dist/src/solver-tools/cvode/cvode_io.d.ts +98 -0
- package/{src → dist/src}/solver-tools/cvode/cvode_io.js +1 -2
- package/dist/src/solver-tools/cvode/cvode_io.js.map +1 -0
- package/dist/src/solver-tools/cvode/cvode_ls.d.ts +23 -0
- package/dist/src/solver-tools/cvode/cvode_ls.js.map +1 -0
- package/dist/src/solver-tools/cvode/cvode_nls.d.ts +25 -0
- package/dist/src/solver-tools/cvode/cvode_nls.js.map +1 -0
- package/dist/src/solver-tools/cvode/cvode_root.d.ts +64 -0
- package/dist/src/solver-tools/cvode/cvode_root.js.map +1 -0
- package/dist/src/solver-tools/cvode/dense_linalg.d.ts +50 -0
- package/dist/src/solver-tools/cvode/dense_linalg.js.map +1 -0
- package/dist/src/solver-tools/cvode/index.d.ts +24 -0
- package/dist/src/solver-tools/cvode/index.js.map +1 -0
- package/dist/src/solver-tools/cvode-method.d.ts +47 -0
- package/dist/src/solver-tools/cvode-method.js.map +1 -0
- package/dist/src/solver-tools/index.d.ts +16 -0
- package/dist/src/solver-tools/index.js.map +1 -0
- package/dist/src/solver-tools/lin-alg-tools.d.ts +6 -0
- package/dist/src/solver-tools/lin-alg-tools.js.map +1 -0
- package/dist/src/solver-tools/lsoda/blas.d.ts +59 -0
- package/dist/src/solver-tools/lsoda/blas.js.map +1 -0
- package/{src/solver-tools/lsoda/index.ts → dist/src/solver-tools/lsoda/cfode.d.ts} +7 -6
- package/dist/src/solver-tools/lsoda/cfode.js.map +1 -0
- package/dist/src/solver-tools/lsoda/common.d.ts +85 -0
- package/dist/src/solver-tools/lsoda/common.js +96 -0
- package/dist/src/solver-tools/lsoda/common.js.map +1 -0
- package/{src/solver-tools/lsoda/corfailure.ts → dist/src/solver-tools/lsoda/corfailure.d.ts} +2 -26
- package/dist/src/solver-tools/lsoda/corfailure.js.map +1 -0
- package/dist/src/solver-tools/lsoda/correction.d.ts +23 -0
- package/dist/src/solver-tools/lsoda/correction.js.map +1 -0
- package/dist/src/solver-tools/lsoda/dense.d.ts +47 -0
- package/{src → dist/src}/solver-tools/lsoda/dense.js +2 -0
- package/dist/src/solver-tools/lsoda/dense.js.map +1 -0
- package/dist/src/solver-tools/lsoda/index.d.ts +16 -0
- package/dist/src/solver-tools/lsoda/index.js.map +1 -0
- package/dist/src/solver-tools/lsoda/intdy.d.ts +19 -0
- package/dist/src/solver-tools/lsoda/intdy.js.map +1 -0
- package/dist/src/solver-tools/lsoda/lsoda.d.ts +66 -0
- package/{src → dist/src}/solver-tools/lsoda/lsoda.js +13 -5
- package/dist/src/solver-tools/lsoda/lsoda.js.map +1 -0
- package/dist/src/solver-tools/lsoda/methodswitch.d.ts +21 -0
- package/dist/src/solver-tools/lsoda/methodswitch.js.map +1 -0
- package/dist/src/solver-tools/lsoda/orderswitch.d.ts +21 -0
- package/dist/src/solver-tools/lsoda/orderswitch.js.map +1 -0
- package/dist/src/solver-tools/lsoda/prja.d.ts +18 -0
- package/dist/src/solver-tools/lsoda/prja.js.map +1 -0
- package/dist/src/solver-tools/lsoda/scaleh.d.ts +16 -0
- package/dist/src/solver-tools/lsoda/scaleh.js.map +1 -0
- package/{src/solver-tools/lsoda/solsy.ts → dist/src/solver-tools/lsoda/solsy.d.ts} +2 -15
- package/dist/src/solver-tools/lsoda/solsy.js.map +1 -0
- package/dist/src/solver-tools/lsoda/stoda.d.ts +19 -0
- package/dist/src/solver-tools/lsoda/stoda.js.map +1 -0
- package/dist/src/solver-tools/lsoda-method.d.ts +46 -0
- package/dist/src/solver-tools/lsoda-method.js.map +1 -0
- package/dist/src/solver-tools/mrt-method.d.ts +47 -0
- package/{src → dist/src}/solver-tools/mrt-method.js +2 -2
- package/dist/src/solver-tools/mrt-method.js.map +1 -0
- package/dist/src/solver-tools/rk3-method.d.ts +46 -0
- package/{src → dist/src}/solver-tools/rk3-method.js +2 -2
- package/dist/src/solver-tools/rk3-method.js.map +1 -0
- package/dist/src/solver-tools/rk4-method.d.ts +46 -0
- package/{src → dist/src}/solver-tools/rk4-method.js +2 -2
- package/dist/src/solver-tools/rk4-method.js.map +1 -0
- package/dist/src/solver-tools/rkdp-method.d.ts +46 -0
- package/{src → dist/src}/solver-tools/rkdp-method.js +2 -2
- package/dist/src/solver-tools/rkdp-method.js.map +1 -0
- package/dist/src/solver-tools/ros34prw-method.d.ts +46 -0
- package/{src → dist/src}/solver-tools/ros34prw-method.js +2 -2
- package/dist/src/solver-tools/ros34prw-method.js.map +1 -0
- package/dist/src/solver-tools/ros3prw-method.d.ts +46 -0
- package/{src → dist/src}/solver-tools/ros3prw-method.js +2 -2
- package/dist/src/solver-tools/ros3prw-method.js.map +1 -0
- package/{src/solver-tools/solver-defs.ts → dist/src/solver-tools/solver-defs.d.ts} +45 -85
- package/dist/src/solver-tools/solver-defs.js.map +1 -0
- package/dist/src/worker-tools/index.d.ts +2 -0
- package/dist/src/worker-tools/index.js.map +1 -0
- package/{src/worker-tools/scripting.ts → dist/src/worker-tools/scripting.d.ts} +9 -91
- package/dist/src/worker-tools/scripting.js.map +1 -0
- package/dist/src/worker-tools/solving.d.ts +7 -0
- package/dist/src/worker-tools/solving.js.map +1 -0
- package/package.json +10 -11
- package/.claude/settings.local.json +0 -11
- package/.claude/skills/license-updater/SKILL.md +0 -149
- package/.claude/skills/license-updater/references/compatibility.md +0 -68
- package/.claude/skills/license-updater/references/templates.md +0 -151
- package/.claude/skills/license-updater/scripts/generate_license_files.py +0 -467
- package/.eslintrc.json +0 -45
- package/.github/ISSUE_TEMPLATE/bug_report.md +0 -29
- package/.github/ISSUE_TEMPLATE/feature_request.md +0 -20
- package/.github/PULL_REQUEST_TEMPLATE.md +0 -22
- package/.github/scripts/bump-js-api-version.sh +0 -106
- package/.github/scripts/check-output.sh +0 -20
- package/.github/scripts/iac-cfn-deploy.sh +0 -90
- package/.github/scripts/slack_api_request.sh +0 -65
- package/.github/scripts/test_package.sh +0 -270
- package/.github/workflows/deploy-docs.yml +0 -15
- package/.github/workflows/libraries.yaml +0 -305
- package/.github/workflows/test.yaml +0 -19
- package/CLAUDE.md +0 -104
- package/CONTRIBUTING.md +0 -74
- package/THIRD_PARTY_LICENSES +0 -135
- package/docs/.nojekyll +0 -1
- package/docs/assets/hierarchy.js +0 -1
- package/docs/assets/highlight.css +0 -99
- package/docs/assets/icons.js +0 -18
- package/docs/assets/icons.svg +0 -1
- package/docs/assets/main.js +0 -60
- package/docs/assets/navigation.js +0 -1
- package/docs/assets/search.js +0 -1
- package/docs/assets/style.css +0 -1633
- package/docs/classes/BasicModelPipelineCreator.html +0 -10
- package/docs/classes/Callback.html +0 -7
- package/docs/classes/CyclicModelPipelineCreator.html +0 -10
- package/docs/classes/IterCheckerCallback.html +0 -8
- package/docs/classes/PipelineCreator.html +0 -6
- package/docs/classes/TimeCheckerCallback.html +0 -8
- package/docs/classes/UpdatesModelPipelineCreator.html +0 -10
- package/docs/functions/ab4.html +0 -8
- package/docs/functions/ab5.html +0 -8
- package/docs/functions/applyPipeline.html +0 -9
- package/docs/functions/getCallback.html +0 -3
- package/docs/functions/getIVP.html +0 -6
- package/docs/functions/getInputVector.html +0 -2
- package/docs/functions/getIvp2WebWorker.html +0 -6
- package/docs/functions/getJScode.html +0 -6
- package/docs/functions/getOutputNames.html +0 -4
- package/docs/functions/getPipelineCreator.html +0 -7
- package/docs/functions/lsoda.html +0 -8
- package/docs/functions/mrt.html +0 -11
- package/docs/functions/printE5.html +0 -76
- package/docs/functions/printHires.html +0 -76
- package/docs/functions/printOrego.html +0 -66
- package/docs/functions/printPollution.html +0 -163
- package/docs/functions/printRobertson.html +0 -60
- package/docs/functions/printVdpol.html +0 -66
- package/docs/functions/rk3.html +0 -8
- package/docs/functions/rk4.html +0 -8
- package/docs/functions/rkdp.html +0 -8
- package/docs/functions/ros34prw.html +0 -8
- package/docs/functions/ros3prw.html +0 -8
- package/docs/functions/solveIvp.html +0 -5
- package/docs/hierarchy.html +0 -1
- package/docs/index.html +0 -768
- package/docs/media/CONTRIBUTING.md +0 -74
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- package/docs/media/acid-prod.gif +0 -0
- package/docs/media/basic-use.js.map +0 -1
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# matched_packages+=("$package_json")
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# Replace datagrok-api dependency if it's using a relative path or an -rc version
|
|
64
|
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jq --arg version "^$new_datagrok_version" '.dependencies["datagrok-api"] = $version' "$package_json" > temp.json && mv temp.json "$package_json"
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|
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for package_json in $(find libraries packages -name 'package.json' -not -path '*/node_modules/*'); do
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matched="$(replace_datagrok_api "$package_json")"
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|
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matched_packages+=("${matched}")
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|
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echo "Updated $matched to new datagrok-api and version $(jq -r '.version' "$matched")"
|
|
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|
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fi
|
|
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|
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done
|
|
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|
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|
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80
|
-
# Update dependencies where matched packages are used, excluding node_modules and preventing updates to the package's own dependency
|
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|
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replace_others() {
|
|
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|
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local package_json=$1
|
|
83
|
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shift
|
|
84
|
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local matches=("$@")
|
|
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|
|
86
|
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package_self_name=$(jq -r '.name' "$package_json")
|
|
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|
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|
|
88
|
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for matched_package in "${matches[@]}"; do
|
|
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|
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|
|
90
|
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package_name=$(jq -r '.name' "$matched_package")
|
|
91
|
-
package_version=$(jq -r '.version' "$matched_package")
|
|
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|
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|
|
93
|
-
# Only update if the dependency already exists in the package.json and avoid self-update
|
|
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|
-
levels=("dependencies" "devDependencies")
|
|
95
|
-
for level in "${levels[@]}"; do
|
|
96
|
-
if [[ "$package_self_name" != "$package_name" ]] && [ -n "$(jq --arg name "$package_name" --arg level "$level" '. | select( has($level) == true ) | .[$level] | select( has($name) == true )' "$package_json")" ]; then
|
|
97
|
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jq --arg name "$package_name" --arg version "^$package_version" --arg level "$level" '.[$level][$name] = $version' "$package_json" > temp.json && mv temp.json "$package_json"
|
|
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|
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|
|
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|
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|
|
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|
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fi
|
|
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|
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done
|
|
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|
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done
|
|
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|
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}
|
|
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|
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for package_json in $(find libraries packages -name 'package.json' -not -path '*/node_modules/*'); do
|
|
105
|
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replace_others "$package_json" "${matched_packages[@]}"
|
|
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|
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done
|
|
@@ -1,20 +0,0 @@
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|
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#!/bin/bash
|
|
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|
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|
|
3
|
-
set -xe
|
|
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|
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|
|
5
|
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command=$1
|
|
6
|
-
expected_result=$2
|
|
7
|
-
exact_match=${3:-false}
|
|
8
|
-
|
|
9
|
-
result=$(eval "$command")
|
|
10
|
-
|
|
11
|
-
if [[ "$exact_match" == "true" ]]; then
|
|
12
|
-
if [[ "$result" == "$expected_result" ]]; then
|
|
13
|
-
exit 0
|
|
14
|
-
else
|
|
15
|
-
exit 1
|
|
16
|
-
fi
|
|
17
|
-
else
|
|
18
|
-
echo -e "${result}"
|
|
19
|
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echo -e "${result}" | grep -i "${expected_result}"
|
|
20
|
-
fi
|
|
@@ -1,90 +0,0 @@
|
|
|
1
|
-
#!/bin/bash
|
|
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|
-
|
|
3
|
-
set -ex
|
|
4
|
-
|
|
5
|
-
action=${1:-'merge,lint'}
|
|
6
|
-
|
|
7
|
-
if [[ $action == *"merge"* ]]; then
|
|
8
|
-
echo "Installing dependencies for merge script..."
|
|
9
|
-
python3 -V
|
|
10
|
-
python3 -m pip install pyyaml deepmerge argparse cfn-lint awscli
|
|
11
|
-
echo "Creating CFN scripts from templates using merge script..."
|
|
12
|
-
python3 help/deploy/aws/cloudformation/templates/cf_template_merge.py -i help/deploy/aws/cloudformation/templates/create_network.template.yml \
|
|
13
|
-
-i help/deploy/aws/cloudformation/templates/fargate.template.yml \
|
|
14
|
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-i help/deploy/aws/cloudformation/templates/r53.template.yml \
|
|
15
|
-
-i help/deploy/aws/cloudformation/templates/marketplace.template.yml \
|
|
16
|
-
-i help/deploy/aws/cloudformation/templates/versions.template.yml \
|
|
17
|
-
-o help/deploy/aws/cloudformation/network-fargate-r53-marketplace.yml
|
|
18
|
-
python3 help/deploy/aws/cloudformation/templates/cf_template_merge.py -i help/deploy/aws/cloudformation/templates/create_network.template.yml \
|
|
19
|
-
-i help/deploy/aws/cloudformation/templates/fargate.template.yml \
|
|
20
|
-
-i help/deploy/aws/cloudformation/templates/dns.template.yml \
|
|
21
|
-
-i help/deploy/aws/cloudformation/templates/marketplace.template.yml \
|
|
22
|
-
-i help/deploy/aws/cloudformation/templates/versions.template.yml \
|
|
23
|
-
-o help/deploy/aws/cloudformation/network-fargate-dns-marketplace.yml
|
|
24
|
-
python3 help/deploy/aws/cloudformation/templates/cf_template_merge.py -i help/deploy/aws/cloudformation/templates/choose_vpc.template.yml \
|
|
25
|
-
-i help/deploy/aws/cloudformation/templates/fargate.template.yml \
|
|
26
|
-
-i help/deploy/aws/cloudformation/templates/dns.template.yml \
|
|
27
|
-
-i help/deploy/aws/cloudformation/templates/marketplace.template.yml \
|
|
28
|
-
-i help/deploy/aws/cloudformation/templates/versions.template.yml \
|
|
29
|
-
-o help/deploy/aws/cloudformation/vpc-fargate-dns-marketplace.yml
|
|
30
|
-
python3 help/deploy/aws/cloudformation/templates/cf_template_merge.py -i help/deploy/aws/cloudformation/templates/choose_vpc.template.yml \
|
|
31
|
-
-i help/deploy/aws/cloudformation/templates/fargate.template.yml \
|
|
32
|
-
-i help/deploy/aws/cloudformation/templates/r53.template.yml \
|
|
33
|
-
-i help/deploy/aws/cloudformation/templates/marketplace.template.yml \
|
|
34
|
-
-i help/deploy/aws/cloudformation/templates/versions.template.yml \
|
|
35
|
-
-o help/deploy/aws/cloudformation/vpc-fargate-r53-marketplace.yml
|
|
36
|
-
python3 help/deploy/aws/cloudformation/templates/cf_template_merge.py -i help/deploy/aws/cloudformation/templates/create_network.template.yml \
|
|
37
|
-
-i help/deploy/aws/cloudformation/templates/fargate.template.yml \
|
|
38
|
-
-i help/deploy/aws/cloudformation/templates/r53.template.yml \
|
|
39
|
-
-i help/deploy/aws/cloudformation/templates/basic.template.yml \
|
|
40
|
-
-i help/deploy/aws/cloudformation/templates/versions.template.yml \
|
|
41
|
-
-o help/deploy/aws/cloudformation/network-fargate-r53-basic.yml
|
|
42
|
-
python3 help/deploy/aws/cloudformation/templates/cf_template_merge.py -i help/deploy/aws/cloudformation/templates/choose_vpc.template.yml \
|
|
43
|
-
-i help/deploy/aws/cloudformation/templates/fargate.template.yml \
|
|
44
|
-
-i help/deploy/aws/cloudformation/templates/r53.template.yml \
|
|
45
|
-
-i help/deploy/aws/cloudformation/templates/basic.template.yml \
|
|
46
|
-
-i help/deploy/aws/cloudformation/templates/versions.template.yml \
|
|
47
|
-
-o help/deploy/aws/cloudformation/vpc-fargate-r53-basic.yml
|
|
48
|
-
python3 help/deploy/aws/cloudformation/templates/cf_template_merge.py -i help/deploy/aws/cloudformation/templates/create_network.template.yml \
|
|
49
|
-
-i help/deploy/aws/cloudformation/templates/fargate.template.yml \
|
|
50
|
-
-i help/deploy/aws/cloudformation/templates/dns.template.yml \
|
|
51
|
-
-i help/deploy/aws/cloudformation/templates/basic.template.yml \
|
|
52
|
-
-i help/deploy/aws/cloudformation/templates/versions.template.yml \
|
|
53
|
-
-o help/deploy/aws/cloudformation/network-fargate-dns-basic.yml
|
|
54
|
-
python3 help/deploy/aws/cloudformation/templates/cf_template_merge.py -i help/deploy/aws/cloudformation/templates/choose_vpc.template.yml \
|
|
55
|
-
-i help/deploy/aws/cloudformation/templates/fargate.template.yml \
|
|
56
|
-
-i help/deploy/aws/cloudformation/templates/dns.template.yml \
|
|
57
|
-
-i help/deploy/aws/cloudformation/templates/basic.template.yml \
|
|
58
|
-
-i help/deploy/aws/cloudformation/templates/versions.template.yml \
|
|
59
|
-
-o help/deploy/aws/cloudformation/vpc-fargate-dns-basic.yml
|
|
60
|
-
fi
|
|
61
|
-
|
|
62
|
-
if [[ $action == *"lint"* ]]; then
|
|
63
|
-
echo "Linting CFN scripts..."
|
|
64
|
-
cfn-lint --version
|
|
65
|
-
cfn-lint -t help/deploy/aws/cloudformation/*.yml || true
|
|
66
|
-
fi
|
|
67
|
-
|
|
68
|
-
if [[ $action == *"deploy"* ]]; then
|
|
69
|
-
yq -V
|
|
70
|
-
datagrok_version=$(yq .Parameters.DatagrokVersion.Default help/deploy/aws/cloudformation/templates/versions.template.yml)
|
|
71
|
-
|
|
72
|
-
echo "Copying to S3 basic CFN scripts..."
|
|
73
|
-
for f in help/deploy/aws/cloudformation/*-basic.yml; do
|
|
74
|
-
file=$(basename "$f")
|
|
75
|
-
aws s3 cp "$f" "s3://datagrok-data/deployment/$file" --acl public-read;
|
|
76
|
-
done
|
|
77
|
-
|
|
78
|
-
|
|
79
|
-
echo "Copying to S3 CFN scripts for AWS marketplace..."
|
|
80
|
-
for f in help/deploy/aws/cloudformation/*-marketplace.yml; do
|
|
81
|
-
file=$(basename "$f")
|
|
82
|
-
latest_s3_pushed=$(aws s3api list-objects-v2 --bucket datagrok-data --prefix "deployment/${file%.yml}-${datagrok_version}" --query 'Contents == null || (Contents| sort_by(@, &LastModified) | [-1].Key)' --output text)
|
|
83
|
-
if [[ $latest_s3_pushed == "True" ]]; then
|
|
84
|
-
new_version="deployment/${file%.yml}-${datagrok_version}-0.yml"
|
|
85
|
-
else
|
|
86
|
-
new_version=$(echo "$latest_s3_pushed" | sed -E 's/(.+-)([0-9]+)(\.yml)/echo "\1$((\2+1))\3"/e')
|
|
87
|
-
fi
|
|
88
|
-
aws s3 cp "$f" "s3://datagrok-data/${new_version}" --acl public-read;
|
|
89
|
-
done
|
|
90
|
-
fi
|
|
@@ -1,65 +0,0 @@
|
|
|
1
|
-
#!/bin/bash
|
|
2
|
-
|
|
3
|
-
#set -x
|
|
4
|
-
|
|
5
|
-
# Function to make a Slack API request and handle rate limiting (status 429)
|
|
6
|
-
slack_api_request() {
|
|
7
|
-
local url=$1 # Slack API URL
|
|
8
|
-
local method=$2 # HTTP method (GET, POST, etc.)
|
|
9
|
-
local token=$3 # Slack token
|
|
10
|
-
local data=$4 # Optional JSON data for the request
|
|
11
|
-
|
|
12
|
-
MAX_RETRIES=5
|
|
13
|
-
RETRY_COUNT=0
|
|
14
|
-
SUCCESS=false
|
|
15
|
-
|
|
16
|
-
while [ "$SUCCESS" = false ] && [ "$RETRY_COUNT" -lt "$MAX_RETRIES" ]; do
|
|
17
|
-
# echo "Making request to Slack API: $url (Attempt #$((RETRY_COUNT+1)))"
|
|
18
|
-
|
|
19
|
-
# Send API request
|
|
20
|
-
if [ "$method" = "POST" ]; then
|
|
21
|
-
RESPONSE=$(curl -s -w "%{http_code}" -X POST "$url" \
|
|
22
|
-
-H "Authorization: Bearer $token" \
|
|
23
|
-
-H "Content-Type: application/json; charset=utf-8" \
|
|
24
|
-
--data "$data")
|
|
25
|
-
else
|
|
26
|
-
RESPONSE=$(curl -s -w "%{http_code}" -X "$method" "$url$data" \
|
|
27
|
-
-H "Authorization: Bearer $token" \
|
|
28
|
-
-H "Content-Type: application/json; charset=utf-8")
|
|
29
|
-
fi
|
|
30
|
-
|
|
31
|
-
# Extract HTTP status code
|
|
32
|
-
HTTP_STATUS="${RESPONSE: -3}"
|
|
33
|
-
BODY="${RESPONSE%$HTTP_STATUS}"
|
|
34
|
-
|
|
35
|
-
if [ "$HTTP_STATUS" -eq 429 ]; then
|
|
36
|
-
# Rate limit hit, extract Retry-After header and wait
|
|
37
|
-
# echo "Rate limit hit..."
|
|
38
|
-
sleep 5
|
|
39
|
-
RETRY_COUNT=$((RETRY_COUNT+1))
|
|
40
|
-
else
|
|
41
|
-
echo "$BODY"
|
|
42
|
-
SUCCESS=true
|
|
43
|
-
fi
|
|
44
|
-
done
|
|
45
|
-
|
|
46
|
-
if [ "$SUCCESS" = false ]; then
|
|
47
|
-
echo "Failed to complete the request after $MAX_RETRIES retries due to rate limits."
|
|
48
|
-
exit 1
|
|
49
|
-
fi
|
|
50
|
-
}
|
|
51
|
-
|
|
52
|
-
# Check if parameters are provided correctly
|
|
53
|
-
if [ -z "$1" ] || [ -z "$2" ]; then
|
|
54
|
-
echo "Usage: slack_api_request.sh <API_URL> <HTTP_METHOD> <SLACK_TOKEN> [<JSON_DATA>]"
|
|
55
|
-
exit 1
|
|
56
|
-
fi
|
|
57
|
-
|
|
58
|
-
# Extract input parameters
|
|
59
|
-
SLACK_API_URL="$1"
|
|
60
|
-
HTTP_METHOD="$2"
|
|
61
|
-
SLACK_TOKEN="$3"
|
|
62
|
-
JSON_DATA="$4"
|
|
63
|
-
|
|
64
|
-
# Call the Slack API request function
|
|
65
|
-
slack_api_request "$SLACK_API_URL" "$HTTP_METHOD" "$SLACK_TOKEN" "$JSON_DATA"
|
|
@@ -1,270 +0,0 @@
|
|
|
1
|
-
#!/bin/bash
|
|
2
|
-
|
|
3
|
-
set -x -o pipefail
|
|
4
|
-
|
|
5
|
-
crnt=$(pwd)
|
|
6
|
-
|
|
7
|
-
PACKAGE=$1
|
|
8
|
-
|
|
9
|
-
SKIP_CLEANUP=$2
|
|
10
|
-
|
|
11
|
-
DIR="packages/$PACKAGE"
|
|
12
|
-
|
|
13
|
-
dockers=$(find ${DIR}/dockerfiles -type f -name Dockerfile | tr '\n' ' ')
|
|
14
|
-
|
|
15
|
-
profiles='--profile datagrok --profile db'
|
|
16
|
-
if [ -d "${DIR}/dockerfiles" ]; then
|
|
17
|
-
profiles+=' --profile grok_spawner'
|
|
18
|
-
|
|
19
|
-
for dockerfile in $(echo -e $dockers); do
|
|
20
|
-
docker_config_file="$(dirname $dockerfile)/container.json"
|
|
21
|
-
cp $docker_config_file $docker_config_file.bkp
|
|
22
|
-
if [ -f "${docker_config_file}" ]; then
|
|
23
|
-
jq 'del(.gpu)' ${docker_config_file} > temp.json && mv temp.json ${docker_config_file}
|
|
24
|
-
fi
|
|
25
|
-
done
|
|
26
|
-
fi
|
|
27
|
-
|
|
28
|
-
if [ -d "${DIR}/connections" ] || [[ -n $(find ${DIR}/node_modules/@datagrok -type d -name connections) ]] || \
|
|
29
|
-
[ -d "${DIR}/queries" ] || [[ -n $(find ${DIR}/node_modules/@datagrok -type d -name queries) ]]; then
|
|
30
|
-
profiles+=' --profile grok_connect'
|
|
31
|
-
fi
|
|
32
|
-
|
|
33
|
-
grok_deps="$(jq -r '. | select( has("devDependencies") == true ).devDependencies | to_entries[] | .key | select(test("@datagrok/.*")?)' ${DIR}/package.json)"
|
|
34
|
-
if [[ "$(tr '[:upper:]' '[:lower:]' <<<${PACKAGE})" == "chem" ]] || \
|
|
35
|
-
[[ "$(tr '[:upper:]' '[:lower:]' <<<${PACKAGE})" == "simpkpd" ]] || \
|
|
36
|
-
[[ "$(tr '[:upper:]' '[:lower:]' <<<${PACKAGE})" == "dendrogram" ]] || \
|
|
37
|
-
[[ "$(tr '[:upper:]' '[:lower:]' <<<${PACKAGE})" == "cvmtests" ]] || \
|
|
38
|
-
[[ "$(tr '[:upper:]' '[:lower:]' <<<${PACKAGE})" == "samples" ]] || \
|
|
39
|
-
[[ "$(tr '[:upper:]' '[:lower:]' <<<${grok_deps})" == *"chem"* ]] || \
|
|
40
|
-
[[ "$(tr '[:upper:]' '[:lower:]' <<<${grok_deps})" == *"simpkpd"* ]] || \
|
|
41
|
-
[[ "$(tr '[:upper:]' '[:lower:]' <<<${grok_deps})" == *"cvmtests"* ]] || \
|
|
42
|
-
[[ "$(tr '[:upper:]' '[:lower:]' <<<${grok_deps})" == *"dendrogram"* ]] || \
|
|
43
|
-
[[ "$(tr '[:upper:]' '[:lower:]' <<<${grok_deps})" == *"samples"* ]]; then
|
|
44
|
-
echo "Add Scripting as dependency for package ${PACKAGE}"
|
|
45
|
-
profiles+=' --profile scripting'
|
|
46
|
-
fi
|
|
47
|
-
|
|
48
|
-
dependencies="$(jq '(. | select( has("dependencies") == true ).dependencies) * (. | select( has("devDependencies") == true ).devDependencies)' "${DIR}/package.json")"
|
|
49
|
-
unpublished_deps="$(jq -r '. | to_entries | map(select(.value | match("\\.\\./.*")))[] | "\(.key)=\(.value)"' <<<$dependencies | tr '\n' ' ')"
|
|
50
|
-
if [[ "${unpublished_deps}" == "" ]] && [[ "$(tr '[:upper:]' '[:lower:]' <<<${PACKAGE})" != *"tests"* ]]; then
|
|
51
|
-
DATAGROK_VERSION='latest'
|
|
52
|
-
else
|
|
53
|
-
DATAGROK_VERSION='bleeding-edge'
|
|
54
|
-
export GROK_SPAWNER_VERSION='bleeding-edge'
|
|
55
|
-
export GROK_JUPYTER_KERNEL_GATEWAY_VERSION='bleeding-edge'
|
|
56
|
-
fi
|
|
57
|
-
export DATAGROK_VERSION
|
|
58
|
-
|
|
59
|
-
export DATAGROK_PORT=8765
|
|
60
|
-
export GROK_SPAWNER_PORT=8785
|
|
61
|
-
export GROK_CONNECT_PORT=2345
|
|
62
|
-
export DATAGROK_DB_PORT=15434
|
|
63
|
-
|
|
64
|
-
cp docker/localhost.docker-compose.yaml docker/github_actions.docker-compose.yaml
|
|
65
|
-
sed -i '/"dbServer": "database"/a\ \ \ \ \ \ \ \ \ \ "initialSetupCompleted": true,' docker/github_actions.docker-compose.yaml || exit 1
|
|
66
|
-
|
|
67
|
-
datlasUrl="http://127.0.0.1:${DATAGROK_PORT}"
|
|
68
|
-
apiUrl="http://127.0.0.1:${DATAGROK_PORT}/api"
|
|
69
|
-
alias='githubactions'
|
|
70
|
-
|
|
71
|
-
# Cleanup function (like 'finally')
|
|
72
|
-
cleanup() {
|
|
73
|
-
if [ -z "$SKIP_CLEANUP" ]; then
|
|
74
|
-
echo "Performing cleanup..."
|
|
75
|
-
cd ${crnt} || exit 1
|
|
76
|
-
|
|
77
|
-
git status
|
|
78
|
-
git checkout .
|
|
79
|
-
git stash pop
|
|
80
|
-
if [ -d "${DIR}/dockerfiles" ]; then
|
|
81
|
-
for dockerfile in $(echo -e $dockers); do
|
|
82
|
-
docker_config_file="$(dirname $dockerfile)/container.json"
|
|
83
|
-
mv $docker_config_file.bkp $docker_config_file
|
|
84
|
-
done
|
|
85
|
-
fi
|
|
86
|
-
docker compose -p ${alias} -f "docker/github_actions.docker-compose.yaml" --profile all down --volumes
|
|
87
|
-
docker rm -f $(docker ps --format {{.Names}} | grep ${alias}) || true
|
|
88
|
-
docker compose -p ${alias} -f "docker/github_actions.docker-compose.yaml" --profile all down --volumes
|
|
89
|
-
rm -rf "docker/github_actions.docker-compose.yaml"
|
|
90
|
-
else
|
|
91
|
-
echo "Cleanup is skipped."
|
|
92
|
-
fi
|
|
93
|
-
}
|
|
94
|
-
|
|
95
|
-
# Trap EXIT to always run the cleanup function
|
|
96
|
-
trap cleanup EXIT
|
|
97
|
-
|
|
98
|
-
docker compose -p ${alias} -f "docker/github_actions.docker-compose.yaml" --profile all down --volumes || exit 1
|
|
99
|
-
docker rm -f $(docker ps --format {{.Names}} | grep ${alias}) || true
|
|
100
|
-
docker compose -p ${alias} -f "docker/github_actions.docker-compose.yaml" ${profiles} pull || exit 1
|
|
101
|
-
docker compose -p ${alias} -f "docker/github_actions.docker-compose.yaml" ${profiles} up -d || exit 1
|
|
102
|
-
|
|
103
|
-
cd ${DIR} || exit 1
|
|
104
|
-
git stash save -u "${alias}"
|
|
105
|
-
echo 'Removing...'
|
|
106
|
-
git clean -ndX
|
|
107
|
-
git clean -fdX
|
|
108
|
-
npm install
|
|
109
|
-
if [[ "${unpublished_deps}" != "" ]]; then
|
|
110
|
-
grok link
|
|
111
|
-
fi
|
|
112
|
-
npm run build -- --mode=production || exit 1
|
|
113
|
-
|
|
114
|
-
cd ${crnt} || exit 1
|
|
115
|
-
|
|
116
|
-
until .github/scripts/check-output.sh "curl -s ${apiUrl}/info/server" '"Http Server"'
|
|
117
|
-
do
|
|
118
|
-
sleep 1
|
|
119
|
-
done
|
|
120
|
-
token=$(curl -s -X POST ${apiUrl}/users/login/dev/admin | jq -r .token)
|
|
121
|
-
# Check if the token is null
|
|
122
|
-
if [ "$token" == "null" ] || [ -z "$token" ]; then
|
|
123
|
-
echo "Error: Token is null or empty."
|
|
124
|
-
exit 1
|
|
125
|
-
else
|
|
126
|
-
echo "Token is valid: $token"
|
|
127
|
-
fi
|
|
128
|
-
long_term_token=$(curl -s -X POST "${apiUrl}/users/sessions/current/refresh" -H "Authorization: ${token}" | jq -r .token)
|
|
129
|
-
# Check if the token is null
|
|
130
|
-
if [ "$long_term_token" == "null" ] || [ -z "$long_term_token" ]; then
|
|
131
|
-
echo "Error: Token is null or empty."
|
|
132
|
-
exit 1
|
|
133
|
-
else
|
|
134
|
-
echo "Token is valid: $token"
|
|
135
|
-
fi
|
|
136
|
-
curl -s -H "Authorization: $long_term_token" -H "Content-Type": "application/json" "${apiUrl}/admin/plugins/admin/settings" -X POST -d "{\"#type\":\"AdminPluginSettings\", \"agreementDate\":null, \"webRoot\": \"${datlasUrl}\", \"apiRoot\": \"${apiUrl}\"}" || exit 1
|
|
137
|
-
|
|
138
|
-
key='admin'
|
|
139
|
-
grok config add --default --alias ${alias} --server "${apiUrl}" --key "$key" || exit 1
|
|
140
|
-
|
|
141
|
-
cd ${DIR} || exit 1
|
|
142
|
-
grok_deps="$(jq -r '. | select( has("devDependencies") == true ).devDependencies | to_entries[] | .key | select(test("@datagrok/.*")?)' package.json)"
|
|
143
|
-
if [ -n "$grok_deps" ]; then
|
|
144
|
-
for dep in $grok_deps; do
|
|
145
|
-
current_dir=$(pwd)
|
|
146
|
-
cd $(echo "node_modules/$dep" | tr -d '\r') || exit 1
|
|
147
|
-
count=0
|
|
148
|
-
retries=5
|
|
149
|
-
echo "Publishing $dep to ${alias}..."
|
|
150
|
-
until grok publish ${alias}; do
|
|
151
|
-
exit=$?
|
|
152
|
-
wait=$((2 ** count))
|
|
153
|
-
count=$((count + 1))
|
|
154
|
-
if [ $count -lt "$retries" ]; then
|
|
155
|
-
echo "Retry $count/$retries exited $exit, retrying 'grok publish ${alias}' for $dep in $wait seconds..."
|
|
156
|
-
sleep $wait
|
|
157
|
-
else
|
|
158
|
-
echo "Retry $count/$retries exited $exit, no more retries left for 'grok publish ${alias}' for $dep."
|
|
159
|
-
exit $exit
|
|
160
|
-
fi
|
|
161
|
-
done
|
|
162
|
-
cd $current_dir || exit 1
|
|
163
|
-
done
|
|
164
|
-
fi
|
|
165
|
-
|
|
166
|
-
count=0
|
|
167
|
-
retries=5
|
|
168
|
-
until grok publish ${alias}; do
|
|
169
|
-
exit=$?
|
|
170
|
-
wait=$((2 ** count))
|
|
171
|
-
count=$((count + 1))
|
|
172
|
-
if [ "$count" -lt "$retries" ]; then
|
|
173
|
-
echo "Retry $count/$retries exited $exit, retrying 'grok publish ${alias}' in $wait seconds..."
|
|
174
|
-
sleep $wait
|
|
175
|
-
else
|
|
176
|
-
echo "Retry $count/$retries exited $exit, no more retries left for 'grok publish ${alias}'."
|
|
177
|
-
exit $exit
|
|
178
|
-
fi
|
|
179
|
-
done
|
|
180
|
-
|
|
181
|
-
cd ${crnt} || exit 1
|
|
182
|
-
|
|
183
|
-
if [[ "${PACKAGE}" == "Chemspace" ]]; then
|
|
184
|
-
curl -s -H "Authorization: $long_term_token" -H "Content-Type": "application/json" "${apiUrl}/credentials/for/Chemspace.Chemspace" -X POST -d "{\"apiKey\": \"$CHEMSPACE_APIKEY\"}"
|
|
185
|
-
fi
|
|
186
|
-
|
|
187
|
-
check_container=false
|
|
188
|
-
for dockerfile in $(echo -e ${dockers}); do
|
|
189
|
-
docker_config_file="$(dirname $dockerfile)/container.json"
|
|
190
|
-
if [ -f "${docker_config_file}" ]; then
|
|
191
|
-
on_demand=$(jq '.on_demand' ${docker_config_file})
|
|
192
|
-
if [ "$on_demand" == "true" ]; then
|
|
193
|
-
check_container=false
|
|
194
|
-
else
|
|
195
|
-
check_container=true
|
|
196
|
-
break
|
|
197
|
-
fi
|
|
198
|
-
else
|
|
199
|
-
check_container=true
|
|
200
|
-
break
|
|
201
|
-
fi
|
|
202
|
-
done
|
|
203
|
-
|
|
204
|
-
|
|
205
|
-
token=$(curl -s -X POST ${apiUrl}/users/login/dev/admin | jq -r .token)
|
|
206
|
-
# Check if the token is null
|
|
207
|
-
if [ "$token" == "null" ] || [ -z "$token" ]; then
|
|
208
|
-
echo "Error: Token is null or empty."
|
|
209
|
-
exit 1
|
|
210
|
-
else
|
|
211
|
-
echo "Token is valid: $token"
|
|
212
|
-
fi
|
|
213
|
-
long_term_token=$(curl -s -X POST "${apiUrl}/users/sessions/current/refresh" -H "Authorization: ${token}" | jq -r .token)
|
|
214
|
-
# Check if the token is null
|
|
215
|
-
if [ "$long_term_token" == "null" ] || [ -z "$long_term_token" ]; then
|
|
216
|
-
echo "Error: Token is null or empty."
|
|
217
|
-
exit 1
|
|
218
|
-
else
|
|
219
|
-
echo "Token is valid: $token"
|
|
220
|
-
fi
|
|
221
|
-
|
|
222
|
-
if [[ "${check_container}" == "true" ]] ; then
|
|
223
|
-
if [[ "${alias}" == "test" ]]; then
|
|
224
|
-
key="$TEST_TEST_DEV_KEY"
|
|
225
|
-
elif [[ "${alias}" == "dev" ]]; then
|
|
226
|
-
key="$DEV_TEST_DEV_KEY"
|
|
227
|
-
else
|
|
228
|
-
key='admin'
|
|
229
|
-
fi
|
|
230
|
-
|
|
231
|
-
count=0
|
|
232
|
-
retries=20
|
|
233
|
-
until .github/scripts/check-output.sh "curl -s -H 'Authorization: $long_term_token' '${apiUrl}/docker/containers'" "${PACKAGE}"
|
|
234
|
-
do
|
|
235
|
-
wait=$((2 ** count))
|
|
236
|
-
count=$((count + 1))
|
|
237
|
-
if [ "$count" -lt "$retries" ]; then
|
|
238
|
-
docker compose -p ${alias} -f "docker/github_actions.docker-compose.yaml" --profile all exec db sh -c "PAGER=cat psql -U postgres -d datagrok -c 'SELECT * FROM docker_containers;'"
|
|
239
|
-
sleep $wait
|
|
240
|
-
echo -e "\nContainer for ${PACKAGE} did not start yet..."
|
|
241
|
-
echo -e "\nRetrying '/api/docker/containers'..."
|
|
242
|
-
else
|
|
243
|
-
echo "Retry $count/$retries exited, no more retries left for ${apiUrl}/docker/containers."
|
|
244
|
-
exit 1
|
|
245
|
-
fi
|
|
246
|
-
done
|
|
247
|
-
if [[ "${apiUrl}" == *"127.0.0.1"* ]]; then
|
|
248
|
-
count=0
|
|
249
|
-
retries=20
|
|
250
|
-
until .github/scripts/check-output.sh "docker ps" "${PACKAGE}"
|
|
251
|
-
do
|
|
252
|
-
wait=$((2 ** count))
|
|
253
|
-
count=$((count + 1))
|
|
254
|
-
if [ "$count" -lt "$retries" ]; then
|
|
255
|
-
sleep $wait
|
|
256
|
-
echo -e "\nContainer for ${PACKAGE} did not start yet..."
|
|
257
|
-
echo -e "\nRetrying 'docker ps'..."
|
|
258
|
-
else
|
|
259
|
-
echo "Retry $count/$retries exited, no more retries left for docker ps."
|
|
260
|
-
exit 1
|
|
261
|
-
fi
|
|
262
|
-
done
|
|
263
|
-
fi
|
|
264
|
-
fi
|
|
265
|
-
|
|
266
|
-
cd ${DIR} || exit 1
|
|
267
|
-
|
|
268
|
-
npm run test -- --skip-build --skip-publish --record --csv --host ${alias} --verbose
|
|
269
|
-
|
|
270
|
-
cd ${crnt} || exit 1
|
|
@@ -1,15 +0,0 @@
|
|
|
1
|
-
name: Deploy Docs
|
|
2
|
-
on:
|
|
3
|
-
push:
|
|
4
|
-
branches: [ main ]
|
|
5
|
-
jobs:
|
|
6
|
-
build:
|
|
7
|
-
runs-on: ubuntu-latest
|
|
8
|
-
steps:
|
|
9
|
-
- uses: actions/checkout@v4
|
|
10
|
-
- run: npm ci
|
|
11
|
-
- run: npx typedoc
|
|
12
|
-
- uses: peaceiris/actions-gh-pages@v3
|
|
13
|
-
with:
|
|
14
|
-
github_token: ${{ secrets.GITHUB_TOKEN }}
|
|
15
|
-
publish_dir: ./docs
|