From 559203d234489d6de16b71ffb6f6a48b866de3b5 Mon Sep 17 00:00:00 2001 From: The XDMoD Team Date: Tue, 13 Dec 2016 16:45:25 -0500 Subject: [PATCH] Initial import of Application Kernels module for Open XDMoD 6.5 --- .editorconfig | 23 + .eslintrc.json | 66 + .github/CONTRIBUTING.md | 51 + .github/ISSUE_TEMPLATE.md | 32 + .github/PULL_REQUEST_TEMPLATE.md | 29 + .gitignore | 310 + .gitmodules | 3 + .remarkrc | 12 + .travis.build.sh | 159 + .travis.install.sh | 36 + .travis.yml | 32 + AUTHORS.md | 16 + CHANGELOG.md | 40 + LICENSE | 165 + README.md | 43 + appkernel/ak_metrics.csv | 267 + .../appkernel_reports_manager.php | 243 + bin/xdmod-akrr-ingestor | 1086 +++ build.json | 46 + classes/AppKernel.php | 129 + classes/AppKernel/AppKernelDb.php | 3401 ++++++++ classes/AppKernel/AppKernelException.php | 29 + classes/AppKernel/AppKernelInstanceData.php | 32 + .../Arr/AppKernelInstanceData_Arr.php | 61 + classes/AppKernel/Arr/Explorer.php | 548 ++ .../AppKernel/Arr/IncaParser_Performance.php | 197 + classes/AppKernel/Arr/Parser.php | 222 + classes/AppKernel/CurrentQueue.php | 158 + classes/AppKernel/IngestionLogEntry.php | 53 + classes/AppKernel/InstanceData.php | 519 ++ classes/AppKernel/PerfPatternRecognition.php | 375 + classes/AppKernel/PerformanceMap.php | 776 ++ .../ProblemDetector/AppKernelLevel.php | 213 + .../ProblemDetector/ResourceLevel.php | 92 + classes/AppKernel/Query.php | 70 + classes/AppKernel/Report.php | 380 + classes/AppKernel/RunsStats.php | 318 + classes/AppKernel/TaskState.php | 80 + classes/AppKernel/TaskStateGroup.php | 107 + classes/AppKernel/iAppKernelExplorer.php | 122 + classes/AppKernel/iAppKernelParser.php | 35 + classes/DataWarehouse/Access/DataExplorer.php | 214 + .../Visualization/HighChartAppKernel.php | 678 ++ classes/Log/Summary/AppKernel.php | 34 + .../Controllers/AkrrControllerProvider.php | 661 ++ .../AppKernelControllerProvider.php | 1559 ++++ classes/OpenXdmod/Setup/AppKernelsSetup.php | 95 + classes/REST/AKRR/Akrr.php | 590 ++ classes/REST/Appkernel/Explorer.php | 1296 +++ composer.json | 10 + composer.lock | 100 + configuration/cron.conf | 3 + configuration/internal_dashboard.json | 26 + configuration/portal_settings.ini | 37 + configuration/rest.d/akrr.json | 6 + configuration/rest.d/app_kernel.json | 6 + configuration/roles.json | 22 + configuration/setup.json | 9 + docs/.gitignore | 3 + docs/CNAME | 1 + docs/Gemfile | 20 + docs/Gemfile.lock | 143 + docs/_config.yml | 46 + docs/_includes/menu.md | 25 + docs/_layouts/page.html | 1 + docs/ak-commands.md | 9 + docs/ak-configuration.md | 75 + docs/ak-databases.md | 18 + docs/ak-ingestor.md | 106 + docs/ak-install-rpm.md | 41 + docs/ak-install-source.md | 54 + docs/ak-install.md | 25 + docs/ak-overview.md | 29 + docs/akrr.md | 24 + docs/xdmod-jekyll-theme | 1 + html/appkernel/css/ext-all.css | 6990 +++++++++++++++++ html/appkernel/css/styles.css | 58 + html/appkernel/index.php | 40 + html/appkernel/js/akexplorer.js | 257 + html/controllers/arr.php | 12 + html/controllers/arr/get_active_tasks.php | 38 + html/controllers/arr/get_errmsg.php | 35 + html/controllers/arr/get_summary.php | 63 + html/controllers/arr/scheduler.php | 117 + html/controllers/arr/send_report.php | 99 + html/controllers/arr/settings.php | 217 + html/controllers/data_explorer.php | 35 + html/controllers/ui_data/app_kernels.php | 251 + html/gui/js/modules/AppKernels.js | 186 + .../modules/app_kernels/AppKernelExplorer.js | 1269 +++ .../app_kernels/AppKernelNotificationPanel.js | 579 ++ .../js/modules/app_kernels/AppKernelViewer.js | 1515 ++++ html/internal_dashboard/ak_explorer.php | 40 + html/internal_dashboard/arr_status.php | 57 + .../controllers/app_kernel.php | 11 + .../app_kernel/get_ingestion_report.php | 114 + .../app_kernel/get_ingestion_summary.php | 64 + html/internal_dashboard/css/appKer.css | 3 + .../js/AppKernel/InstancePanel.js | 43 + .../js/AppKernel/InstanceStore.js | 93 + .../js/AppKernel/InstanceWindow.js | 45 + .../js/Arr/ActiveTasksGrid.js | 130 + .../js/Arr/ActiveTasksPanel.js | 268 + .../js/Arr/ActiveTasksStore.js | 142 + .../js/Arr/AppKerPerformanceMapPanel.js | 800 ++ .../js/Arr/AppKerStatsOverNodesGrid.js | 101 + .../js/Arr/AppKerStatsOverNodesPanel.js | 294 + .../js/Arr/AppKerStatsOverNodesStore.js | 60 + .../js/Arr/AppKerSuccessRateGrid.js | 113 + .../js/Arr/AppKerSuccessRatePanel.js | 515 ++ .../js/Arr/AppKerSuccessRatePlotPanel.js | 715 ++ .../js/Arr/AppKerSuccessRateStore.js | 73 + .../js/Arr/AppKernelDashboardPanel.js | 84 + .../js/Arr/CompletedTasksStore.js | 76 + .../js/Arr/ControlRegionsPanel.js | 2192 ++++++ .../js/Arr/CreateSchedulePanel.js | 741 ++ .../js/Arr/EditActiveTaskPanel.js | 392 + .../js/Arr/EditSchedulePanel.js | 733 ++ .../js/Arr/ErrorMessagePanel.js | 42 + .../js/Arr/ErrorMessageStore.js | 62 + .../js/Arr/SchedulePanel.js | 234 + html/internal_dashboard/js/Arr/StatusPanel.js | 33 + .../js/Arr/SummaryPortlet.js | 29 + .../internal_dashboard/js/Arr/SummaryStore.js | 63 + .../js/Arr/WalltimeEditEntryPanel.js | 451 ++ .../js/Arr/WalltimeNewEntryPanel.js | 449 ++ .../js/Arr/WalltimePanel.js | 252 + .../js/Ingestion/AppKernelGrid.js | 235 + .../js/Ingestion/AppKernelStore.js | 109 + .../js/Ingestion/ReportsPanel.js | 29 + libraries/appkernel.php | 118 + package.json | 22 + phpcs.xml | 6 + templates/portal_settings.template | 37 + xdmod-appkernels.spec.in | 79 + 135 files changed, 38453 insertions(+) create mode 100644 .editorconfig create mode 100644 .eslintrc.json create mode 100644 .github/CONTRIBUTING.md create mode 100644 .github/ISSUE_TEMPLATE.md create mode 100644 .github/PULL_REQUEST_TEMPLATE.md create mode 100644 .gitignore create mode 100644 .gitmodules create mode 100644 .remarkrc create mode 100755 .travis.build.sh create mode 100755 .travis.install.sh create mode 100644 .travis.yml create mode 100644 AUTHORS.md create mode 100644 CHANGELOG.md create mode 100644 LICENSE create mode 100644 README.md create mode 100644 appkernel/ak_metrics.csv create mode 100644 background_scripts/appkernel_reports_manager.php create mode 100755 bin/xdmod-akrr-ingestor create mode 100644 build.json create mode 100644 classes/AppKernel.php create mode 100644 classes/AppKernel/AppKernelDb.php create mode 100644 classes/AppKernel/AppKernelException.php create mode 100644 classes/AppKernel/AppKernelInstanceData.php create mode 100644 classes/AppKernel/Arr/AppKernelInstanceData_Arr.php create mode 100644 classes/AppKernel/Arr/Explorer.php create mode 100644 classes/AppKernel/Arr/IncaParser_Performance.php create mode 100644 classes/AppKernel/Arr/Parser.php create mode 100644 classes/AppKernel/CurrentQueue.php create mode 100644 classes/AppKernel/IngestionLogEntry.php create mode 100644 classes/AppKernel/InstanceData.php create mode 100644 classes/AppKernel/PerfPatternRecognition.php create mode 100644 classes/AppKernel/PerformanceMap.php create mode 100644 classes/AppKernel/ProblemDetector/AppKernelLevel.php create mode 100644 classes/AppKernel/ProblemDetector/ResourceLevel.php create mode 100644 classes/AppKernel/Query.php create mode 100644 classes/AppKernel/Report.php create mode 100644 classes/AppKernel/RunsStats.php create mode 100644 classes/AppKernel/TaskState.php create mode 100644 classes/AppKernel/TaskStateGroup.php create mode 100644 classes/AppKernel/iAppKernelExplorer.php create mode 100644 classes/AppKernel/iAppKernelParser.php create mode 100644 classes/DataWarehouse/Access/DataExplorer.php create mode 100644 classes/DataWarehouse/Visualization/HighChartAppKernel.php create mode 100644 classes/Log/Summary/AppKernel.php create mode 100644 classes/NewRest/Controllers/AkrrControllerProvider.php create mode 100644 classes/NewRest/Controllers/AppKernelControllerProvider.php create mode 100644 classes/OpenXdmod/Setup/AppKernelsSetup.php create mode 100644 classes/REST/AKRR/Akrr.php create mode 100644 classes/REST/Appkernel/Explorer.php create mode 100644 composer.json create mode 100644 composer.lock create mode 100644 configuration/cron.conf create mode 100644 configuration/internal_dashboard.json create mode 100644 configuration/portal_settings.ini create mode 100644 configuration/rest.d/akrr.json create mode 100644 configuration/rest.d/app_kernel.json create mode 100644 configuration/roles.json create mode 100644 configuration/setup.json create mode 100644 docs/.gitignore create mode 100644 docs/CNAME create mode 100644 docs/Gemfile create mode 100644 docs/Gemfile.lock create mode 100644 docs/_config.yml create mode 100644 docs/_includes/menu.md create mode 120000 docs/_layouts/page.html create mode 100644 docs/ak-commands.md create mode 100644 docs/ak-configuration.md create mode 100644 docs/ak-databases.md create mode 100644 docs/ak-ingestor.md create mode 100644 docs/ak-install-rpm.md create mode 100644 docs/ak-install-source.md create mode 100644 docs/ak-install.md create mode 100644 docs/ak-overview.md create mode 100644 docs/akrr.md create mode 160000 docs/xdmod-jekyll-theme create mode 100644 html/appkernel/css/ext-all.css create mode 100644 html/appkernel/css/styles.css create mode 100644 html/appkernel/index.php create mode 100644 html/appkernel/js/akexplorer.js create mode 100644 html/controllers/arr.php create mode 100644 html/controllers/arr/get_active_tasks.php create mode 100644 html/controllers/arr/get_errmsg.php create mode 100644 html/controllers/arr/get_summary.php create mode 100644 html/controllers/arr/scheduler.php create mode 100644 html/controllers/arr/send_report.php create mode 100644 html/controllers/arr/settings.php create mode 100644 html/controllers/data_explorer.php create mode 100644 html/controllers/ui_data/app_kernels.php create mode 100644 html/gui/js/modules/AppKernels.js create mode 100644 html/gui/js/modules/app_kernels/AppKernelExplorer.js create mode 100644 html/gui/js/modules/app_kernels/AppKernelNotificationPanel.js create mode 100644 html/gui/js/modules/app_kernels/AppKernelViewer.js create mode 100644 html/internal_dashboard/ak_explorer.php create mode 100644 html/internal_dashboard/arr_status.php create mode 100644 html/internal_dashboard/controllers/app_kernel.php create mode 100644 html/internal_dashboard/controllers/app_kernel/get_ingestion_report.php create mode 100644 html/internal_dashboard/controllers/app_kernel/get_ingestion_summary.php create mode 100644 html/internal_dashboard/css/appKer.css create mode 100644 html/internal_dashboard/js/AppKernel/InstancePanel.js create mode 100644 html/internal_dashboard/js/AppKernel/InstanceStore.js create mode 100644 html/internal_dashboard/js/AppKernel/InstanceWindow.js create mode 100644 html/internal_dashboard/js/Arr/ActiveTasksGrid.js create mode 100644 html/internal_dashboard/js/Arr/ActiveTasksPanel.js create mode 100644 html/internal_dashboard/js/Arr/ActiveTasksStore.js create mode 100644 html/internal_dashboard/js/Arr/AppKerPerformanceMapPanel.js create mode 100644 html/internal_dashboard/js/Arr/AppKerStatsOverNodesGrid.js create mode 100644 html/internal_dashboard/js/Arr/AppKerStatsOverNodesPanel.js create mode 100644 html/internal_dashboard/js/Arr/AppKerStatsOverNodesStore.js create mode 100644 html/internal_dashboard/js/Arr/AppKerSuccessRateGrid.js create mode 100644 html/internal_dashboard/js/Arr/AppKerSuccessRatePanel.js create mode 100644 html/internal_dashboard/js/Arr/AppKerSuccessRatePlotPanel.js create mode 100644 html/internal_dashboard/js/Arr/AppKerSuccessRateStore.js create mode 100644 html/internal_dashboard/js/Arr/AppKernelDashboardPanel.js create mode 100644 html/internal_dashboard/js/Arr/CompletedTasksStore.js create mode 100644 html/internal_dashboard/js/Arr/ControlRegionsPanel.js create mode 100644 html/internal_dashboard/js/Arr/CreateSchedulePanel.js create mode 100644 html/internal_dashboard/js/Arr/EditActiveTaskPanel.js create mode 100644 html/internal_dashboard/js/Arr/EditSchedulePanel.js create mode 100644 html/internal_dashboard/js/Arr/ErrorMessagePanel.js create mode 100644 html/internal_dashboard/js/Arr/ErrorMessageStore.js create mode 100644 html/internal_dashboard/js/Arr/SchedulePanel.js create mode 100644 html/internal_dashboard/js/Arr/StatusPanel.js create mode 100644 html/internal_dashboard/js/Arr/SummaryPortlet.js create mode 100644 html/internal_dashboard/js/Arr/SummaryStore.js create mode 100644 html/internal_dashboard/js/Arr/WalltimeEditEntryPanel.js create mode 100644 html/internal_dashboard/js/Arr/WalltimeNewEntryPanel.js create mode 100644 html/internal_dashboard/js/Arr/WalltimePanel.js create mode 100644 html/internal_dashboard/js/Ingestion/AppKernelGrid.js create mode 100644 html/internal_dashboard/js/Ingestion/AppKernelStore.js create mode 100644 html/internal_dashboard/js/Ingestion/ReportsPanel.js create mode 100644 libraries/appkernel.php create mode 100644 package.json create mode 100644 phpcs.xml create mode 100644 templates/portal_settings.template create mode 100644 xdmod-appkernels.spec.in diff --git a/.editorconfig b/.editorconfig new file mode 100644 index 0000000..bfc5426 --- /dev/null +++ b/.editorconfig @@ -0,0 +1,23 @@ +# EditorConfig is awesome: http://EditorConfig.org + +# top-most EditorConfig file +root = true + +# Unix-style newlines with a newline ending every file +[*] +charset = utf-8 +end_of_line = lf +insert_final_newline = true +trim_trailing_whitespace = true +indent_style = space +indent_size = 4 + +# Indentation override for all JS under lib directory +[package.json] +indent_size = 2 + +[*.{remarkrc,eslintrc}] +indent_size = 2 + +[*.md] +trim_trailing_whitespace = false diff --git a/.eslintrc.json b/.eslintrc.json new file mode 100644 index 0000000..f391e7d --- /dev/null +++ b/.eslintrc.json @@ -0,0 +1,66 @@ +{ + "env": {}, + "globals": {}, + "extends": "eslint:recommended", + "rules": { + "curly": 2, + "guard-for-in": 2, + "no-extend-native": 2, + "block-scoped-var": 1, + "no-use-before-define": 2, + "no-caller": 2, + "no-sequences": 2, + "no-new": 2, + "no-extra-parens": 1, + "dot-notation": [ + 1, + { + "allowPattern": "^[a-z]+(_[a-z]+)+$" + } + ], + "no-implicit-coercion": [ + 2, + { + "boolean": true, + "number": true, + "string": false + } + ], + "no-multi-spaces": 2, + "key-spacing": [ + 2, + { + "beforeColon": false, + "afterColon": true + } + ], + "comma-spacing": [ + 2, + { + "before": false, + "after": true + } + ], + "semi-spacing": [ + 2, + { + "before": false, + "after": true + } + ], + "no-spaced-func": 2, + "no-trailing-spaces": 2, + "eol-last": 2, + "semi": 2, + "space-infix-ops": 2, + "consistent-this": [ + 1, + "self" + ], + "linebreak-style": [ + 2, + "unix" + ], + "keyword-spacing": 1 + } +} diff --git a/.github/CONTRIBUTING.md b/.github/CONTRIBUTING.md new file mode 100644 index 0000000..cd020e8 --- /dev/null +++ b/.github/CONTRIBUTING.md @@ -0,0 +1,51 @@ +# How to Contribute + +Third-party patches are essential for keeping XDMoD great. There are a +few guidelines that we need contributors to follow so that we can have a +chance of keeping on top of things. + +## Getting Started + +* Contact us about the feature or bug fix you intend to work on before you start. + * The change may be something we are already working on internally, or we + may have advice on how best to proceed. + * If working on a bug fix, include: + * Steps to reproduce the bug + * The earliest version that you know has the bug + * We can be **publicly** reached via: + * The issues tab of this repository + * The XDMoD mailing list (see [the Open XDMoD support page][support]) + * We can be **privately** reached via: + * The XDMoD support email address (see [the Open XDMoD support page][support]) +* Once you have the go-ahead, fork the repository on GitHub and make the + changes there. + +## Making Changes + +* Create a topic branch from where you want to base your work. + * Base your work on the oldest version of XDMoD you want to change. If you + want to fix a bug in XDMoD 6.5 and newer, you would create a topic branch + on `xdmod6.5` (`git checkout -b fix/my_contribution xdmod6.5`). +* Make commits of logical units. ([Squash](https://www.youtube.com/watch?v=qh9KtjfjzCU) + your commits before submission if necessary.) +* Check for unnecessary whitespace with `git diff --check` before committing. + +## Style Guidelines (linting) + +* If there exists a linter config file for some aspect of the project (e.g. `.eslintrc.json`, `.editorconfig`, `.remarkrc`), please use the associated linter with the config. +* If there is no applicable linter or linter config when editing a file, try to stick with its current style. +* Make sure that you fix any errors found by all configured linters (e.g. remark-lint, ESLint, phpcs). +* If an error or warning can't be fixed, please add comments to the pull/commit explaining why. +* We realize that all code, including existing code, might not pass the linters (as configured). + * If you want to fix stylistic errors for an entire file that you're working on (which is appreciated!), fix it in a separate commit before starting on any functional code changes. This makes it easier to see the functional changes. + * Please do not submit changes that are _purely_ style fixes. While we would love to see the code get tidied up, every change introduced increases the chance of conflicts for someone else's work in progress. + +## Submitting Changes + +* Make sure you have followed the style guidelines. +* Push your changes to a topic branch in your fork of the repository. +* All relevant documentation should be added to or updated as part of your pull request. +* Submit a pull request to the repository. +* After feedback has been given, we expect responses (comments and/or commits) within two weeks. After two weeks of inactivity, we may close the pull request. + +[support]: http://open.xdmod.org/support.html diff --git a/.github/ISSUE_TEMPLATE.md b/.github/ISSUE_TEMPLATE.md new file mode 100644 index 0000000..cc96187 --- /dev/null +++ b/.github/ISSUE_TEMPLATE.md @@ -0,0 +1,32 @@ + + +## Expected Behavior + + + +## Current Behavior + + + +## Possible Solution + + + +## Steps to Reproduce (for bugs) + + +1. +2. +3. +4. + +## Context + + + +## Your Environment + +* Version used: +* Environment name and version (e.g. Chrome 39, Node.js 5.4): +* Operating system and version (desktop or mobile): +* Link to your project: diff --git a/.github/PULL_REQUEST_TEMPLATE.md b/.github/PULL_REQUEST_TEMPLATE.md new file mode 100644 index 0000000..31ce1f1 --- /dev/null +++ b/.github/PULL_REQUEST_TEMPLATE.md @@ -0,0 +1,29 @@ + + +## Description + + + + +## Motivation and Context + + + +## Tests performed + + + + +## Types of changes + +- [ ] Bug fix (non-breaking change which fixes an issue) +- [ ] New feature (non-breaking change which adds functionality) +- [ ] Breaking change (fix or feature that would cause existing functionality to change) + +## Checklist: + + +- [ ] My code follows the code style of this project as found in the **CONTRIBUTING** document. +- [ ] I have added tests to cover my changes. +- [ ] All new and existing tests passed. diff --git a/.gitignore b/.gitignore new file mode 100644 index 0000000..d978ae8 --- /dev/null +++ b/.gitignore @@ -0,0 +1,310 @@ +# Numerous always-ignore extensions +*.diff +*.err +*.orig +*.log +*.rej + +# Ignore paths that contain generated content. +cache/ +log/ +logs/ + +# Created by https://www.gitignore.io/api/archives,bower,intellij,xcode,composer,node,osx,sass,maven,java,linux,vim + +### Archives ### +# It's better to unpack these files and commit the raw source because +# git has its own built in compression methods. +*.7z +*.rar +*.zip +*.gz +*.tgz +*.bzip +*.bz2 +*.xz +*.lzma +*.cab + +#packing-only formats +*.iso +*.tar + +#package management formats +*.dmg +*.xpi +*.gem +*.egg +*.deb +*.rpm +*.msi +*.msm +*.msp + + +### Bower ### +bower_components +.bower-cache +.bower-registry +.bower-tmp + + +### Intellij ### +# Covers JetBrains IDEs: IntelliJ, RubyMine, PhpStorm, AppCode, PyCharm, CLion, Android Studio + +*.iml + +## Directory-based project format: +.idea/ +# if you remove the above rule, at least ignore the following: + +# User-specific stuff: +# .idea/workspace.xml +# .idea/tasks.xml +# .idea/dictionaries + +# Sensitive or high-churn files: +# .idea/dataSources.ids +# .idea/dataSources.xml +# .idea/sqlDataSources.xml +# .idea/dynamic.xml +# .idea/uiDesigner.xml + +# Gradle: +# .idea/gradle.xml +# .idea/libraries + +# Mongo Explorer plugin: +# .idea/mongoSettings.xml + +## File-based project format: +*.ipr +*.iws + +## Plugin-specific files: + +# IntelliJ +/out/ + +# mpeltonen/sbt-idea plugin +.idea_modules/ + +# JIRA plugin +atlassian-ide-plugin.xml + +# Crashlytics plugin (for Android Studio and IntelliJ) +com_crashlytics_export_strings.xml +crashlytics.properties +crashlytics-build.properties + + +### Xcode ### +# Xcode +# +# gitignore contributors: remember to update Global/Xcode.gitignore, Objective-C.gitignore & Swift.gitignore + +## Build generated +build/ +DerivedData + +## Various settings +*.pbxuser +!default.pbxuser +*.mode1v3 +!default.mode1v3 +*.mode2v3 +!default.mode2v3 +*.perspectivev3 +!default.perspectivev3 +xcuserdata + +## Other +*.xccheckout +*.moved-aside +*.xcuserstate + + +### Composer ### +composer.phar +vendor/ + +# Commit your application's lock file http://getcomposer.org/doc/01-basic-usage.md#composer-lock-the-lock-file +# You may choose to ignore a library lock file http://getcomposer.org/doc/02-libraries.md#lock-file +# composer.lock + + +### Node ### +# Logs +logs +*.log +npm-debug.log* +node_modules/ + +# Runtime data +pids +*.pid +*.seed + +# Directory for instrumented libs generated by jscoverage/JSCover +lib-cov + +# Coverage directory used by tools like istanbul +coverage + +# Grunt intermediate storage (http://gruntjs.com/creating-plugins#storing-task-files) +.grunt + +# node-waf configuration +.lock-wscript + +# Compiled binary addons (http://nodejs.org/api/addons.html) +build/Release + +# Dependency directory +# https://docs.npmjs.com/misc/faq#should-i-check-my-node-modules-folder-into-git +node_modules + + +### OSX ### +.DS_Store +.AppleDouble +.LSOverride + +# Icon must end with two \r +Icon + + +# Thumbnails +._* + +# Files that might appear in the root of a volume +.DocumentRevisions-V100 +.fseventsd +.Spotlight-V100 +.TemporaryItems +.Trashes +.VolumeIcon.icns + +# Directories potentially created on remote AFP share +.AppleDB +.AppleDesktop +Network Trash Folder +Temporary Items +.apdisk + + +### Sass ### +.sass-cache/ +*.css.map + + +### Maven ### +target/ +pom.xml.tag +pom.xml.releaseBackup +pom.xml.versionsBackup +pom.xml.next +release.properties +dependency-reduced-pom.xml +buildNumber.properties +.mvn/timing.properties + + +### Java ### +*.class + +# Mobile Tools for Java (J2ME) +.mtj.tmp/ + +# Package Files # +*.jar +*.war +*.ear + +# virtual machine crash logs, see http://www.java.com/en/download/help/error_hotspot.xml +hs_err_pid* + +### C ### +*.so + +### Linux ### +*~ + +# KDE directory preferences +.directory + +# Linux trash folder which might appear on any partition or disk +.Trash-* + +### Vim ### +[._]*.s[a-w][a-z] +[._]s[a-w][a-z] +*.un~ +Session.vim +.netrwhist +*~ + +## XDMod Specific ignores ## + +# Build files +xdmod-*.tar.gz +xdmod-*.rpm +/build.xml +/nbproject + +/html/gui/lib/extjs +/html/manual_dev +/.sonar/ +external_libraries/ + +/html/gui/lib/highcharts +/html/gui/lib/jquery +/html/gui/lib/jquery-plugins +/html/gui/lib/moment +/html/gui/lib/moment-timezone +/html/gui/lib/rsvp + +# Custom PHPUnit configuration files. +/open_xdmod/modules/*/tests/phpunit.xml + +# Security +*.pem +*.csr +*.key +*.crt +/configuration/supremm_resources.json +.secrets.json +.secrets + +# ETL Generated files / folders +configuration/datawarehouse.d/ +configuration/rawstatisticsconfig.json +configuration/roles.d/supremm.json +configuration/supremmconfig.json +configuration/aggregation_meta/ + +# ETL resource-specific configuration +/etl/js/config/supremm/dataset_maps/* +/etl/js/config/supremm/tests/* +!/etl/js/config/supremm/dataset_maps/pcp.js +!/etl/js/config/supremm/tests/pcp + +# Local ETL configuration files +# configuration/etl/*.json +# configuration/etl/**/*.json + +# Include CCR Log Class +!classes/Log + +# Include Internal Dashboard Log Directory +!html/internal_dashboard/js/Log + +# Include Internal Dashboard Controllers Log Directory +!html/internal_dashboard/controllers/log + +# Include Open XDMoD builder code +!classes/OpenXdmod/Build + +# eclipse project files +/.project + diff --git a/.gitmodules b/.gitmodules new file mode 100644 index 0000000..b50b738 --- /dev/null +++ b/.gitmodules @@ -0,0 +1,3 @@ +[submodule "docs/xdmod-jekyll-theme"] + path = docs/xdmod-jekyll-theme + url = https://github.com/ubccr/xdmod-jekyll-theme diff --git a/.remarkrc b/.remarkrc new file mode 100644 index 0000000..8b9a6dd --- /dev/null +++ b/.remarkrc @@ -0,0 +1,12 @@ +{ + "plugins": { + "lint": { + "list-item-spacing": false, + "list-item-indent": false, + "maximum-line-length": false + } + }, + "settings": { + "commonmark": true + } +} diff --git a/.travis.build.sh b/.travis.build.sh new file mode 100755 index 0000000..6e38b4a --- /dev/null +++ b/.travis.build.sh @@ -0,0 +1,159 @@ +#!/usr/bin/env bash + +export PATH +PATH="$(pwd)/vendor/bin:$(pwd)/node_modules/.bin:$PATH" + +source ~/.nvm/nvm.sh +nvm use "$NODE_VERSION" + +module_dir="appkernels" +module_name="Application Kernels" + +# Fix for Travis not specifying a range if testing the first commit of +# a new branch on push +if [ -z "$TRAVIS_COMMIT_RANGE" ]; then + TRAVIS_COMMIT_RANGE="$(git rev-parse --verify --quiet "${TRAVIS_COMMIT}^1")...${TRAVIS_COMMIT}" +fi + +if [ "$TEST_SUITE" = "syntax" ] || [ "$TEST_SUITE" = "style" ]; then + # Check whether the start of the commit range is available. + # If it is not available, try fetching the complete history. + commit_range_start="$(echo "$TRAVIS_COMMIT_RANGE" | sed -E 's/^([a-fA-F0-9]+).*/\1/')" + if ! git show --format='' --no-patch "$commit_range_start" &>/dev/null; then + git fetch --unshallow + + # If it's still unavailable (likely due a push build caused by a force push), + # tests based on what has changed cannot be run. + if ! git show --format='' --no-patch "$commit_range_start" &>/dev/null; then + echo "Could not find commit range start ($commit_range_start)." >&2 + echo "Tests based on changed files cannot run." >&2 + exit 1 + fi + fi + + # Get the files changed by this commit (excluding deleted files). + files_changed=() + while IFS= read -r -d $'\0' file; do + files_changed+=("$file") + done < <(git diff --name-only --diff-filter=d -z "$TRAVIS_COMMIT_RANGE") + + # Separate the changed files by language. + php_files_changed=() + js_files_changed=() + for file in "${files_changed[@]}"; do + if [[ "$file" == *.php ]]; then + php_files_changed+=("$file") + elif [[ "$file" == *.js ]]; then + js_files_changed+=("$file") + fi + done +fi + +# Build tests require the corresponding version of Open XDMoD. +if [ "$TEST_SUITE" = "build" ]; then + xdmod_branch="$TRAVIS_BRANCH" + echo "Cloning Open XDMoD branch '$xdmod_branch'" + git clone --depth=1 --branch="$xdmod_branch" https://github.com/ubccr/xdmod.git ../xdmod + + # If PHP 5.3.3 is installed, SSL/TLS isn't available to PHP. + # Use a newer version of PHP for installing Composer dependencies. + using_php_533="false"; [[ "$(php --version)" == PHP\ 5.3.3\ * ]] && using_php_533="true" + if "$using_php_533"; then + echo "Using newer version of PHP for installing dependencies" + phpenv global 5.3 + php --version + fi + + # Install Composer dependencies. + pushd ../xdmod >/dev/null + composer install + popd >/dev/null + + # If using PHP 5.3.3 for testing purposes, stop using the newer PHP version. + if "$using_php_533"; then + echo "Reverting back to PHP 5.3.3 for testing" + phpenv global 5.3.3 + php --version + fi + + # Create a symlink from Open XDMoD to this module. + ln -s "$(pwd)" "../xdmod/open_xdmod/modules/$module_dir" +fi + +# Perform a test set based on the value of $TEST_SUITE. +build_exit_value=0 +if [ "$TEST_SUITE" = "syntax" ]; then + for file in "${php_files_changed[@]}"; do + php -l "$file" >/dev/null + if [ $? != 0 ]; then + build_exit_value=2 + fi + done + for file in "${js_files_changed[@]}"; do + eslint --no-eslintrc "$file" + if [ $? != 0 ]; then + build_exit_value=2 + fi + done +elif [ "$TEST_SUITE" = "style" ]; then + for file in "${php_files_changed[@]}"; do + phpcs "$file" + if [ $? != 0 ]; then + build_exit_value=2 + fi + done + for file in "${js_files_changed[@]}"; do + eslint "$file" + if [ $? != 0 ]; then + build_exit_value=2 + fi + done +elif [ "$TEST_SUITE" = "build" ]; then + # If PHP 5.3.3 is installed, SSL/TLS isn't available to PHP. + # Use a newer version of PHP for installing Composer dependencies. + using_php_533="false"; [[ "$(php --version)" == PHP\ 5.3.3\ * ]] && using_php_533="true" + if "$using_php_533"; then + echo "Using newer version of PHP for installing dependencies" + phpenv global 5.3 + php --version + fi + + echo "Building Open XDMoD..." + ../xdmod/open_xdmod/build_scripts/build_package.php --module xdmod + echo "Building $module_name module..." + ../xdmod/open_xdmod/build_scripts/build_package.php --module "$module_dir" + if [ $? != 0 ]; then + build_exit_value=2 + fi + + # If using PHP 5.3.3 for testing purposes, stop using the newer PHP version. + if "$using_php_533"; then + echo "Reverting back to PHP 5.3.3 for testing" + phpenv global 5.3.3 + php --version + fi + + xdmod_install_dir="$HOME/xdmod-install" + + echo "Installing Open XDMoD..." + cd ../xdmod/open_xdmod/build || exit 2 + xdmod_tar="$(find . -regex '^\./xdmod-[0-9]+[^/]*\.tar\.gz$')" + tar -xf "$xdmod_tar" + cd "$(basename "$xdmod_tar" .tar.gz)" || exit 2 + ./install --prefix="$xdmod_install_dir" + + echo "Installing $module_name module..." + cd .. || exit 2 + module_tar="$(find . -regex "^\./xdmod-${module_dir}-[0-9]+[^/]*\.tar\.gz$")" + tar -xf "$module_tar" + cd "$(basename "$module_tar" .tar.gz)" || exit 2 + ./install --prefix="$xdmod_install_dir" + if [ $? != 0 ]; then + build_exit_value=2 + fi +else + echo "Invalid value for \$TEST_SUITE: $TEST_SUITE" >&2 + build_exit_value=1 +fi + +exit $build_exit_value diff --git a/.travis.install.sh b/.travis.install.sh new file mode 100755 index 0000000..d22cde5 --- /dev/null +++ b/.travis.install.sh @@ -0,0 +1,36 @@ +#!/usr/bin/env bash + +function install_pear_dependencies() { + pear install Log +} + +# If PHP 5.3.3 is installed, SSL/TLS isn't available to PHP. +# Use a newer version of PHP for installing Composer dependencies. +using_php_533="false"; [[ "$(php --version)" == PHP\ 5.3.3\ * ]] && using_php_533="true" +if "$using_php_533"; then + echo "Using newer version of PHP for installing dependencies" + phpenv global 5.3 + php --version + + # Install PEAR dependencies for newer version of PHP. + install_pear_dependencies +fi + +# Install Composer dependencies. +composer install + +# If using PHP 5.3.3 for testing purposes, stop using the newer PHP version. +if "$using_php_533"; then + echo "Reverting back to PHP 5.3.3 for testing" + phpenv global 5.3.3 + php --version +fi + +# Install PEAR dependencies for testing version of PHP. +install_pear_dependencies + +# Install npm dependencies. +source ~/.nvm/nvm.sh +nvm install "$NODE_VERSION" +nvm use "$NODE_VERSION" +npm install diff --git a/.travis.yml b/.travis.yml new file mode 100644 index 0000000..9d1834a --- /dev/null +++ b/.travis.yml @@ -0,0 +1,32 @@ +# Use container-based environment for quicker initialization +sudo: false + +# Specify the build matrix +language: php +php: + - '5.3.3' + - '5.4' +env: + global: + - NODE_VERSION=6 + matrix: + - TEST_SUITE=syntax + - TEST_SUITE=style + - TEST_SUITE=build CACHE_NAME=build + +matrix: + allow_failures: + - env: TEST_SUITE=style + +# Add dependency directories to the Travis cache +cache: + directories: + - node_modules + - $HOME/.composer/cache + - /tmp/pear/cache + +# Delegate the installation step to the custom Travis installation script +install: ./.travis.install.sh + +# Delegate the build step to the custom Travis build script +script: ./.travis.build.sh diff --git a/AUTHORS.md b/AUTHORS.md new file mode 100644 index 0000000..5a49c5d --- /dev/null +++ b/AUTHORS.md @@ -0,0 +1,16 @@ +# Open XDMoD Application Kernels Authors + +## Current Maintainers + +- Steven M. Gallo +- Jeffrey T. Palmer +- Nikolay Simakov +- Joseph White +- Thomas Yearke +- Jeanette Sperhac +- Ryan Rathsam + +## Previous Maintainers + +- Amin Ghadersohi +- Ryan Gentner diff --git a/CHANGELOG.md b/CHANGELOG.md new file mode 100644 index 0000000..5a09fbd --- /dev/null +++ b/CHANGELOG.md @@ -0,0 +1,40 @@ +Open XDMoD Application Kernels Change Log +========================================= + +2016-12-?? v6.5.0 +----------------- + +- Refactors and Miscellaneous + - Spun this module out from the Open XDMoD repository. + +2016-09-21 v6.0.0 +----------------- + +- Updated for compatibility with Open XDMoD 6.0.0. + +2016-05-24 v5.6.0 +----------------- + +- Features + - Added ability to select the 29th-31st of a month as a monthly report + delivery day. + - For months that don't have these days, reports scheduled for those + days will be delivered on the last day of the month. +- Bug Fixes + - Fixed Reports tab not appearing for some authorized users. + - Reduced user authorization requirements for showing certain data. + - Removed "." from tab labels. + - Removed non-functional x-y swap from tabs. + +2015-12-18 v5.5.0 +----------------- + +- Bug Fixes + - Fixed handling of whitespace in XML parsing + - Incorrect database credentials were being used in the app kernel + performance map + +2015-08-19 v5.0.0 +----------------- + +- Initial public release diff --git a/LICENSE b/LICENSE new file mode 100644 index 0000000..65c5ca8 --- /dev/null +++ b/LICENSE @@ -0,0 +1,165 @@ + GNU LESSER GENERAL PUBLIC LICENSE + Version 3, 29 June 2007 + + Copyright (C) 2007 Free Software Foundation, Inc. + Everyone is permitted to copy and distribute verbatim copies + of this license document, but changing it is not allowed. + + + This version of the GNU Lesser General Public License incorporates +the terms and conditions of version 3 of the GNU General Public +License, supplemented by the additional permissions listed below. + + 0. Additional Definitions. + + As used herein, "this License" refers to version 3 of the GNU Lesser +General Public License, and the "GNU GPL" refers to version 3 of the GNU +General Public License. + + "The Library" refers to a covered work governed by this License, +other than an Application or a Combined Work as defined below. + + An "Application" is any work that makes use of an interface provided +by the Library, but which is not otherwise based on the Library. +Defining a subclass of a class defined by the Library is deemed a mode +of using an interface provided by the Library. + + A "Combined Work" is a work produced by combining or linking an +Application with the Library. The particular version of the Library +with which the Combined Work was made is also called the "Linked +Version". + + The "Minimal Corresponding Source" for a Combined Work means the +Corresponding Source for the Combined Work, excluding any source code +for portions of the Combined Work that, considered in isolation, are +based on the Application, and not on the Linked Version. + + The "Corresponding Application Code" for a Combined Work means the +object code and/or source code for the Application, including any data +and utility programs needed for reproducing the Combined Work from the +Application, but excluding the System Libraries of the Combined Work. + + 1. Exception to Section 3 of the GNU GPL. + + You may convey a covered work under sections 3 and 4 of this License +without being bound by section 3 of the GNU GPL. + + 2. Conveying Modified Versions. + + If you modify a copy of the Library, and, in your modifications, a +facility refers to a function or data to be supplied by an Application +that uses the facility (other than as an argument passed when the +facility is invoked), then you may convey a copy of the modified +version: + + a) under this License, provided that you make a good faith effort to + ensure that, in the event an Application does not supply the + function or data, the facility still operates, and performs + whatever part of its purpose remains meaningful, or + + b) under the GNU GPL, with none of the additional permissions of + this License applicable to that copy. + + 3. Object Code Incorporating Material from Library Header Files. + + The object code form of an Application may incorporate material from +a header file that is part of the Library. You may convey such object +code under terms of your choice, provided that, if the incorporated +material is not limited to numerical parameters, data structure +layouts and accessors, or small macros, inline functions and templates +(ten or fewer lines in length), you do both of the following: + + a) Give prominent notice with each copy of the object code that the + Library is used in it and that the Library and its use are + covered by this License. + + b) Accompany the object code with a copy of the GNU GPL and this license + document. + + 4. Combined Works. + + You may convey a Combined Work under terms of your choice that, +taken together, effectively do not restrict modification of the +portions of the Library contained in the Combined Work and reverse +engineering for debugging such modifications, if you also do each of +the following: + + a) Give prominent notice with each copy of the Combined Work that + the Library is used in it and that the Library and its use are + covered by this License. + + b) Accompany the Combined Work with a copy of the GNU GPL and this license + document. + + c) For a Combined Work that displays copyright notices during + execution, include the copyright notice for the Library among + these notices, as well as a reference directing the user to the + copies of the GNU GPL and this license document. + + d) Do one of the following: + + 0) Convey the Minimal Corresponding Source under the terms of this + License, and the Corresponding Application Code in a form + suitable for, and under terms that permit, the user to + recombine or relink the Application with a modified version of + the Linked Version to produce a modified Combined Work, in the + manner specified by section 6 of the GNU GPL for conveying + Corresponding Source. + + 1) Use a suitable shared library mechanism for linking with the + Library. A suitable mechanism is one that (a) uses at run time + a copy of the Library already present on the user's computer + system, and (b) will operate properly with a modified version + of the Library that is interface-compatible with the Linked + Version. + + e) Provide Installation Information, but only if you would otherwise + be required to provide such information under section 6 of the + GNU GPL, and only to the extent that such information is + necessary to install and execute a modified version of the + Combined Work produced by recombining or relinking the + Application with a modified version of the Linked Version. (If + you use option 4d0, the Installation Information must accompany + the Minimal Corresponding Source and Corresponding Application + Code. If you use option 4d1, you must provide the Installation + Information in the manner specified by section 6 of the GNU GPL + for conveying Corresponding Source.) + + 5. Combined Libraries. + + You may place library facilities that are a work based on the +Library side by side in a single library together with other library +facilities that are not Applications and are not covered by this +License, and convey such a combined library under terms of your +choice, if you do both of the following: + + a) Accompany the combined library with a copy of the same work based + on the Library, uncombined with any other library facilities, + conveyed under the terms of this License. + + b) Give prominent notice with the combined library that part of it + is a work based on the Library, and explaining where to find the + accompanying uncombined form of the same work. + + 6. Revised Versions of the GNU Lesser General Public License. + + The Free Software Foundation may publish revised and/or new versions +of the GNU Lesser General Public License from time to time. Such new +versions will be similar in spirit to the present version, but may +differ in detail to address new problems or concerns. + + Each version is given a distinguishing version number. If the +Library as you received it specifies that a certain numbered version +of the GNU Lesser General Public License "or any later version" +applies to it, you have the option of following the terms and +conditions either of that published version or of any later version +published by the Free Software Foundation. If the Library as you +received it does not specify a version number of the GNU Lesser +General Public License, you may choose any version of the GNU Lesser +General Public License ever published by the Free Software Foundation. + + If the Library as you received it specifies that a proxy can decide +whether future versions of the GNU Lesser General Public License shall +apply, that proxy's public statement of acceptance of any version is +permanent authorization for you to choose that version for the +Library. diff --git a/README.md b/README.md new file mode 100644 index 0000000..a90afef --- /dev/null +++ b/README.md @@ -0,0 +1,43 @@ +# Open XDMoD Application Kernels Module + +The Application Kernel Performance Monitoring Module for Open XDMoD is designed +to measure quality of service as well as preemptively identify underperforming +hardware and software by deploying customized, computationally lightweight +“application kernels” that are run frequently (daily to several times per week) +to continuously monitor HPC system performance and reliability from the +application users’ point of view. The term “computationally-lightweight” is used +to indicate that the application kernel requires relatively modest resources for +a given run frequency. Accordingly, through XDMoD, system managers have the +ability to proactively monitor system performance as opposed to having to rely +on users to report failures or underperforming hardware and software. + +For more information, please visit +[the Application Kernels website](http://appkernels.xdmod.org/ak-overview.html). + +## Installation + +Prebuilt packages of the Application Kernels module are available as +[releases on GitHub](https://github.com/ubccr/xdmod-appkernels/releases). + +See [the installation instructions on the Application Kernels website](http://appkernels.xdmod.org/ak-install.html) +for additional information. + +## Contributing + +Feedback is always welcome, and contributions are greatly appreciated! +Before getting started, please see +[our contributing guidelines](.github/CONTRIBUTING.md). + +## Developing + +See [the instructions for Open XDMoD](https://github.com/ubccr/xdmod#developing). + +## Building + +See [the instructions for Open XDMoD](https://github.com/ubccr/xdmod#building). + +## License + +The Open XDMoD Application Kernels module is released under the GNU +Lesser General Public License ("LGPL") Version 3.0. See the [LICENSE](LICENSE) +file for details. diff --git a/appkernel/ak_metrics.csv b/appkernel/ak_metrics.csv new file mode 100644 index 0000000..df2e22e --- /dev/null +++ b/appkernel/ak_metrics.csv @@ -0,0 +1,267 @@ +Amber,, +,Molecular Dynamics Simulation Performance, +,Time Spent in Direct Force Calculation,S +,Time Spent in Non-Bond List Regeneration,S +,Time Spent in Reciprocal Force Calculation,S +,Wall Clock Time,S +,, +Charmm,, +,Molecular Dynamics Simulation Performance, +,Time Spent in External Energy Calculation,S +,Time Spent in Integration,S +,Time Spent in Internal Energy Calculation,S +,Time Spent in Non-Bond List Generation,S +,Time Spent in Waiting (Load Unbalance-ness),S +,User Time,S +,Wall Clock Time,S +,, +CPMD,, +,All-to-All Communication Call,S +,All-to-All Communication Message,S +,All-to-All Communication Time,S +,Broadcast Communication Call,S +,Broadcast Communication Message,S +,Broadcast Communication Time,S +,Global Summation Communication Call,S +,Global Summation Communication Message,S +,Global Summation Communication Time,S +,Per-Process Memory,S +,Point-to-Point Communication Call,S +,Point-to-Point Communication Message,S +,Point-to-Point Communication Time,S +,Time Spent in Fast Fourier Transforms,S +,Wall Clock Time,S +,, +Gamess,, +,Time Spent in MP2 Energy Calculation,S +,Time Spent in Restricted Hartree-Fock Calculation,S +,User Time,S +,Wall Clock Time,S +,, +Graph500,, +,Harmonic Mean TEPS, +,Harmonic Standard Deviation TEPS, +,Mean Validation Time,S +,Median TEPS, +,Median Validation Time,S +,Wall Clock Time,S +,, +HPCC,, +,Average Double-Precision General Matrix Multiplication (DGEMM) Floating-Point Performance, +,Average STREAM 'Add' Memory Bandwidth, +,Average STREAM 'Copy' Memory Bandwidth, +,Average STREAM 'Scale' Memory Bandwidth, +,Average STREAM 'Triad' Memory Bandwidth, +,Fast Fourier Transform (FFTW) Floating-Point Performance, +,High Performance LINPACK Efficiency, +,High Performance LINPACK Floating-Point Performance, +,High Performance LINPACK Run Time,S +,MPI Random Access, +,Parallel Matrix Transpose (PTRANS), +,Wall Clock Time,S +,, +IMB,, +,Max Exchange Bandwidth, +,Max MPI-2 Bidirectional 'Get' Bandwidth (aggregate), +,Max MPI-2 Bidirectional 'Get' Bandwidth (non-aggregate), +,Max MPI-2 Bidirectional 'Put' Bandwidth (aggregate), +,Max MPI-2 Bidirectional 'Put' Bandwidth (non-aggregate), +,Max MPI-2 Unidirectional 'Get' Bandwidth (aggregate), +,Max MPI-2 Unidirectional 'Get' Bandwidth (non-aggregate), +,Max MPI-2 Unidirectional 'Put' Bandwidth (aggregate), +,Max MPI-2 Unidirectional 'Put' Bandwidth (non-aggregate), +,Max PingPing Bandwidth, +,Max PingPong Bandwidth, +,Max SendRecv Bandwidth, +,Min AllGather Latency,S +,Min AllGatherV Latency,S +,Min AllReduce Latency,S +,Min AllToAll Latency,S +,Min AllToAllV Latency,S +,Min Broadcast Latency,S +,Min Gather Latency,S +,Min GatherV Latency,S +,Min MPI-2 'Accumulate' Latency (aggregate),S +,Min MPI-2 'Accumulate' Latency (non-aggregate),S +,Min MPI-2 Window Creation Latency,S +,Min Reduce Latency,S +,Min ReduceScatter Latency,S +,Min Scatter Latency,S +,Min ScatterV Latency,S +,Wall Clock Time,S +,, +IOR,, +,HDF5 Collective N-to-1 Read Aggregate Throughput, +,HDF5 Collective N-to-1 Write Aggregate Throughput, +,HDF5 Independent N-to-1 Read Aggregate Throughput, +,HDF5 Independent N-to-1 Write Aggregate Throughput, +,HDF5 N-to-N Read Aggregate Throughput, +,HDF5 N-to-N Write Aggregate Throughput, +,MPIIO Collective N-to-1 Read Aggregate Throughput, +,MPIIO Collective N-to-1 Write Aggregate Throughput, +,MPIIO Independent N-to-1 Read Aggregate Throughput, +,MPIIO Independent N-to-1 Write Aggregate Throughput, +,MPIIO N-to-N Read Aggregate Throughput, +,MPIIO N-to-N Write Aggregate Throughput, +,POSIX N-to-1 Read Aggregate Throughput, +,POSIX N-to-1 Write Aggregate Throughput, +,POSIX N-to-N Read Aggregate Throughput, +,POSIX N-to-N Write Aggregate Throughput, +,Parallel NetCDF Collective N-to-1 Read Aggregate Throughput, +,Parallel NetCDF Collective N-to-1 Write Aggregate Throughput, +,Parallel NetCDF Independent N-to-1 Read Aggregate Throughput, +,Parallel NetCDF Independent N-to-1 Write Aggregate Throughput, +,Wall Clock Time,S +,, +LAMMPS,, +,Molecular Dynamics Simulation Performance, +,Per-Process Memory,S +,Time Spent in Bond Potential Calculation,S +,Time Spent in Communication,S +,Time Spent in Long-Range Coulomb Potential (K-Space) Calculation,S +,Time Spent in Neighbor List Regeneration,S +,Time Spent in Pairwise Potential Calculation,S +,Wall Clock Time,S +,, +MPI-Tile-IO,, +,2D Array Collective Read Aggregate Throughput, +,2D Array Collective Write Aggregate Throughput, +,2D Array HDF5 Collective Read Aggregate Throughput, +,2D Array HDF5 Collective Write Aggregate Throughput, +,2D Array Independent Read Aggregate Throughput, +,2D Array Independent Write Aggregate Throughput, +,3D Array Collective Read Aggregate Throughput, +,3D Array Collective Write Aggregate Throughput, +,3D Array HDF5 Collective Read Aggregate Throughput, +,3D Array HDF5 Collective Write Aggregate Throughput, +,3D Array Independent Read Aggregate Throughput, +,3D Array Independent Write Aggregate Throughput, +,File Close Time (2D Data Collective Read),S +,File Close Time (2D Data Collective Write),S +,File Close Time (2D Data HDF5 Collective Read),S +,File Close Time (2D Data HDF5 Collective Write),S +,File Close Time (2D Data Independent Read),S +,File Close Time (2D Data Independent Write),S +,File Close Time (3D Data Collective Read),S +,File Close Time (3D Data Collective Write),S +,File Close Time (3D Data HDF5 Collective Read),S +,File Close Time (3D Data HDF5 Collective Write),S +,File Close Time (3D Data Independent Read),S +,File Close Time (3D Data Independent Write),S +,File Open Time (2D Data Collective Read),S +,File Open Time (2D Data Collective Write),S +,File Open Time (2D Data HDF5 Collective Read),S +,File Open Time (2D Data HDF5 Collective Write),S +,File Open Time (2D Data Independent Read),S +,File Open Time (2D Data Independent Write),S +,File Open Time (3D Data Collective Read),S +,File Open Time (3D Data Collective Write),S +,File Open Time (3D Data HDF5 Collective Read),S +,File Open Time (3D Data HDF5 Collective Write),S +,File Open Time (3D Data Independent Read),S +,File Open Time (3D Data Independent Write),S +,Wall Clock Time,S +,Min Barrier Latency,S +,, +NAMD,, +,Memory,S +,Molecular Dynamics Simulation Performance, +,Wall Clock Time,S +,, +NPB,, +,Block Tridiagonal (BT) Floating-Point Performance, +,Block Tridiagonal (BT) Wall Clock Time,S +,Conjugate Gradient (CG) Floating-Point Performance, +,Conjugate Gradient (CG) Wall Clock Time,S +,Fast Fourier Transform (FT) Floating-Point Performance, +,Fast Fourier Transform (FT) Wall Clock Time,S +,LU Solver (LU) Floating-Point Performance, +,LU Solver (LU) Wall Clock Time,S +,Multi Grid (MG) Floating-Point Performance, +,Multi Grid (MG) Wall Clock Time,S +,Scalar Pentadiagonal (SP) Floating-Point Performance, +,Scalar Pentadiagonal (SP) Wall Clock Time,S +,Wall Clock Time,S +,, +NWChem,, +,Global Arrays 'Accumulate' Amount,S +,Global Arrays 'Accumulate' Calls,S +,Global Arrays 'Create' Calls,S +,Global Arrays 'Destroy' Calls,S +,Global Arrays 'Get' Amount,S +,Global Arrays 'Get' Calls,S +,Global Arrays 'Put' Amount,S +,Global Arrays 'Put' Calls,S +,User Time,S +,Wall Clock Time,S +,, +OMB,, +,Max Bandwidth, +,Max Bidirectional Bandwidth, +,Max Multiple Bandwidth / Message Rate, +,Min All-to-All Personalized Exchange Latency,S +,Min Broadcast Latency,S +,Min Latency,S +,Min Multi Latency,S +,Wall Clock Time,S +,, +OSJitter,, +,Mean Involuntary Context Switches (All But One Core in Use),S +,Mean Involuntary Context Switches (All Cores in Use),S +,Mean Involuntary Context Switches (Half of Cores in Use),S +,Mean Noise (All But One Core in Use),S +,Mean Noise (All Cores in Use),S +,Mean Noise (Half of Cores in Use),S +,Median Involuntary Context Switches (All But One Core in Use),S +,Median Involuntary Context Switches (All Cores in Use),S +,Median Involuntary Context Switches (Half of Cores in Use),S +,Median Noise (All But One Core in Use),S +,Median Noise (All Cores in Use),S +,Median Noise (Half of Cores in Use),S +,Stddev Involuntary Context Switches (All But One Core in Use),S +,Stddev Involuntary Context Switches (All Cores in Use),S +,Stddev Involuntary Context Switches (Half of Cores in Use),S +,Stddev Noise (All But One Core in Use),S +,Stddev Noise (All Cores in Use),S +,Stddev Noise (Half of Cores in Use),S +,Wall Clock Time,S +,, +Quantum ESPRESSO,, +,Per-Process Dynamical Memory,S +,Time Spent in Electron Energy Calculation,S +,Time Spent in Force Calculation,S +,Time Spent in Program Initialization,S +,User Time,S +,Wall Clock Time,S +,, +WRF,, +,Average Floating-Point Performance, +,Average Simulation Speed, +,Mean Time To Simulate One Timestep,S +,Output Data Size,S +,Peak Floating-Point Performance, +,Peak Simulation Speed, +,Time Spent on I/O,S +,Wall Clock Time,S +,, +CESM,, +,Atmosphere Component Simulation Performance, +,Coupler Component Simulation Performance, +,Initialization Time,S +,Land Component Simulation Performance, +,Max Per-Process Memory (Resident Set Size),S +,Max Per-Process Memory (Virtual Size),S +,Mean Time To Simulate One Day,S +,Median Time To Simulate One Day,S +,Min Per-Process Memory (Resident Set Size),S +,Min Per-Process Memory (Virtual Size),S +,Ocean Component Simulation Performance, +,Output Data Size,S +,Overall Simulation Performance, +,Sea-Ice Component Simulation Performance, +,Time Spent in Atmosphere Component,S +,Time Spent in Coupler Component,S +,Time Spent in Land Component,S +,Time Spent in Ocean Component,S +,Time Spent in Sea-Ice Component,S +,Wall Clock Time,S diff --git a/background_scripts/appkernel_reports_manager.php b/background_scripts/appkernel_reports_manager.php new file mode 100644 index 0000000..078b0f4 --- /dev/null +++ b/background_scripts/appkernel_reports_manager.php @@ -0,0 +1,243 @@ + + */ + +require_once __DIR__ . '/../configuration/linker.php'; + +use CCR\DB; +use CCR\Log; +use AppKernel\AppKernelDb; +use AppKernel\Report; + +// ================================================================================ +// Parse command line options +$options = array( + array( + "h", + "help", + "Print this help message" + ), + array( + "m:", + "maint-user:", + "Maintenance mode, send report only to specified user" + ), + array( + "e:", + "end-date:", + "Finale day of the report" + ), + array( + "a:", + "app-kernel:", + "Generate report ony for specified app kernel" + ), + array( + "r:", + "resource:", + "Generate report ony for specified resource" + ) +); +$options1 = ""; +$options2 = array(); +foreach ($options as $opt) { + $options1 .= $opt[0]; + $options2[$opt[0]] = $opt[1]; +} +$args = getopt($options1, $options2); + + // default values + // With the '-m' argument passed into this script along with a username, + // reports only associated with the username will be built and sent. +$maint_mode = false; +$maint_user = ''; + +$end_date = new DateTime(date('Y-m-d')); +$end_date->sub(new DateInterval('P1D')); + +$appkernel = null; + +$resource = null; + +foreach ($args as $arg => $value) { + switch ($arg) { + case 'h': + case 'help': + print("Usage: appkernel_reports_manager.php [Options]\n"); + print("Options:\n"); + foreach ($options as $opt) { + print('-' . str_replace(':', '', $opt[0])); + print(' | --' . str_replace(':', '', $opt[1])); + if (strpos($opt[0], ':') !== false) { + print('