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* task/DES-2702: Tapis v3 Auth (#1174) * add tapipy; Tapis v3 OAuth token and flow * add docstrings to test methods * update service account to use Tapis * remove future imports * uncomment agave imports * add TapisOAuthToken model migration * fix bugs * remove attrdict for agavepy * pylint: ignore test files * fix ignore unit test regex * fix login url * formatting; remove AgaveOAuthToken references * add test settings for tapisv3 * fix auth/views_unit_test.py * fix backends unit test * formatting * task/DES-2654: Tapis v2/v3 apps model (#1158) * v3 apps model * make appId required field * add AppBundle model * updated model admin * update models and add migration * rework app tray models * squash appitem and appbundle * un-squash migrations * remove faulty app description migration * Use an inline admin form to manage app variants within bundles (#1164) Co-authored-by: Sal Tijerina <[email protected]> * model adjustments * model adjustments; add category pop migration --------- Co-authored-by: Jake Rosenberg <[email protected]> * fix fixture import * skip tapisv2 tests; add todov3 notes; fix fixture * remove unnecessary commented code --------- Co-authored-by: Jake Rosenberg <[email protected]> * Add Google Oauth secrets. * task/DES-2709: Tapis v3 Apps Views (#1177) * add apps views * add AppDescriptionView * TapisTokenRefreshMiddleware: redirect to login if expired * formatting * fix bugs; add AuthenticatedApiView class * update apps call for v3 * separate linting from unit tests in workflow * formatting * formatting * add uuidv4 * tests * fix uuid import * tests * fix formatting * set allowJS to true in tsconfig * add uuid types * rename docker tags and volumes to not conflict with main branch * fix volumes * add tags, description, is_simcenter; some reorg * remove broken source mapping * squash migrations * split websockets; clean up nginx.debug.conf * change staticfiles dirs to align with deployed config; nginx: /var, django: /srv * formatting * task/DES-2710: v3 Jobs Views & Workspace UI updates (#1182) * add apps views * add AppDescriptionView * TapisTokenRefreshMiddleware: redirect to login if expired * formatting * fix bugs; add AuthenticatedApiView class * update apps call for v3 * separate linting from unit tests in workflow * formatting * formatting * add uuidv4 * tests * fix uuid import * tests * fix formatting * set allowJS to true in tsconfig * add uuid types * rename docker tags and volumes to not conflict with main branch * fix volumes * add tags, description, is_simcenter; some reorg * remove broken source mapping * squash migrations * split websockets; clean up nginx.debug.conf * change staticfiles dirs to align with deployed config; nginx: /var, django: /srv * formatting * add jobs views; update workspace UI * fix client linting and tests * fix some server side tests * add getUseJobs hook * add job detail spinner * add usePostJobs * fix webhooks tests * server side linting and tests * formatting * fix unit test * add CSRF_TRUSTED_ORIGINS setting * add m1 makefile targetsg * Use Django to serve static files in debug mode (#1186) * Use Django to serve static files in debug mode * clean up volumes; remove local nginx static and media locations * add back /data/media mount * add media back to nginx; same locations as main --------- Co-authored-by: Sal Tijerina <[email protected]> * task/DES-2708: Build and serve React assets on deploy (#1173) * Build and serve React assets * fix template string * Add custom render block for react assets * re-add agavepy to requirements for legacy migration purposes (#1187) * update dockerfile to copy static assets to correct location * add V3 file operation module and file listing util (#1189) * Dockerfile build targets and cleanup (#1190) * clean up unused files; add development docker build target; fix workspace react-assets ref * fix data depot react-assets ref * docker-compose fix; combine python-base and builder-base steps (#1191) * docker-compose fix; combine python-base and builder-base steps * revert rabbitmq images * parity between intel/m1 rabbit versions * Revert "parity between intel/m1 rabbit versions" This reverts commit 9f5b709. * add newline * revert .gitignore changes --------- Co-authored-by: Jake Rosenberg <[email protected]> * gitignore compiled react assets * TV3/DES-2706: Add view decorator using Tapis JWT auth (#1192) * add view decorator using Tapis JWT auth * Update designsafe/apps/api/decorators.py Co-authored-by: Nathan Franklin <[email protected]> * Add method decorator on project instance view --------- Co-authored-by: Nathan Franklin <[email protected]> * use wsgi for django server locally with working staticfiles (#1200) * Quick: fix tapis client import in filemeta * hotfix/update build info in README.md (#1227) * Remove obsolete version param * Update README for building development images * Allow JWT-authed requests for filemeta routes (#1229) * Milestone: Project creation/publication works end-to-end (#1236) * Get project creation, updates, and type changes working end-to-end * projects creation/curation/publication works end-to-end * import error fix * remove print/console.log statements * DES-2684: NEES Detail View (#1219) * formatting/type errors * tweak for pi array check, updated placeholder text * initial work minus file listing for nees publication details * reworking top level data styling * updated citation modal title * first pass at adding file listing * fix: app card design bugs DES-2741 through DES-2745 (#1223) * fix: DES-2471, DES-2472, DES-2473 bugs (#1221) * fix: DES-2744 hover and focus card UI (#1224) * hotfix: des 2745 global font icon size tweaks (#1225) * refactor: des-2745 rename DS font icons stylesheet * fix: des-2745 load DS font icons + allow customize * chore: des-2745 obvious app-card font icon space * fix: des-2745 use rem not em for icon–title space * fix: des-2745 DS font icons not found * feat: des-2745 re-align certain DS font icons * feat: des-2745 re-position certain DS font icons * chore: des-2745 use (proper) `::before` syntax * fix: des-2745 title alignment after icon resize * fix: DES-2766 app with 1 variant needs diff list (#1232) * fix: DES-2766 app with 1 variant needs diff list * fix: DES-2766 more padding (designer request) * formatting * add nees listing breadcrumbs * add breadcrumbs * fix breadcrumbs --------- Co-authored-by: Jake Rosenberg <[email protected]> Co-authored-by: Wesley B <[email protected]> * task/DES-2767: fix file metadata route path issue (#1235) * Normalize path to be consistent * Remove some unneeded fixgtures --------- Co-authored-by: Jake Rosenberg <[email protected]> * use async task for publication * task/DES-2705: Update post-login task to use TAPIS V3 to configure the two systems (#1183) * Add encryption and system access util from CEP * Add pycryptodome package * Update login to use tapisv3 to configure the two systems * Fix linting * Fix linting/black issues * Fix lockfile * Refactor to have parameter path and also use AGAVE_WORKING_SYSTEM via keyservice * Update test settings for +AGAVE_WORKING_SYSTEM * Add retry --------- Co-authored-by: Jake Rosenberg <[email protected]> Co-authored-by: Sal Tijerina <[email protected]> * Working search bars in data files/published areas (#1240) * working search bars in data files/published areas * update test settings * Working file operations/Data Depot buttons. (#1242) * working search bars in data files/published areas * Working V3 move/copy modals * Get toolbar buttons working and enabled/disabled correctly depending on context. * Migrate listings/breadcrumbs to Common for use in apps (#1243) * migrate file listing table and breadcrumbs to common component module for use in Apps * pass pipeline without tests * Working pipeline for amend/revise (#1248) * fix search filters for hyb sim/field recon * formatting * Refinements to Data Depot UI and pub ingest (#1256) * Add placeholder/error UI for listings; add Data Diagram for pubs * improve line wrapping in Data Diagram for entities with long names * refinements to publication ingest and display * task/WG-258: allow jwt access for project metadata updating (#1255) * Move project fixture higher up to use in view testing * Allow jwt access for updating project metadata --------- Co-authored-by: Jake Rosenberg <[email protected]> * task/DES-2629: v3 Apps Form (#1185) * add apps views * add AppDescriptionView * TapisTokenRefreshMiddleware: redirect to login if expired * formatting * fix bugs; add AuthenticatedApiView class * update apps call for v3 * separate linting from unit tests in workflow * formatting * formatting * add uuidv4 * tests * fix uuid import * tests * fix formatting * set allowJS to true in tsconfig * add uuid types * rename docker tags and volumes to not conflict with main branch * fix volumes * add tags, description, is_simcenter; some reorg * remove broken source mapping * squash migrations * split websockets; clean up nginx.debug.conf * change staticfiles dirs to align with deployed config; nginx: /var, django: /srv * formatting * add jobs views; update workspace UI * fix client linting and tests * fix some server side tests * add getUseJobs hook * add job detail spinner * add usePostJobs * fix webhooks tests * server side linting and tests * formatting * fix unit test * add useGetApps hook; app routing * move tapis types to types file * add spinner; cleanup * add CSRF_TRUSTED_ORIGINS setting * add m1 makefile targetsg * formatting * wip: appswizard and layout * wip: apps routing; prefetch app listing data * remove await/defer * fix m1 django command * formatting; linting; 1s stale time * use wsgi for django server locally with working staticfiles * wip: cleanup * remove /applications sub path for tools & apps url * fix backend response for private apps * install zod; tanstack form * add workspace utils; apps submission form * cleanup unused styles * wip * install zod; tanstack form * add workspace utils; apps submission form * cleanup unused styles * remove version from docker compose files * data loads * working back * state persists * clean up * remove unused dependencies * working reset * working submission * update antd; add SystemsPushKeysModal * add ssh keys manager; system push keys endpoint * push keys backend * reset push keys form on success * reorg apps view components * set defaultSystem in app response * better param handling; fix apps view settins * add systems hooks and views * use prefetching to speed up load time * fix submit status * add app icon * add job submit messages * Task/DES-2656 apps sidebar (#1202) * -Adds accordion ant sidebar -Need to update to allow more than one category to be open at once -Needs styles * Change from Panels to Menu Ant components * -Adds ant menu and submenus with children rather than with item prop passed to menu * Adds unit test to app AppSideNav * - Fixed unit test * WIP ant d Menu * WIP * side nav submenus * - Adds styles per mockup - Adds WIP collapse icon and state to manage it - Adds working subnav of application bundles * - Removes unnecessary toggle because antd menu handles appropriately - Removes broken expand icon logic * fix unbundled item render; formatting --------- Co-authored-by: Sal Tijerina <[email protected]> * Task/des 2631 apps breadcrumb (#1188) * Add AppsBreadcrumb component and integrate it into WorkspaceBaseLayout * Refactor AppsBreadcrumb and AppsSideNav components * Add appsListingJson import and modify breadcrumb rendering * Refactor path modification logic in WorkspaceBaseLayout.tsx * Update subproject commit hash * Fix archiveSystemDir formatting in JobsView * Update SITE_ID values in site configuration files * Update subproject commit hash * Fix formatting issues in code * Update app names and formatting * Update SITE_ID values in site configuration files * Remove unused code and imports * Add Tapis operations to datafiles handlers * Remove unused React assets from base template * Update React and database configurations * Update datafiles handlers and workspace views * Replace Tapis operations with Agave operations * Update import statement for service_account * Fix formatting in data_depot.j2 template * Fix formatting issues in data_depot.j2 template * Fix formatting and add missing newline at end of file * retrigger checks * Refactor JobsDetailModal component * Add AppsBreadcrumb component and update layout styles * Refactor AppsBreadcrumb module CSS and fix function formatting * Remove unused import statement in WorkspaceBaseLayout.tsx * Fix modifiedPath for Job Status * Refactor path modification in WorkspaceBaseLayout.tsx * Add app data and loading state to AppsBreadcrumb component * updated AppsBreadcrumb * update to Job Status label * refactor breadcrumb code from WorkspaceBaseLayout into AppsBreadcrumb * disable app form for testing on this branch * Refactor AppsBreadcrumb component to improve breadcrumb rendering; no link for last item * Refactor AppsBreadcrumb component to improve breadcrumb rendering and remove last item link; change separator from / to > * Refactor AppsBreadcrumb component to improve breadcrumb rendering and remove last item link; change separator from / to > * remove suspense query * revert reversion of suspense * remove portal dir --------- Co-authored-by: Sal Tijerina <[email protected]> * linting * linting and refactor breadcrumb * linting * layout adjustments * more styling * fix user guide link * fix tests; fix tags and labels for description list * Bug DES-2762: Adding key to avoid optimization from Antd (#1233) Co-authored-by: Sal Tijerina <[email protected]> * fix linting * add typing * add more typing * working Edit button * fix type * fix username render * more linting fixes * more typing * finish typing * linting * fix content hash * Tasks/DES-2630: App Form styling (#1241) * App Form Styling according to design (first version) * Lint fix for FormField * More lint fixes * Common Component Button and font increase * Fix typescript error * Fix type error --------- Co-authored-by: Sal Tijerina <[email protected]> * fix accessor error * fix workspace prod template * fix is_bundled computed value; fix missing label * Support html apps (#1244) * support html apps * linting * task/DES-2758, DES-2747: Tapis v3 Job Notifications (#1245) * fix job sumbit error render * fix tapipy error propogation * job status notifications * fix state redirect on notification update by removing angular code from workspace * only render data_depot events * propogate error for ApiException * add message to notification events for bell dropdown * DES-2749: Handle changes to queue (#1246) Co-authored-by: Sal Tijerina <[email protected]> * fix common exports * Bug/DES-2778: Handle number validation in App Form (#1250) * Bug/DES-2778: Fix validation for number input in App Form * Fix merge issue * Lint fix * fix app variant href * fix persistent previous app state in step * fix: allow compute max run time when no queue in VM case * fix toasts for data_depot events * more explicitly ignore jobs events * fix errant root: declaration * default open app * Bug/DES-2786: Use key to make sure app instance is created on navigation (#1251) * Bug/DES-2786: Use key to make sure app instance is created on navigation Fix state issues * Remove un-necessary field init * App Form step and summary rendering fixes (#1252) Initial working version * task/des-2657--job-history-listing (#1239) * Add support for displaying node count and cores per node in JobsListing component * Add support for displaying archive system directory in JobsListing component * interactive session modal; styling * wip: notification badge * linting * add todo notes --------- Co-authored-by: Sal Tijerina <[email protected]> * disable notifs in job status nav * task/DES-2779: Jobs Listing Notification Badge & Update Job Listing Upon Notification (#1253) * update notification badge and listing when job updates; enable job listing buttons * linting * linting * fix app ordering * remove unused import * tasks/DES-2655: Select file modal in Apps Form (#1254) * Create SelectModal for file selection * Handle public vs private * Use isMyData to check if this is private or public --------- Co-authored-by: Sal Tijerina <[email protected]> * task/DES-2713 job history modal (#1234) * - Adds View Details modal for job status listings - Adds working output link button (may need to check I'm directing to the correct path) - Does not add a functioning delete button - Adds modal with the design based of current DS Job Detail Modal * -Adds closing/cancel action - Doesn't handle state correctly for closing - Buttons and links don't work yet * - Adds state handling for open/close modal * Adds linting changes * Adds linting * Uses PrimaryButton component * Task/des 2713 job history modal adjustments (#1257) * url nav for job modal; working buttons * fix data files links --------- Co-authored-by: Sal Tijerina <[email protected]> * render job detail on top of listing * DES-2629: Use portal names to build list. (#1258) * fix Tools & Applications link * DES-2789: Only validate current steps on continue button (#1260) * Apps form styling fixes (#1262) * DES-2818: add missing license prompt * fix submit button; submission details css; standard button width; standard font family * job status header; small job action buttons * larger summary item label width * adjust spacing * revert helvetica default * fix button size on job detail modal * use base Button for link type * linting * Remove htmltype submit on continue button (#1263) * task/DES-2755 + DES-2756: Allocations backend + hooks (#1247) * Allocations backend w/ TAS hookup * Add Allocations elasticsearch model + add model to elasticsearch settings * Add allocation type * Add useGetAllocations hook * Add TAS env variables to django settings * Add UserAllocations model * Use UserAllocations model in view * Update designsafe/apps/workspace/api/views.py Co-authored-by: Jake Rosenberg <[email protected]> * Pylint errors fixes * Create util function for grabbing user allocations and creating/updating their cached allocations * Add async allocations cache update to login flow * Roll back elasticsearch implementation * Pylint fixes for allocations model * fix unit test * Roll back elasticsearch changes to IndexedApp * Resolve pylint errors on allocations model * Fix client linting errors * Fix poetry black reformatting checks * task/DES-2820: Allocations in App Form (#1264) * use allocations in app form * use dynamic user model; fix task * fix linting * fix type error * fix test * linting --------- Co-authored-by: Garrett Edmonds <[email protected]> Co-authored-by: Sal Tijerina <[email protected]> Co-authored-by: Jake Rosenberg <[email protected]> Co-authored-by: Garrett Edmonds <[email protected]> --------- Co-authored-by: sophia-massie <[email protected]> Co-authored-by: Van Go <[email protected]> Co-authored-by: Chandra Y <[email protected]> Co-authored-by: Jake Rosenberg <[email protected]> Co-authored-by: Garrett Edmonds <[email protected]> Co-authored-by: Garrett Edmonds <[email protected]> Co-authored-by: Garrett Edmonds <[email protected]> * fix cache_allocations task; linting * Fixes for publication session items (#1270) * Fixes for project/publication testing session items * layout fixes and explanation for pipeline select * fixes for file tags and operations on published files * use filetype-specific icons * various pipeline fixes * add Best Practices modal and fix ingest for legacy simulations * add version changes modal * linting/type fixes * task/DES-2823: Fix interactive modal (#1266) * update placeholder job listing message * fix interactive modal state * Task/DES-2801 [UI] Apps Nav Bar Spacing (#1271) * - Adds spacing styles and header to AppsSideNav - Removes unused style with comment * - Adds border to sider nav menu * - Linting * - Linting * - Removes AppNavLink component - Removes display block from Title div so that justify content style applies - Change font for title to match design - Change color of right nav border to match design * -Change item height of nav bar - Removes css module for AppsSideNav --------- Co-authored-by: Sal Tijerina <[email protected]> * docs: tapis v3 redesign readme step №3 (#1273) * docs: Tapis v3 changes to "First time setup" №3 * docs: Do not use `[!NOTE]` syntax * Bug/layout sider fix (#1274) * - Moves app sider styles to workspace specificity to avoid changing Data Depot sider style * - Linting * DES-2819: Select Modal Design Updates (Part 1 of 2) (#1276) * DES-2655: Select Modal Design work * Adjust modal body to new global styles * Address review comments * fix lint * Fix isRequired for nested fields (#1277) * Task/des 2849 cite this data (#1272) * commit to main * Add useCitationMetrics hook for fetching citation metrics in publications module * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Add MetricsModal to project modals and update Datacite API endpoints * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor ProjectCitation module and styles, and add DownloadCitation component * Refactor ProjectCitation module and styles, and add DownloadCitation component * chore: Refactor ProjectCitation module, add DOI link to PublishedCitation * Refactor ProjectCitation module, add DOI link to PublishedCitation * chore: Update Docker images and volumes configuration for development environment * Refactor ProjectPreview module, fix useState declaration * Refactor useState declaration in ProjectPreview module * Refactor ProjectCitation module, optimize DOI retrieval and usage * feat: Optimize DOI retrieval and usage in ProjectCitation module * Refactor ProjectCitation module, optimize DOI retrieval and usage * Refactor ProjectCitation module, remove commented out code for MetricsModal * Update index.ts --------- Co-authored-by: Jake Rosenberg <[email protected]> * Apps form testing session fixes (#1279) * fix SystemsPushKeysModal: error handling; onSuccess callback; layout; info text * show missing allocation message * rm unuseful comment * open View User Guide in new tab * point notifications to job history; remove apps and jobs from dashboard * task/DES-2726: configure cloud data on login (#1265) * Configure cloud.data on login * Update test settings and todo comments * Rename setting * Remove listing check in from view Checkin and configuring occurs only in the task now * Move task to an onboarding queue --------- Co-authored-by: Sal Tijerina <[email protected]> * Add modals for publication feedback/archive download (#1275) * Add feedback and project download modals * link formatting * form/modal overflow fixes * Bug: Handle zod optional fields for undefined or empty values (#1281) * include App Overview link in breadcrumbs (#1283) * task/DES-2759 : Apps side nav styling updates (#1280) * Add shortLabel for rendering in app side nav - add shortLabel to AppVariant model * Add shortLabel for rendering in app side nav - add shortLabel to relevant app views * Add shortLabel for rendering in app side nav - add shortLabel to frontend app types * Optionally render shortLabel for apps in side nav + update hover and selected colors for side nav menu items * Remove unused import * Linting fixes * include app notes.shortLabel in _get_public_apps response * fix submenu open key * update apps side nav border colors and weight (#1282) * Modify main themeConfig for design's #cbdded hover & select menu item color * Client linting fix * Change new appVariant field name to 'short_label' * Update references to 'shortLabel' to renamed 'short_label for AppVariant model * Linting fixes for new migration * Update designsafe/apps/workspace/api/views.py --------- Co-authored-by: Garrett Edmonds <[email protected]> Co-authored-by: Sal Tijerina <[email protected]> * Bug DES-2876: Select Modal bug fixes (#1284) * Select Modal fixes * Update usePathDisplayName.ts * Fix from merge issue - getPathName * Breadcrumb use system label * Bug/download citation not working in next (#1285) * commit to main * Add useCitationMetrics hook for fetching citation metrics in publications module * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Add MetricsModal to project modals and update Datacite API endpoints * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor ProjectCitation module and styles, and add DownloadCitation component * Refactor ProjectCitation module and styles, and add DownloadCitation component * chore: Refactor ProjectCitation module, add DOI link to PublishedCitation * Refactor ProjectCitation module, add DOI link to PublishedCitation * chore: Update Docker images and volumes configuration for development environment * Refactor ProjectPreview module, fix useState declaration * Refactor useState declaration in ProjectPreview module * Refactor ProjectCitation module, optimize DOI retrieval and usage * feat: Optimize DOI retrieval and usage in ProjectCitation module * Refactor ProjectCitation module, optimize DOI retrieval and usage * Refactor ProjectCitation module, remove commented out code for MetricsModal * Refactor DOI retrieval and usage in ProjectCitation module * test commit * Update index.ts * fix app version href * Bugs/DES-2828 and DES-2829: Select Modal system selection and validation bugs (#1287) * Retain system select based on input and validation fix * Fix test failure * update default DS allocation prefix * also accept DesignSafe-DCV * fix allocation check on non-batch exec system * full length workspace content; apps side nav scrolls (#1290) * quick: fix hidden overflow on app side nav * task/DES-1989 - Redirect guest users when accessing non-published project (#1292) * If an unauthenticated user now attempts to view a project, they will now be prompted to log in. Some styling changes done to make the JSX messages look like the Django error messages produced in file listings. * Ran a formatter * Minor change to make sure projectID and data were defined when used. * One last linting change. * fixes to pipeline publish operations (#1294) * scope .o-site__body changes to workspace * revert changes to alert styling * - Uses selectedKey property in Menu to correctly (#1296) select/deselect active Menu Item based on route * Workspace fixes from 6/12 testing session (#1295) * unread notifs: only count unique jobs * disable JobActionButton after success; make cancel button red * fix scrolling on long app form * expand app side nav to 250px * disable app form while submitting * fix notifications fetching; highlight newest notification * remove DesignSafe-DCV as default allocation * fix next url param redirect; update login redirect setting to reflect production * use formatDateTimeFromValue util; do not render date for null values * fix eventTypes array parsing * fix notification bell event links * Update apps placeholder text * Hide "Edit" button for step when that step is active * fix style override on ant btn disabled state * fix long app form scroll * allow small buffer for long app param labels * no horizontal scrolling * add right margin to user guide link to avoid scrollbar ui conflict * Task/des 2862 update form validation messages (#1297) * commit to main * Add useCitationMetrics hook for fetching citation metrics in publications module * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Add MetricsModal to project modals and update Datacite API endpoints * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update ProjectPreview module and styles * add Total Request values to table * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update MetricsModal component * Refactor useCitationMetrics hook and update MetricsModal component * Refactor MetricsModal component and add Total Request values to table * Refactor ProjectPreview module, remove DownloadCitation component * update variable names * format write * Refactor ProjectPreview module, update MetricsModal props * refactor: Add custom error messages to form validation rules * refactor: Update form validation error messages * Remove file from the pull request * refactor: Update form validation error messages * refactor: Update form validation error messages * refactor: Update form validation error messages * Delete client/modules/datafiles/src/projects/modals/MetricsModal.tsx * refactor: Update form validation error messages * task/WG-294: improve links from DS projects to hazmapper maps (#1291) * Fix links from DS projects to hazmapper maps * Fix linting issues * TV3: disable move/rename on files with metadata associations. (#1293) * disable move/rename on files with metadata associations * remove logging * Task/des 2666 metrics modal (#1237) * commit to main * Add useCitationMetrics hook for fetching citation metrics in publications module * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Add MetricsModal to project modals and update Datacite API endpoints * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update ProjectPreview module and styles * add Total Request values to table * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update MetricsModal component * Refactor useCitationMetrics hook and update MetricsModal component * Refactor MetricsModal component and add Total Request values to table * Refactor ProjectPreview module, remove DownloadCitation component * update variable names * format write * Refactor ProjectPreview module, update MetricsModal props * Update docker-compose-dev.all.debug.yml * Update docker-compose-dev.all.debug.yml --------- Co-authored-by: Jake Rosenberg <[email protected]> * pipeline bugfixes; redirect to project after publishing (#1298) * close dropdown menus after selection * replace registration link with redirect to TAM * accept jwt auth for license view (#1300) * DES-2896: Do not block continue to next step on invalid fields (#1301) * styling for job status nav when active and hover (#1303) * Bugs/DES-2907: Exclude allocations at portal level (#1302) * Bug/DES-2907: Allow exclusions from allocations at portal level * Fix formatting * Use env for settings * add default to ALLOCATIONS_TO_EXCLUDE * task/DES-2911: Render `jobAttributes` `notes.label` as form field label if it exists (#1304) * Render job attributes notes.label if it exists * linting * linting * Task/des 2905 cite this data type other (#1299) * Add citation download options and metrics to ProjectPreview and PublishedDetailLayout * Refactor Download Citation link in ProjectPreview and PublishedDetailLayout * Refactor useCitationMetrics hook and remove unused error variable * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and update ProjectPreview module and styles * Refactor useCitationMetrics hook and remove MetricsModal from ProjectPreview module * Refactor useCitationMetrics hook and remove unused error variable * Refactor import path for MetricsModal in ProjectCitation and PublishedDetailLayout * DES-2909 and DES-2914 - bug fixes (#1306) Co-authored-by: Garrett Edmonds <[email protected]> * Bugs/DES-2888: Select Modal - regex fix to detect storage system and file selection modes (#1308) * Regex fix and file selection modes * Lint and formatting fixes * Bug/DES-2835,2855: Ribbon Buttons and Amend text (#1311) * chore: Refactor RenameModal to handle file extensions correctly * feat: Add step to change metadata in curation directory before publishing * Fixes: Data Depot testing session 2024-06-17 (#1310) * data depot fixes- dropdown usability and error UI for forms * pipeline display fixes * fixes for Trash button * working downloads for private data * disable downloads from frontera.work * don't indicate success on submission of async file transfer * DES-2931, DES-2932, DES-2929: Project edit modal fixes (#1314) * allow editing of type None; fix guest member input on type Other * enforce URL formatting on referenced data/related works * Show tags in Select Files listing for type Other (#1312) * Bug/DES-2923: Remove Download Data from My Projects (#1318) * chore: Refactor PipelineSelectForPublish component - Add line break for clarity in the process description - Include instructions for submitting a ticket with project number, dataset name(s), and author order * feat: Add line break for clarity in the process description and include instructions for submitting a ticket with project number, dataset name(s), and author order * feat: Add hybrid simulation steps to project type modal * chore: Refactor PipelineSelectForPublish component * Refactor * chore: Refactor DownloadCitation component to include preview option * remove previous ticket files * bug/DES-2922: word/spelling/typo issues (#1313) * chore: Refactor PipelineSelectForPublish component - Add line break for clarity in the process description - Include instructions for submitting a ticket with project number, dataset name(s), and author order * feat: Add line break for clarity in the process description and include instructions for submitting a ticket with project number, dataset name(s), and author order * set mydata acls for other and mask (#1315) * feat: DES-2903 add id to app listing headings (#1316) * DES-2940 - handle env var with labels (#1319) * feat: DES-2806 cms breadcrumbs (#1268) (#1320) * feat: DES-2903 add id to app listing headings * feat: DES-2631 cms breadcrumbs - added link state mixin - added link state styles - moved CSS variables - added CSS variables - added CMS breadcrumbs template - included CMS breadcrumbs template - changed DjangoCMS breadcrumb template * fix: DES-2631 font size & distance from nav * fix: DES-2809 lighter 2nd-level breadcrumb text * fix: DES-2809 only add breadcrumbs on app page * feat: DES-2809 load CSS sooner * refactor: DES-2806 no new breadcrumb classes I.e. skin Bootstrap's. * chore: DES-2806 remove outdated vars Added in DES-2806, but then not used after later commits for DES-2806. * fix: DES-2806 incorrect margin ref. thus spacing * fix: DES-2806 font size should match feat/Tapis-v3 * feat: DES-2806 move bs3 breadcrumb style to .css * fix: DES-2806 core-styles update & match workspace * fix: DES-2806 match workspace top padding * feat: DES-2806 improve cms focus ui * fix: DES-2806 match workspace colors * fix: DES-2806 use `.breadcrumb-item` not `li` Bootstrap uses `.breadcrumb-item`. * Revert "fix: DES-2806 use `.breadcrumb-item` not `li`" This reverts commit b58cc96. Bootstrap 4 uses `.breadcrumb-item`, but not Bootstrap 3. * chore(cms): update core-styles breadcrumb * chore(cms): use core-styles breadcrumb at v2.27.0 * Bug/des 2990 Fix fr protected data options (#1321) * show protected data options when changing project type to FR * improve variable naming * formatting * fix prop typing * Persist HazMapper maps when changing project type (#1323) * bug/DES-3000: Handle DOI not provided in useCitationMetrics (#1325) * feat: Handle DOI not provided in useCitationMetrics * feat: Add cache page decorator to PublicationDetailView and PublicationDataCiteView * feat: Add cache page decorator to PublicationDetailView and PublicationDataCiteView * Bug/DES-2982: text/typo/wording/spelling issues (#1329) * Fix typo in curation office hours link * chore: Fix typo in Publish/ Amend/ Version * Pipeline fixes and Fedora representation for publications (#1332) * Pipeline fixes and Fedora representation for publications * formatting * task/DES-2924: Add metadata and move/copy/download buttons to preview modal (#1334) * Add metadata and move/copy/download buttons to preview modal * formatting * Data Files/Projects styling fixes (#1336) * Scope scroll overflow behavior in modals to Tools & Applications (#1338) * Scope overflow scroll in modal to Tools & Applications * clean up diff * Task/DES-2984: Use a single form for creating and updating categories (#1341) * use a single form for both creating and editing categories * set smooth scrolling; remove error dialog when switching edit mode * fix type error * successCallback typo fix in preview/move modals * Bugs/DES-2872: [AppForm] Handle axios request errors without crashing client (#1322) * DES-2872: AppViews error handling * Add key * Task/WA-199: Uniform margin/padding for HTML app content. (#1342) * Add uniform padding to HTML app container * add top margin to app HTML * Include all job submission values in job detail modal (#1333) * Job Details Modal * Fix label and remove unnecessary env variables * Fix unit test error * Switch to antd description instead of core's descriptionlist * Filter display items with no data --------- Co-authored-by: Garrett Edmonds <[email protected]> Co-authored-by: Sal Tijerina <[email protected]> * Update file metadata on move/copy/rename (#1344) * [AppForm] Use bundle_icon field for app icon in App Form header (#1345) * [SelectModal] New features added - back button and first row (#1340) * [SelectModal] Back button and related features * Fix lint error * Disable selection for root if it is first row * Update SelectModal.tsx --------- Co-authored-by: Sal Tijerina <[email protected]> * add search bars to NEES layouts; add links to files in experiments (#1347) * task/DES-2935: Notifications fine tuning (#1346) * hover pointer; duration 5s; onClick to job history * only fetch notifications once - subsequent notifications will come through as webhooks * Bug/des-2986: description error messages (#1328) * Refactor form validation rules for project description length * Refactor form validation rules for project description length * Handle `memoryMb` value change on queue change (#1350) * update docker compose command in makefile; show execution dir while running (#1351) * split datacite metrics and events hooks; fix caching (#1349) * reset 'download datset' modal on close * add dropdown with help links (#1355) * [Apps] Translate Early Termination TAPIS Failure Status to Success if interactive (#1358) * [Job History] Implement expected functionality of "Reuse Inputs" (#1357) * [Job History] Implement expected functionality of "Reuse Inputs" * Fix build error * Address review comments - shared component, suspense * Fix lint error --------- Co-authored-by: Sal Tijerina <[email protected]> * add category to breadcrumb (#1360) * task/DES-3020: Fix scroll in HTML apps (#1361) * fix html app overflow * remove unnecessary css * Task/DES-2601: DOI logging for file/publication operations (#1356) * log DOIs when published files are downloaded/copied/previewed * re-add logging when entity dropdown is opened * Add instructions for bulk data transfer into projects (#1365) * Bugs/DES-3033 [Job Details Modal] Do not show hidden fields and show fields with empty strings (#1364) * DES-3033: Handle hidden parameters and inputs * more consolidion * task/DES-2936 - Hide Outputs section in form for interactive jobs (#1359) * Outputs form files are hidden from interactive job submission, still needs to be hidden from side panel. * Hid Outputs field from Job Submission Summary sidebar. * Refactored to bring app definition in as prop, to prevent accidentally double-loading the app and to make the code more readable. --------- Co-authored-by: Sal Tijerina <[email protected]> * Task/WG-316 Data Depot disable menu hazmapper (#1352) * Disabled menu on preview modal and on listing for hazmapper files * - Disables Copy file option in preview PreviewModal - Adds display of response in preview modal for testing * - Adds functionality to open hazmapper map in hazmapper in PreviewContent - Exports Hazmapper base urls - Handles cancel of preview modal once the hazmapper map opens in new tab * - Adds handleCancel prop to PreviewContent in PreviewModal * - Front end linting * - Fixing merge issues * - Linting * - Addressing error Expected a 'break' statement before 'default' no-fallthrough - Addresses lexical delcaration error in Hazmapper case block * - Linting * - Linting error * - Combines file menu logic in PreviewModal --------- Co-authored-by: Sal Tijerina <[email protected]> * task/DES-2939 - New App Notes Field "hideQueue" (#1326) * Adding hideQueue flag for apps to hide the queue selection from users. Should only be used with Compress/Extract for now. * Can now hide queue from job subission summary * As suggested, Queue and Allocation now hide independently of each other, and the fields are hidden from the Summary if the app definition requires it. * Improve handling of error responses for projects/publications (#1367) * improve error boundaries on projects/pubs * remove logging * task/DES-2938 & DES-2941: App form updates (#1366) * Add user_guide_link to app entry model * Render user_guide_link from app model in app form header, and move app form header to capture html apps * Move Suspense one more level up from Header * Fix element arrangement + clean up unused vars * linting * linting * linting * move user_guide_link to AppListingEntry model; send value to client side; ignore blank entry * minor comment adjustment; capitalize Queue in job detail modal * fix app form vertical scroll * add max_length to charfield --------- Co-authored-by: Sal Tijerina <[email protected]> * formatting * update to Usage Breakdown * Revert "update to Usage Breakdown" This reverts commit fe80f0d. * Bug/des 2528 update datacite metrics (#1371) * chore: Fix MetricsModalBody data display issue * chore: Fix MetricsModalBody data display issue * Revert "update to Usage Breakdown" This reverts commit fe80f0d. * chore: Update MetricsModalBody to display most recent year by default * chore: Update MetricsModalBody to display most recent year by default * chore: Update MetricsModalBody to display most recent year by default * chore: Refactor MetricsModalBody to improve data display and filtering * update missing allocation message (#1372) * Task/DES-2707: add script to migrate project systems to v3 tenant (#1180) * Add tapipy * Use tapipy 1.6.3 due to bug in 1.6.2 * Add command to migrate project systems * Log any issues * Fix pylint issues * Format with 'black' code formatter * Fix linting issues after black formatting changes * Update v3 system using any users who only exist in v2 system roles * Fix linting issues * Refactor how community data is handled --------- Co-authored-by: Sal Tijerina <[email protected]> * disable injection of path information into anchor elements on error pages (#1374) * fix ingest script for projects * Quick: Fix `check_or_configure_system_and_user_directory` `retry()`; Update `<SystemsPushKeysModal />` wording. (#1376) * fix retry call; update wording on push keys modal * use bind=True * fix tombstone ingest and add tombstone UI (#1378) * hide move button on public systems; hide copy button for unauth'd users (#1379) * DES-2626: NCO TTC Updates (#1368) * next batch of nco ttc grants page updates * removing category filter, adding subjects as keywords to details modal * updating button styles * fixing bug in abstract details modal * adding pi name to the text field search * fix deprecated external_resource_secrets setting * log DOI when downloading project archives (#1382) * Quick: Maintenance toggle with staff bypass (#1381) * Add setting to toggle maintenance page display * refactor logic * don't show page for requests coming from TACC VPN * move VPN IP prefix to settings * fix last-updated dates on projects after migrating (#1385) * list all app versions (#1386) * Fedora: Ingest on publish (#1387) * add Fedora ingest step to publication pipeline * update test settings * fix webhook settings for local dev * formatting * always use www in prod redirect uri (#1388) * get nco dashboard working for unauth'd users (#1389) * NCO fix * Fix/prod redirect uri (#1391) * always use www in prod redirect uri * add www replacement in tapis_oath call * Update quarters in MetricsModal to match correct time periods * Revert "Update quarters in MetricsModal to match correct time periods" This reverts commit 5db4818. * Update quarters in MetricsModal to match correct time periods (#1393) * Use Zod refine for regex (#1392) * curation fixes for entity ordering/file trashing (#1395) * task/WP-647: Remove portal name filter for jobs by default (#1394) * remove portalname filter by default for jobs * remove old test description from setfacl job --------- Co-authored-by: Garrett Edmonds <[email protected]> * Now apps will list simcenter apps after popular apps, but before the rest of the apps. (#1397) Co-authored-by: Sal Tijerina <[email protected]> --------- Co-authored-by: Jake Rosenberg <[email protected]> Co-authored-by: Nathan Franklin <[email protected]> Co-authored-by: Sarah Gray <[email protected]> Co-authored-by: Wesley B <[email protected]> Co-authored-by: sophia-massie <[email protected]> Co-authored-by: Van Go <[email protected]> Co-authored-by: Chandra Y <[email protected]> Co-authored-by: Garrett Edmonds <[email protected]> Co-authored-by: Garrett Edmonds <[email protected]> Co-authored-by: Garrett Edmonds <[email protected]> Co-authored-by: fnets <[email protected]>
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