Freeze chrigel maurer v0 #1529
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Freeze chrigel maurer v0 #1529
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sanderegg
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May 26, 2020
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sanderegg
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- upon logout alive keys are set to expire in 1 seco (Platform stability enhancements #1527)
- UI/UX: Thumbnail and loading iframe (UI/UX: Thumbnail and loading iframe #1524)
- [bugfix] Fix for is1499 ([bugfix] Fix for is1499 #1516)
- Little UI improvements for Monday demo (Little UI improvements for Monday demo #1515)
- Minor+Patch upgrades in python packages and system+api testing (Minor+Patch upgrades in python packages and system+api testing #1513)
- Cleanup of orphaned services (Cleanup of orphaned services #1509)
- WIP: add metrics to count services started/stopped (WIP: add metrics to count services started/stopped #1510)
- fix thumbnails (Fix thumbnails #1514)
- [bug] Is479/cc stability ([bug] Is479/cc stability #1500)
- UI/UX Study Editor (UI/UX Study Editor #1505)
- Fix wrong redis key (Fix wrong redis key #1504)
- exportButton does not exist for GUEST users (Fix opencor e2e test #1503)
- [maintenance] requirements upgrades ([maintenance] requirements upgrades #1502)
- UI/UX: Dashboard Cleanup, Follow-Up I (UI/UX: Dashboard Cleanup, Follow-Up I #1497)
- director: renew cache in the background instead of clearing cache (director: renew cache in the background instead of clearing cache #1496)
- [maintenance] upgrade pytest in entire repo ([maintanance] upgrade pytest in entire repo #1498)
- documentation enhancement (documentation enhancement #1481)
- GC no longer removes projects if user is not GUEST (GC no longer removes projects if user is not GUEST #1491)
- Fix Postgres migration (Fix Postgres migration #1495)
- UI for service submission (UI for service submission #1309)
- Fix "Save as template" (Fix "Save as template" #1493)
- Fixes + some UI/UX (Fixes + some UI/UX #1471)
- Fine Grained access rights (Fine Grained access rights #1310)
- Fix garbage collection (Fix garbage collection #1480)
- [Maintenance] package reqs update and extended invitation lifetime ([Maintenance] package reqs update and extended invitation lifetime #1482)
- Bump tenacity from 6.1.0 to 6.2.0 in /packages/postgres-database (Bump tenacity from 6.1.0 to 6.2.0 in /packages/postgres-database #1478)
- Fixes boot failure in devel mode (Fixes boot failure in devel mode #1477)
- [maintenance] Upgrades webserver's requirements ([maintenance] Upgrades webserver's requirements #1444)
- in case of service integration 1.0.0 use inputs.json and outputs.json (in case of service integration 1.0.0 use inputs.json and outputs.json #1472)
- API gateway: api-keys in webserver, gateway services and client sdk (API gateway: api-keys in webserver, gateway services and client sdk #1460)
- Fixes f-string-without-interpolation linter error (Fixes f-string-without-interpolation linter error #1467)
- Increase openStudy timeout (Increase openStudy timeout #1462)
- openStudyLink (openStudyLink #1461)
- Is1304/add internal traefik instance for reverse proxy (Is1304/add internal traefik instance for reverse proxy #1313)
- Bump coverage from 5.0.3 to 5.1 in /packages/service-library (Bump coverage from 5.0.3 to 5.1 in /packages/service-library #1447)
- fix env already shows published port (fix env already shows published port #1443)
- Maintenance/minio endpoint and qooxdoo compiler logs (Maintenance/minio endpoint and qooxdoo compiler logs #1442)
- Bump jest from 25.2.4 to 25.2.7 in /tests/e2e (Bump jest from 25.2.4 to 25.2.7 in /tests/e2e #1433)
- Add Light theme (Add Light theme #1422)
- sidecar compatible with integration of services 1.0.0 (sidecar compatible with integration of services 1.0.0 #1425)
- Fixes on webserver diagnostics submodule and setup in dev-mode (Fixes on webserver diagnostics submodule and setup in dev-mode #1430)
- [maintenance] diagnose long response latency ([maintenance] diagnose long response latency #1421)
- Fix e2e false positives (Fix e2e false positives #1428)
- Bump pytest-mock from 2.0.0 to 3.0.0 in /packages/service-library (Bump pytest-mock from 2.0.0 to 3.0.0 in /packages/service-library #1423)
- Bump werkzeug from 1.0.0 to 1.0.1 in /packages/service-library (Bump werkzeug from 1.0.0 to 1.0.1 in /packages/service-library #1424)
- [maintenance] audit e2e npm packages ([maintenance] audit e2e npm packages #1416)
- Make Node outputs more visible (Make Node outputs more visible #1405)
- fix issue when next_task_nodes is None (fix issue when next_task_nodes is None #1411)
- Async Sidecar + maintenance pytest-simcore + docker build-kit/X (Async Sidecar + maintenance pytest-simcore + docker build-kit/X #1350)
- Maintenance/upgrade trafaret 2 (Maintenance/upgrade trafaret 2 #1409)
- Bump ujson from 2.0.2 to 2.0.3 in /packages/service-library (Bump ujson from 2.0.2 to 2.0.3 in /packages/service-library #1403)
- webserver's healthcheck monitors and diagnoses slow callbacks as unhealthy (webserver's healthcheck monitors and diagnoses slow callbacks as unhealthy #1406)
- Fix e2e (Fix e2e #1407)
- Study Browser cleanup (Study Browser cleanup #1393)
- [maintenance] pytest-simcore package ([maintenance] pytest-simcore package #1394)
- Bump alembic from 1.4.1 to 1.4.2 in /packages/postgres-database (Bump alembic from 1.4.1 to 1.4.2 in /packages/postgres-database #1398)
- Is1268/public api gateway service (Is1268/public api gateway service #1298)
- Bump eslint from 4.19.1 to 6.8.0 + Bump babel-eslint from 8.2.6 to 10.1.0 (Bump eslint from 4.19.1 to 6.8.0 + Bump babel-eslint from 8.2.6 to 10.1.0 #1381)
- [maintenance] test requirements ([maintenance] test requirements #1386)
- Configure host in different environs ([bugfix] webserver cannot reach catalog in master deploy #1389)
- Export group (Export group #1266)
- Bump alembic from 1.0.8 to 1.4.1 in /packages/postgres-database (Bump alembic from 1.0.8 to 1.4.1 in /packages/postgres-database #1385)
- Bump click from 7.0 to 7.1.1 in /packages/postgres-database (Bump click from 7.0 to 7.1.1 in /packages/postgres-database #1384)
- Bump docker from 4.0.2 to 4.2.0 in /packages/postgres-database (Bump docker from 4.0.2 to 4.2.0 in /packages/postgres-database #1383)
- Bump tenacity from 6.0.0 to 6.1.0 in /packages/postgres-database (Bump tenacity from 6.0.0 to 6.1.0 in /packages/postgres-database #1382)
- Bump yarl from 1.3.0 to 1.4.2 in /packages/postgres-database (Bump yarl from 1.3.0 to 1.4.2 in /packages/postgres-database #1371)
- Bump ujson from 2.0.1 to 2.0.2 in /packages/service-library (Bump ujson from 2.0.1 to 2.0.2 in /packages/service-library #1374)
- Bump faker from 4.0.1 to 4.0.2 in /packages/postgres-database (Bump faker from 4.0.1 to 4.0.2 in /packages/postgres-database #1372)
- Bump certifi from 2019.6.16 to 2019.11.28 in /packages/postgres-database (Bump certifi from 2019.6.16 to 2019.11.28 in /packages/postgres-database #1370)
- Bump coverage from 4.5.1 to 5.0.3 in /packages/postgres-database (Bump coverage from 4.5.1 to 5.0.3 in /packages/postgres-database #1369)
- [maintenance] upgrade urllib3 and psutil ([maintenance] upgrade urllib3 and psutil #1366)
- catch exception on socketio connection (catch exception on socketio connection #1365)
- Studies of one node open directly in fullscreen view instead displaying the pipeline (Studies of one node open directly in fullscreen view instead displaying the pipeline #1316)
- [BUGFIX] Hints + (Tags + Creation info) ([BUGFIX] Hints + (Tags + Creation info) #1358)
- [enhancement] Check task exists in db and requirements upgrade ([enhancement] Check task exists in db and requirements upgrade #1361)
- [bugfix] check gather return exceptions (Bugfix/check gather return exceptions #1360)
- fixes script to migrate comp_tasks table (fixes script to migrate comp_tasks table #1357)
- Bump ujson from 1.35 to 2.0.1 in /packages/service-library ([maintenance] Bump ujson from 1.35 to 2.0.1 in /packages/service-library #1352)
- [maintenance] missing sync openapi, upgrades pip ([maintenance] missing sync openapi, upgrades pip #1354)
- [maintenance] black-formatted packages/services and new common.Makefile ([maintenance] black-formatted packages/services and new common.Makefile #1342)
- [bugfix] ujson missing dependency in director service ([bugfix] ujson missing dependency in director service #1353)
- only travis can create releases (Bugfix: Travis is still the one releasing to production #1351)
- add integration-version (add integration-version in node schema #1345)
- prevent crash when no user id is found?? ([bugfix] prevent crash when no user id is found #1349)
- e2e: Check number of output files (e2e: Check number of output files #1343)
- fix path to subscripts
- Fix invalid path
- maintenance: refactor CI scripts and simplify github CI workflows (maintenance: refactor CI scripts and simplify github CI workflows #1337)
- Bump pytest from 5.3.2 to 5.3.5 in /packages/service-library (Bump pytest from 5.3.2 to 5.3.5 in /packages/service-library #1335)
- Bump trafaret from 2.0.0 to 2.0.2 in /packages/service-library (Bump trafaret from 2.0.0 to 2.0.2 in /packages/service-library #1334)
- Bump coverage from 4.5.1 to 5.0.3 in /packages/service-library (Bump coverage from 4.5.1 to 5.0.3 in /packages/service-library #1333)
- Bump coveralls from 1.10.0 to 1.11.1 in /packages/service-library (Bump coveralls from 1.10.0 to 1.11.1 in /packages/service-library #1332)
- Bump jsonschema from 3.0.1 to 3.2.0 in /packages/service-library (Bump jsonschema from 3.0.1 to 3.2.0 in /packages/service-library #1331)
- Bump werkzeug from 0.15.4 to 1.0.0 in /packages/service-library (Bump werkzeug from 0.15.4 to 1.0.0 in /packages/service-library #1328)
- Bump attrs from 19.1.0 to 19.3.0 in /packages/service-library (Bump attrs from 19.1.0 to 19.3.0 in /packages/service-library #1330)
- increasing logging in sidecar (increasing logging in sidecar #1323)
- maintenance: updates vulnerable requirements and minor doc (maintenance: updates vulnerable requirements and minor doc #1320)
- Bump pytest-docker from 0.6.1 to 0.7.2 in /packages/service-library (Bump pytest-docker from 0.6.1 to 0.7.2 in /packages/service-library #1327)
- Bump tenacity from 6.0.0 to 6.1.0 in /packages/service-library (Bump tenacity from 6.0.0 to 6.1.0 in /packages/service-library #1329)
Bumps [tenacity](https://github.com/jd/tenacity) from 6.0.0 to 6.1.0. - [Release notes](https://github.com/jd/tenacity/releases) - [Commits](jd/tenacity@6.0.0...6.1.0) Signed-off-by: dependabot-preview[bot] <[email protected]>
…1327) Bumps [pytest-docker](https://github.com/avast/pytest-docker) from 0.6.1 to 0.7.2. - [Release notes](https://github.com/avast/pytest-docker/releases) - [Changelog](https://github.com/avast/pytest-docker/blob/master/CHANGELOG.md) - [Commits](avast/pytest-docker@v0.6.1...v0.7.2) Signed-off-by: dependabot-preview[bot] <[email protected]>
* Upgrades reqs due to vulnerability issue with pyaml * Updated main doc and removed unresponsive badges
* script to remove duplicate project_id/node_id from comp_tasks table * add start/stop time of sidecar computations * added watchmedo in sidecar for faster development * fixes #455 * log formatting give name of file and lineno * increase log verbosity
Bumps [attrs](https://github.com/python-attrs/attrs) from 19.1.0 to 19.3.0. - [Release notes](https://github.com/python-attrs/attrs/releases) - [Changelog](https://github.com/python-attrs/attrs/blob/master/CHANGELOG.rst) - [Commits](python-attrs/attrs@19.1.0...19.3.0) Signed-off-by: dependabot-preview[bot] <[email protected]> Co-authored-by: Pedro Crespo <[email protected]>
Bumps [werkzeug](https://github.com/pallets/werkzeug) from 0.15.4 to 1.0.0. - [Release notes](https://github.com/pallets/werkzeug/releases) - [Changelog](https://github.com/pallets/werkzeug/blob/master/CHANGES.rst) - [Commits](pallets/werkzeug@0.15.4...1.0.0) Signed-off-by: dependabot-preview[bot] <[email protected]> Co-authored-by: Pedro Crespo <[email protected]>
Bumps [jsonschema](https://github.com/Julian/jsonschema) from 3.0.1 to 3.2.0. - [Release notes](https://github.com/Julian/jsonschema/releases) - [Changelog](https://github.com/Julian/jsonschema/blob/master/CHANGELOG.rst) - [Commits](python-jsonschema/jsonschema@v3.0.1...v3.2.0) Signed-off-by: dependabot-preview[bot] <[email protected]>
) Bumps [coveralls](https://github.com/coveralls-clients/coveralls-python) from 1.10.0 to 1.11.1. - [Release notes](https://github.com/coveralls-clients/coveralls-python/releases) - [Changelog](https://github.com/coveralls-clients/coveralls-python/blob/master/CHANGELOG.md) - [Commits](TheKevJames/coveralls-python@1.10.0...1.11.1) Signed-off-by: dependabot-preview[bot] <[email protected]>
Bumps [coverage](https://github.com/nedbat/coveragepy) from 4.5.1 to 5.0.3. - [Release notes](https://github.com/nedbat/coveragepy/releases) - [Changelog](https://github.com/nedbat/coveragepy/blob/master/CHANGES.rst) - [Commits](nedbat/coveragepy@coverage-4.5.1...coverage-5.0.3) Signed-off-by: dependabot-preview[bot] <[email protected]>
Bumps [trafaret](https://github.com/Deepwalker/trafaret) from 2.0.0 to 2.0.2. - [Release notes](https://github.com/Deepwalker/trafaret/releases) - [Changelog](https://github.com/Deepwalker/trafaret/blob/master/docs/changelog.rst) - [Commits](https://github.com/Deepwalker/trafaret/commits/v2.0.2) Signed-off-by: dependabot-preview[bot] <[email protected]> Co-authored-by: Pedro Crespo <[email protected]>
Bumps [pytest](https://github.com/pytest-dev/pytest) from 5.3.2 to 5.3.5. - [Release notes](https://github.com/pytest-dev/pytest/releases) - [Changelog](https://github.com/pytest-dev/pytest/blob/master/CHANGELOG.rst) - [Commits](pytest-dev/pytest@5.3.2...5.3.5) Signed-off-by: dependabot-preview[bot] <[email protected]>
* check number of files in output
* fixes ujson missing dependency * adds target to access shell * Fixes ujson missing dependency * Adds shell access for manual testing * Adds minimal testing to avoid ujson to fail again * Moved docker test to system * Refactor test_service_images Uses osparc_deploy fixture * Refined test_ujson_installation
…le (#1342) - Black-formatted ALL python: - added auto-formatter in project makefiles - formatted every relevant python package or service - scripts/common.Makefile collects common recipes: see how services and packages Makefiles are now simplified - Fixed noisy pprint in the logs - Added extensions to bash scripts
* Synced missing schema updates * Updates apk management Adds apk update in all dockers and basic client libs * upgrades pip to ~=20.0.0
Bumps [ujson](https://github.com/ultrajson/ultrajson) from 1.35 to 2.0.1. - [Release notes](https://github.com/ultrajson/ultrajson/releases) - [Commits](ultrajson/ultrajson@v1.35...2.0.1) Signed-off-by: dependabot-preview[bot] <[email protected]> Co-authored-by: dependabot-preview[bot] <27856297+dependabot-preview[bot]@users.noreply.github.com>
- check returned exceptions from asyncio.gather - check future exceptions using a callback fct on futures to check if an exception occured and report it
* Tests how to count with aiopg * Pre-check before write task in comp_tasks table Previous logic would fill the postgres service log with errors. This solution is more quite Created subfunctions to separate logic * Updated tests requirements in services * Updated tests requirements for packages * Updates test reqs for other tests folders * Maintenance: Removed unused code * Tunes log levels * Improves migration CLI
* Reduced to only two background color for NodeUI * Removed NodeUI tri-state. * Buttons in ControlsBar are stacked to the right * Showing Tags and creator information at the same time * Fixed bug with hints not showing when used inside a window (zindex problem)
…ng the pipeline (#1316) * Studies of one node open directly in that node * autoOpenNode added to preferences
* catch exception on sockteio connection
Upgrades due to vulnerabilities; * urllib3 * psutil CVE-2019-18874
Bumps [coverage](https://github.com/nedbat/coveragepy) from 4.5.1 to 5.0.3. - [Release notes](https://github.com/nedbat/coveragepy/releases) - [Changelog](https://github.com/nedbat/coveragepy/blob/master/CHANGES.rst) - [Commits](nedbat/coveragepy@coverage-4.5.1...coverage-5.0.3) Signed-off-by: dependabot-preview[bot] <[email protected]> Co-authored-by: dependabot-preview[bot] <27856297+dependabot-preview[bot]@users.noreply.github.com>
* Auto JSONSchema forms * Updated api specs Co-authored-by: Katie Zhuang <[email protected]> Co-authored-by: odeimaiz <[email protected]> Co-authored-by: Pedro Crespo <[email protected]>
* avoids GC removing projects when not guest * added tests to catch any future issues * [ci skip] fixed comments * fixed docker file correctly colone and build * added postress upgrade logs after the task is over helps debugging the upgrade * ops, how did these got here, reverting * fixed intendation Co-authored-by: Andrei Neagu <[email protected]> Co-authored-by: Odei Maiz <[email protected]>
* avoids GC removing projects when not guest * added tests to catch any future issues * [ci skip] fixed comments * refactored test - applied black reformatting - merged 2 tests Co-authored-by: Andrei Neagu <[email protected]> Co-authored-by: Odei Maiz <[email protected]>
* added base CONTRIBUTING.md guidelines as a template * new branch created * added checksum check to docker-compose download - if download fails (eg: github is not 100% up) this will avoid unexpected problems down the line * added project specific notes to the CONTRIBUTING.md guidelines * added other requested dependencies * added reference to contributing page * updated readme * added PR review suggestions to CONTRIBUTING.md * renaming * added more beginner friendly FAQs * linking code conventions as FAQ * added squash instructions * added references to coding sytles and linters * added docs on protection against upstream pushing * linked no upstream push + tech specs & tech eval * unused, removed * linked comp. services overview and fixed a link * added some videos to the FAQs * added tip to apply migrations Co-authored-by: Andrei Neagu <[email protected]>
* Adds target upgread in batch upgrades * Upgrades pytest in all packages * Upgrades pytest in catalog service * upgrades pytest in director * Upgrades pytest in sidecar * upgrades pytest in storage * Upgrades pytest in web-server * Upgraded pytest in system tests
* Alignments * Study Sheet redesigned * Create New Study -> Empty Study * use File related icons in study sheets * Build layout qooxdoo style * arrow added to Dashboard button
upgrade to latest Fake and redis packages (replaces faulty PR #1501) both in packages and services/web/server upgrades api/tests requirements and Makefile upgrades missing requirements from non-packages/services folders (e.g. coverage, pytest)
* pylint will now output the error + where to look * keep alive will now be correctly set avoids creating corrupted keys * adjusted a couple of missing splits * refactored pylint assert test (maybe) * added missing requirement for testing and dev * removing 1 level of search depth * installing in editable mode * added missing dependency to catalog * added depoendencies for service-library * fixing paths * added storage service missing requirements * fixed naming, it is now clearer * triggering a new build * enhanced output Co-authored-by: Andrei Neagu <[email protected]> Co-authored-by: Odei Maiz <[email protected]>
* Brought back the hover functions on the Study sheets * sidePanel on the left * Fix dashboard button issue * Caret on the left side * hide Stop button * Logger collapsed by default (not for testers)
Fixes issue with cc human tutorial Results were not updated * Changed web-api doc to /webapi/doc - avoids /api/ which already routed by traffik * updates node outputs in project This entry is NOT replaced but updated at the level of "output-name". The data of a give output is obviously replaced. * Minor formatting * Cleaning up test_sidecar * Fixes upload-files with nodeports: nodeports is not concurrent-safe, cannot use asyncio.gather to update each output ports, i.e await output.set * For development, sets a single sidecar to debug
* setting instrumentation for cs services through sidecar, rabbit, webserver * setting instrumentation for dynamic services through director /metrics endpoint
- All new services spawned by the director have a new tag called SWARM_STACK_NAME which represents the deployment. This way containers can be removed safely between environments. Note: old services must manually be removed on all environments as discussed with @sanderegg - A container is considered orphaned when its node_id is not present in the database - A container is considered orphaned when its node_id is not present in the current open projects - Garbage collector is restarted after upon error except asyncio.CancelledError when it will be closed NOTE: forced merge since travis did a strange dual PR build where both are green but prevent merging as usual.
- Minor or Patch upgrades for libraries within python packages or system/api testing requirements: - sqlalchemy patch 1.3.17 - multidict - packaging and more-itertools (for testing via pytest) - Enhance scripts/requirements/Makefile to automate this job - Prepares for pylint upgrade: cleanup of ignore rules in tests - Autoformat cleanup - Removes old deprectaed code web/server/tests/sandbox
* Only testers can create templates * Save also tags when creating templates * Hide description from template card * get rid of compiling warnings * hook to make markdown links open a new tab * hook to make markdown links have proper color
* Fix for is1499 * fix e2e (#9) * Added README to e2e testing * Solved bug with rotating Idle icon * Disabled no-eq-null rule to be able to check for null or undefined * Added e2e debug config to vscode templates. Moved gitignores to new file * Allowed new gitignores * Continue button in feedback dialog now closes the window Co-authored-by: Odei Maiz <[email protected]>
* Bound node's Interactive Status + Label in loading page * Fixed PointEventPosition * Keep aspect ratio * Well centered Thumbnail class created * StudyBrowserButtonBase uses our Thumbnail
will trigger gc in next 2 cycles at most Co-authored-by: Andrei Neagu <[email protected]> Co-authored-by: Odei Maiz <[email protected]>
Codecov Report
@@ Coverage Diff @@
## staging #1529 +/- ##
========================================
Coverage 70.92% 70.92%
========================================
Files 249 249
Lines 10101 10101
Branches 1114 1114
========================================
Hits 7164 7164
Misses 2616 2616
Partials 321 321
Continue to review full report at Codecov.
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pcrespov
approved these changes
May 26, 2020
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