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Workflows GUI #3078

Merged
merged 10 commits into from
Mar 10, 2021
Merged

Workflows GUI #3078

merged 10 commits into from
Mar 10, 2021

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antgonza
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This is the initial changes to allow (use?) the DefaultWorkflows in Qiita. To start the easiest is to reuse and create a GUI to visualize the current DefaultWorkflows. A few changes here:

  • We don't need to have command_id in DefaultWorkflowNode because we can get the command from the DefaultParameters
  • Adding an active flag to default_workflow
  • During the development of the GUI, I realized that we are missing 2 map files (so the GUI wasn't working as expected)

The new GUI looks like this:
workflows

@antgonza antgonza requested a review from ElDeveloper February 24, 2021 00:00
@antgonza
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antgonza commented Mar 3, 2021

This new version looks like this:
Screen Shot 2021-02-24 at 8 50 44 AM

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Looks great, just a few small suggestions!

qiita_db/software.py Outdated Show resolved Hide resolved
qiita_db/support_files/patches/81.sql Outdated Show resolved Hide resolved
qiita_pet/templates/workflows.html Outdated Show resolved Hide resolved
}
};

var colorScheme = {
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Without a closure this variable is essentially global. Might be worthwhile moving this to the JS block starting in Line 70 and enclosing everything in a closure like:

(function(){

})();

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I think this is fine for the full page.

qiita_pet/handlers/software.py Outdated Show resolved Hide resolved
@antgonza antgonza mentioned this pull request Mar 9, 2021
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Thanks @antgonza

@ElDeveloper ElDeveloper merged commit 9cb8b64 into qiita-spots:dev Mar 10, 2021
antgonza added a commit that referenced this pull request Mar 19, 2021
* adding creation and modification timestamps to prep_templates (#3066)

* adding creation and modification timestamps to prep_templates

* Apply suggestions from code review [skip ci]

Co-authored-by: Yoshiki Vázquez Baeza <[email protected]>

Co-authored-by: Yoshiki Vázquez Baeza <[email protected]>

* fix #3068 (#3069)

* minor improvements (#3067)

* minor improvements

* fix test

* adding @wasade suggestion

* minor fixes (#3073)

* fix #3072 (#3074)

* fix #3072

* flake8

* fix #3076 (#3077)

* fix #3076

* addressing @ElDeveloper comments

* fix #3070 (#3075)

* fix #3070

* Apply suggestions from code review

Co-authored-by: Yoshiki Vázquez Baeza <[email protected]>

* flake8

Co-authored-by: Yoshiki Vázquez Baeza <[email protected]>

* fix-3064 (#3080)

* Create qiita-ci.yml

* add passwd to psql

* nginx + redis

* redis via conda

* redis-server - -> redis-server --

* daemonize -> daemonize

* conda libevent

* apt-get libevent-dev

* adding multiple sections

* rm travis_retry

* add missing activagte

* onfig_test.cfg

* rm indent

* add 1 indent

* pgport

* add drop

* change db name

* redis version

* redis -> redbiom version

* split tests

* source .profile

* adding ssh command

* mkdir ~/.ssh/

* only ssh

* pushing to retrigger

* add run

* split ssh conf/run

* 60367309

* add bash

* fix ident

* rm ssh cmd

* strict=no

* localhost

* mod permissions

* user ssh

* rm keys

* echos

* start ssh service

* ssh -vvv

* split setup/test

* localhost -> 127

* localhost -> 127

* rm ssh setup

* -o StrictHostKeyChecking=no

* change key creation

* echo sshd_config

* readd ssh config

* cp sshd_config and then move

* rm echos

* extra qiita folder

* ls test_data

* rm qiita folder

* use key in .ssh

* more ssh params

* tee -> >

* chmod

* fullpath

* ls key

* rm localhost

* params

* rsa -> rsa-sha2-256

* rm root login

* readd -o StrictHostKeyChecking=no

* minimizing params

* permissions

* cleaning up

* comments => echo

* -o StrictHostKeyChecking=no

* export REDBIOM_HOST=http://127.0.0.1:7379

* localhost -> 127.0.0.1

* add runner

* cover package

* cleaning env vars

* renaming jobs

* redbiom host

* add env vars via export

* changing echo

* add env COVER_PACKAGE

* rm user sftp

* just qiita_db

* open_sftp -> SFTPClient

* +1 worker

* only SCPClient

* ssh.SCPClient -> SCPClient

* return sftp/ssh back

* just qiita_db

* rm sftp

* add all tests

* BASE_URL = https://127.0.0.1:8383

* bash -c

* start_biom

* start_biom 127

* populate QIITA_SERVER_CERT

* nginx 127

* adding ports to conf

* lowering ports

* service qiita

* 8383 postgres

* curl test

* mkdir nginx

* moving tests around

* moving curl up

* echos for curl

* sleep 10

* 127.0.0.1 -> localhost

* returning some localhost to 127...

* qiita_pet!

* final clean up

* kill qiita first

* addreesing @ElDeveloper comments

* checkout repo for flake8

* split cover_package

* Workflows GUI (#3078)

* fix #3076

* addressing @ElDeveloper comments

* adding workflows GUI

* improve HTML

* db changes and improvements

* comment out new db changes

* rm default_workflows from PluginHandler.get

* Apply suggestions from code review [skip ci]

Co-authored-by: Yoshiki Vázquez Baeza <[email protected]>

Co-authored-by: Yoshiki Vázquez Baeza <[email protected]>

* fix #3081 (#3082)

* fix #3081

* generate_analysis_list_per_study to speed up retrival

* minor modifications

* split sql

* addressing @ElDeveloper comments

* add Command.processing_jobs (#3085)

* add Command.processing_jobs

* Update qiita_db/software.py [skip ci]

Co-authored-by: Yoshiki Vázquez Baeza <[email protected]>

Co-authored-by: Yoshiki Vázquez Baeza <[email protected]>

* Improve workflows (#3083)

* fix #3076

* addressing @ElDeveloper comments

* adding workflows GUI

* improve HTML

* db changes and improvements

* comment out new db changes

* rm default_workflows from PluginHandler.get

* improving workflows after deployment

* fix error

* clean up

* minor fixes

* improving html

* comments from @justinshaffer

* addressing @ElDeveloper comments

* 2021.03 (#3084)

* 2021.03

* add Command.processing_jobs to changelog

* codecov

* codecov required

* codecov token

Co-authored-by: Yoshiki Vázquez Baeza <[email protected]>
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2 participants