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287 commits

Author SHA1 Message Date
Urban Rotnik 462fb12a41 Update SQL query 2020-09-17 13:30:27 +02:00
Urban Rotnik 777afd0e9b Add improved search for smart annotations 2020-09-17 13:19:52 +02:00
aignatov-bio 008563a7f4 Update user smart annotation 2020-09-11 13:00:13 +02:00
aignatov-bio 7a86bb47c5 Add styling and highligh 2020-09-09 14:17:19 +02:00
aignatov-bio f4a13a73cb Refactor smart annotation front-end 2020-09-09 12:25:34 +02:00
Urban Rotnik a259800590 Merge branch 'develop' into jg_sci_2228 2020-08-31 16:29:23 +02:00
aignatov-bio 21e4dcd96a Add wopi preview for office files 2020-08-25 13:22:36 +02:00
Oleksii Kriuchykhin 60017661c1 Fix import of the old format TinyMCE images [SCI-4767] 2020-07-27 16:39:39 +02:00
Oleksii Kriuchykhin dc481cf236 Add API endpoints for checklists, checklist items, tables, API code improvements [SCI-4776] 2020-07-03 16:48:29 +02:00
Oleksii Kriuchykhin 7ea577d8d4 Merge branch 'features/inventory-archiving' into develop 2020-06-24 14:04:54 +02:00
Urban Rotnik 83bd8c3ad4 Add default scope for non archived repositories 2020-06-16 09:18:22 +02:00
Urban Rotnik 446a2db186 Export and import checklist items with delimiter 2020-06-01 17:19:33 +02:00
Urban Rotnik 32df6f2568 Skip cell import if value is nil 2020-05-20 09:56:08 +02:00
Urban Rotnik 2283491629 Conver to string if not importing into Number column 2020-05-20 09:09:14 +02:00
Urban Rotnik a2ade6e0ec Merge branch 'develop' into features/new-task-layout 2020-05-15 14:27:56 +02:00
Urban Rotnik a96d19d5ea Add table name attribute to export schema 2020-05-11 11:25:41 +02:00
Oleksii Kriuchykhin 837437309e Fix failing tests [SCI-4516] 2020-04-09 17:11:58 +02:00
Mojca Lorber 8dac5effbe Another fix 2020-03-13 14:57:26 +01:00
Mojca Lorber c716a52aae Fix bug with date format when importing to inventory 2020-03-12 12:19:25 +01:00
aignatov-bio 4af992ef35 Fix date import for repository 2020-03-05 14:34:31 +01:00
Oleksii Kriuchykhin 63e557ea9e Add global repositories limit [SCI-4383] 2020-02-21 14:40:17 +01:00
Oleksii Kriuchykhin 3310d79c4c Fix failing tests [SCI-4336] 2020-02-11 16:12:53 +01:00
Oleksii Kriuchykhin 0fec8f4d95 Improve speed of inventory import [SCI-4336] 2020-02-11 13:51:34 +01:00
Oleksii Kriuchykhin b0c785f4fb Extend inventory import to support new data types [SCI-4220] 2020-02-03 15:20:01 +01:00
aignatov-bio f9497e2e3e Fix TinyMCE import from ELN 2019-10-07 16:21:11 +02:00
Oleksii Kriuchykhin 3509543e7b Merge branch 'master' into ok_SCI_3881 2019-09-16 11:56:49 +02:00
Oleksii Kriuchykhin c068901b00 Upgrade Rails to 6.0 [SCI-3745] 2019-09-12 17:24:08 +02:00
Oleksii Kriuchykhin 6f7ef25514 Add local sorting for ProtocolsIO [SCI-3827] 2019-09-05 14:49:16 +02:00
aignatov-bio 6fda5401f5
Fix protocol import (#1981) 2019-08-14 09:06:25 +02:00
Oleksii Kriuchykhin 973efa55e1 Merge branch 'master' into ok_SCI_3678 2019-08-08 11:17:07 +02:00
Anton Ignatov e2e876b2a3 Merge branch 'activestorage_migration' into ai-sci-3728-fix-active-storage-tests 2019-08-05 13:51:04 +02:00
Anton Ignatov 84fe10df47 Fix tests for models and tema import/export 2019-07-26 12:40:36 +02:00
Luka Murn 12dd9c9b5c Update the first time data generator to ignore sample names. 2019-07-26 10:13:14 +02:00
Luka Murn 83bb89fdf5 Cherry-picked commit from ZZ (and LM)'s various changes 2019-07-26 10:13:14 +02:00
Anton Ignatov 3b7f715e0b Merge branch 'activestorage_migration' into features/marvinjs-integration 2019-07-22 13:09:17 +02:00
aignatov-bio 4fe0227d8c
Add metadata for .eln assets (#1942) 2019-07-19 10:53:33 +02:00
Urban Rotnik 795c355f01
Merge pull request #1915 from urbanrotnik/ur-sci-3531-tests-for-step-components 
Add tests for StepComponents [SCI-3531]
 2019-07-15 13:25:36 +02:00
Jure Grabnar 015dae1a05 Fix old tests 2019-07-15 08:27:34 +02:00
Jure Grabnar a372d4056d Add last_published protocols.io endpoint 2019-07-14 19:24:53 +02:00
Urban Rotnik 5cf100a787 Show 'published_on' instead of 'created_on' on external_protocols list 2019-07-12 16:56:07 +02:00
Anton Ignatov 7831b0a089 Merge branch 'activestorage_migration' into features/marvinjs-integration 2019-07-12 15:00:07 +02:00
Anton Ignatov 57a273d5d0 Merge branch 'activestorage_migration' into features/marvinjs-integration 2019-07-12 11:34:41 +02:00
Oleksii Kriuchykhin 64b7a5646a Implement custom document file previewer [SCI-3677] 2019-07-10 14:37:23 +02:00
Urban Rotnik b9bec32316 Add tests for StepComponents 2019-07-10 12:48:08 +02:00
Urban Rotnik cc3cd43270 Log to console when error occur on ProtocolsImport actions 2019-07-09 15:32:43 +02:00
Urban Rotnik 10639deb97 Strip tags for table's content 2019-07-09 13:41:52 +02:00
Urban Rotnik be77746aef Fix description styling of components 2019-07-09 13:41:51 +02:00
Urban Rotnik 8411e92fa2 Add linebreak for 'There was a table' message 2019-07-09 10:54:48 +02:00
Oleksii Kriuchykhin a1941a21dc Futher refactoring of old Paperclip methods [SCI-3539] 2019-07-09 10:28:15 +02:00
Jure Grabnar 05f2210002
SCI-3650, SCI-3655 Fix empty file name, empty description when… (#1892) 
SCI-3650, SCI-3655 Fix empty file name, empty description when parsing tables
 2019-07-09 10:24:03 +02:00
Jure Grabnar dc7fee51fa Add Show more protocols functionality to external protocols 
Closes SCI-3646
 2019-07-04 15:35:18 +02:00
Jure Grabnar 721bb9ab77
SCI-3649 All reagent data from step are not imported (#1881) 
SCI-3649 All reagent data from step are not imported
 2019-07-03 16:54:25 +02:00
Jure Grabnar 6944045bfb Check for empty description before passing to Nokogiri 
Closes SCI-3655
 2019-07-03 16:36:26 +02:00
Jure Grabnar 8866d98512 Fix empty file name on protocols.io 
Closes SCI-3650
 2019-07-03 16:11:51 +02:00
Jure Grabnar 4715e8ec4b Fix building of zero steps protocls 
Close SCI-3648
 2019-07-03 09:34:15 +02:00
Miha Mencin 611c417b43 code review changes 2019-07-03 09:21:41 +02:00
Miha Mencin ab038ffdf7 SCI-3649 adding catalog number, fixing up the design a bit 2019-07-02 19:47:05 +02:00
Jure Grabnar ebbb36cc6d Remove border from the import button 2019-06-28 11:32:47 +02:00
Jure Grabnar 8146a6a42c Assign name = position if protocolsIO step has no name 2019-06-28 11:29:03 +02:00
Jure Grabnar c10428cd2a Fix sorting buttons not applying params 2019-06-28 08:55:27 +02:00
Jure Grabnar 9be4fc2470 Fix tests 2019-06-28 02:19:06 +02:00
Jure Grabnar 0a77cedaf8 Fix sorting of external protocols and start showing results 2019-06-27 22:48:56 +02:00
Urban Rotnik 9cb4454537 New implementation for attachments creation 2019-06-27 17:02:06 +02:00
Jure Grabnar 82fb8ebd2e
Implement protocols.io error handling (#1869) 
Implement protocols.io error handling
 2019-06-27 16:35:55 +02:00
Jure Grabnar 06b8d1fda7 Update ApiClient tests 
Closes SCI-3434
 2019-06-27 14:54:19 +02:00
Jure Grabnar 8a7a2eb097 Add StandardError checking for ProtocolNormalizer 2019-06-27 10:12:00 +02:00
Jure Grabnar 86bc69e510 Simplify V3 errors structure 2019-06-27 09:42:21 +02:00
Mojca Lorber 9fd83d54a0 Put network error handeling into api and refactor errors 2019-06-26 14:04:03 +02:00
Urban Rotnik bf6041e13d Update sanitization of html descriptions 2019-06-19 11:05:22 +02:00
Urban Rotnik 7e69375016 Drop header column and row when extract tables 2019-06-19 10:47:38 +02:00
Urban Rotnik 2a579f2240 Add Warnings, Before start and Guidelinese to protocol description 2019-06-19 09:02:42 +02:00
Mojca Lorber ebcaa4b014 Implement protocols.io error handling for api client and normalizer 2019-06-18 14:01:57 +02:00
Urban Rotnik 7fad5fc594 Add search service and normalizer for list 2019-06-17 12:24:15 +02:00
Jure Grabnar 362b0cd45d Hound fixes 2019-06-17 12:24:11 +02:00
Jure Grabnar 640f6c1211 Fix tests after BuildProtocolFromClientService refactor 
Closes SCI-3544
 2019-06-17 12:24:11 +02:00
Jure Grabnar 1e8627c450 Refactor ImportProtocol service to BuildProtocolService 
Closes SCI-3544
 2019-06-17 12:24:10 +02:00
Urban Rotnik 2bb4f558b7 View rendering simplified, small improvements 2019-06-17 12:24:09 +02:00
Urban Rotnik 807104035c Add StepBuilder, TableBuilder, AssetBuilder for PIO, normalized updated 2019-06-17 12:24:09 +02:00
Urban Rotnik 6a4deb0201 Add ProtocolIntermediateObject 2019-06-17 12:24:09 +02:00
Urban Rotnik aadf2eecb4 Basic data normalizer for ProtocolIO 2019-06-17 12:24:08 +02:00
Urban Rotnik ec49388283 Add protocol base normalizer class 2019-06-17 12:24:08 +02:00
Jure Grabnar c1cee07a63 Extract API client constants to constants.rb 2019-06-17 12:24:08 +02:00
Jure Grabnar a15b1f6dfa Add logging for ApiClient and fix hound formatting 2019-06-17 12:24:08 +02:00
Jure Grabnar 5685709f48 Implement API client for protocols.io 
Closes SCI-3357
 2019-06-17 12:24:07 +02:00
aignatov-bio 68937dd192
Fix RTE import for protocol repository (#1833) 2019-06-14 16:20:27 +02:00
Oleksii Kriuchykhin 8920d38a02 Make repositories more extendable [SCI-3528] 2019-06-06 17:28:59 +02:00
Oleksii Kriuchykhin 6917ea56e8 Fix import of ELN protocols [SCI-3506] 2019-05-29 15:41:54 +02:00
aignatov-bio 3633274c8f
Fix import for eln (#1741) 2019-05-13 10:22:30 +02:00
Anton Ignatov 7c55fcf0cf Merge branch 'master' into master-with-note-section 2019-04-30 12:07:59 +02:00
Jure Grabnar b37349624a
Merge pull request #1714 from biosistemika/jg_sci_3380 
Add editnew action for editing new office files [SCI-3380]
 2019-04-30 09:57:07 +02:00
Jure Grabnar ed003aca13 Add editnew action for editing new office files 
Closes SCI-3380
 2019-04-30 08:19:52 +02:00
Anton Ignatov 7d60eb5572 Fix migration issues 2019-04-23 11:11:22 +02:00
Anton Ignatov aa2dab2014 Merge branch 'features/note-section' into master-with-note-section 2019-04-23 10:31:37 +02:00
aignatov-bio 6b45dcd475
Update eln export for new tinyMCE image format (#1680) 2019-04-19 14:44:40 +02:00
Mojca Lorber b00cf07684 Add activity for importing inventory items 2019-04-18 15:18:10 +02:00
Oleksii Kriuchykhin f9832013b0 Improve experiment preview image generation [SCI-3177] 2019-04-17 12:06:46 +02:00
Oleksii Kriuchykhin e7151e6e6b Disable inventory import activity logging [SCI-3290] 2019-04-03 22:42:33 +02:00
Alex Kriuchykhin d8ce4d4a91
Merge pull request #1640 from okriuchykhin/ok_SCI_3281_v2 
Fix activity creation for editing wopi file in protocol repository [SCI-3281]
 2019-04-03 21:14:36 +02:00
Oleksii Kriuchykhin 14978f7c1f Fix activity creation for editing wopi file in protocol repository [SCI-3281] 2019-04-03 19:51:54 +02:00
Jure Grabnar f00f4d39af Refactor step activities using position_plus_one 
Closes SCI-3273
 2019-04-03 13:10:45 +02:00