Release Notes - SEEK - Version 1.0.0

New Feature

[OPSK-261] - Allow Research Object exporting
[OPSK-283] - Improve registration workflow
[OPSK-301] - Add concept of a Programme Manager
[OPSK-305] - Allow project manager to define gatekeeper, pal, asset manager and other project managers
[OPSK-409] - User can create a Programme
[OPSK-410] - Programme Manager can create Projects
[OPSK-411] - Creating a programme needs to be certified by an administrator
[OPSK-413] - Ability to change the Programme adminstrator
[OPSK-414] - Change asset manager role.
[OPSK-415] - Change Project Manager to Project Adminstrator
[OPSK-418] - Programme Administrator can edit Programmes they administer
[OPSK-422] - Programmes enabled config on admin pages
[OPSK-426] - Give programme_administrator, project administrator rights over the included projects
[OPSK-427] - Set project admin, gatekeeper, asset manager, pal from project page
[OPSK-428] - Automated testing of javascript
[OPSK-462] - Ability to flag when somebody has left a project
[OPSK-488] - ORCiD should be mandatory
[OPSK-492] - Look at separating scheme from Seek::Config.site_base_host
[OPSK-529] - Create an upgrade rake task to fetch and store remote content_blobs where appropriate
[OPSK-534] - Support displaying presentations from slideshare
[OPSK-565] - Show git checksum (if available)

Task

[OPSK-294] - background job for fetching feeds
[OPSK-302] - Performance baseline for version 0.22
[OPSK-303] - Performance metrics for 0.23
[OPSK-304] - Scalability testing of authorization table generation
[OPSK-357] - Imprint for other sites
[OPSK-362] - update drupal on seek4science and rightfield, sysmo-db
[OPSK-364] - look at cytoscape.js fix for multiple lines label
[OPSK-378] - Remove explicit OpenID support
[OPSK-394] - upgrade script: add waiting time btw solr start and workers start
[OPSK-406] - update sysmo-db drupal
[OPSK-420] - Control which programmes a project can be linked to
[OPSK-433] - investigation why cpu usage on old and new server is very low
[OPSK-434] - selenium test suite for fair-dom website
[OPSK-439] - Associate a project with a programme from the project create and administer page
[OPSK-440] - Don't add admin as default programme administrator
[OPSK-485] - Allow project members to edit their project
[OPSK-509] - Write up SynBioChem Sample scenarios
[OPSK-517] - contact of hub gives BioVeL information
[OPSK-520] - Hide and disable current biosamples
[OPSK-531] - Associate url with SEEK developer github pages
[OPSK-536] - Check Orcid ID non-optionality
[OPSK-540] - Check the Organize / folders of a project
[OPSK-549] - testing before V 1.0 release
[OPSK-556] - selenium test for association box
[OPSK-569] - Rename Asset Manager to Asset Housekeeper
[OPSK-570] - Rename Gatekeeper to Asset Gatekeeper
[OPSK-589] - Hide the person administration page
[OPSK-590] - Check FAIRDOMHub funding dates
[OPSK-591] - During upgrade some people gain the administrator role when they shouldn't

Sub-task

[OPSK-148] - Bootstrap autocompleters
[OPSK-202] - Restyle admin forms
[OPSK-298] - Allow a project manager to add a new organsim and assign to their project
[OPSK-369] - Rule for editing and deleting an organism
[OPSK-385] - update registration page to include email field
[OPSK-386] - Is this you? page
[OPSK-387] - update new profile page to populate email
[OPSK-388] - handle duplicate email
[OPSK-389] - Update project selection for new profile
[OPSK-390] - Notify admin and project managers
[OPSK-398] - Tidy up people_controller #create and #new
[OPSK-447] - Text is tiny in ISA graph view
[OPSK-448] - Need to shut off Programme creation
[OPSK-449] - one click publishing of investigation
[OPSK-450] - Don't give option to generate DOI if disabled
[OPSK-451] - DOI generation and minimum asset age for investigation DOI's
[OPSK-453] - add checksum to RO snapshot
[OPSK-455] - Check the url for the RO metadata
[OPSK-456] - Email comparison should not be case sensitive during registration
[OPSK-464] - Prompt to publish investigation when trying to make a snapshot
[OPSK-502] - Creating a sample from an existing specimen doesn't work in Firefox

Bug

[OPSK-76] - breadcrumbs on a workflow does not appear correctly
[OPSK-290] - Help refers to SysMO
[OPSK-320] - Request Timeout when simulating a big model
[OPSK-393] - escape character does not work for isa graph after adding multi lines
[OPSK-408] - soffice is not started when reboot the server
[OPSK-419] - Programme administrator needs icon
[OPSK-423] - Project Manager should be able to create a profile
[OPSK-425] - New Profile ends up with blank ORCID url
[OPSK-435] - preliminary selenium test suite for fairdomhub
[OPSK-438] - Zenodo doesn't accept licenses from controlled vocabulary
[OPSK-442] - Project administrator can edit profiles?
[OPSK-443] - When removing people from a project, they remain with the admin roles
[OPSK-452] - Error about crossref email when changing config
[OPSK-454] - Events association, include from other projects, wrong way around
[OPSK-460] - Programmes appear in search results when turned off
[OPSK-467] - Institution form needs bootstrapping
[OPSK-468] - Upload avatar page needs bootstrapping
[OPSK-473] - seed the fresh database with list of annotation_attributes
[OPSK-476] - SEEK downloads remote content
[OPSK-477] - "Upload a copy?" checkbox doesn't do anything
[OPSK-480] - in the typeahead text field, as the character is typed in, there are only 8 last typed characters displayed
[OPSK-482] - Link to public dropbox file concidered invalid
[OPSK-486] - Check email, some say from the Sysmo-db team
[OPSK-487] - Error executing job for ReindexingJob
[OPSK-491] - the description field of datafile does not get saved when creating a datafile
[OPSK-493] - Remote URL needs to support FTP
[OPSK-494] - Missing template errors/error_404, application/error_404
[OPSK-496] - A NoMethodError occurred in specimens#new_object_based_on_existing_one
[OPSK-497] - Restyle "forgot password" form
[OPSK-505] - Clean up the roles code
[OPSK-507] - Investigate error emails from reindexing & rdf generation jobs on SEEK server
[OPSK-510] - Check new remote content code deals with unauthorized responses
[OPSK-514] - Restyle "administer person" form
[OPSK-516] - error when downloading a model, which partly file and partly link
[OPSK-519] - Error in authjob background task for asset-manager
[OPSK-521] - No longer possible to add people to multiple institutions in a project
[OPSK-522] - After updating, all programmes are marked as not active
[OPSK-524] - Formatting problem in signup email to administrators
[OPSK-526] - In upload form, URL gets mangled when testing
[OPSK-527] - Downloading of files > 100Mb get truncated
[OPSK-530] - wrong display on remote file size limit, 95.4MB instead of 100MB
[OPSK-532] - ISA Graph not showing correctly in FireFox
[OPSK-533] - remove "show related data" buton from model page
[OPSK-538] - Project administrator can edit institutions
[OPSK-542] - Preview permissions needs updating for asset manager
[OPSK-543] - XSS being invoked on assay creation page
[OPSK-544] - Events / Assay selection broken on test server
[OPSK-550] - when editing a programm avatar, get AssetNotPrecompiledError
[OPSK-551] - missing programme administrator icon
[OPSK-552] - the text on contributor list is not escaped
[OPSK-553] - autocomplete input field on attribution gets doubled when choosing one item from the list
[OPSK-555] - isa graph:the text on long title node is outside of the box
[OPSK-557] - Associating something from another project doesn't work
[OPSK-559] - Website links get downloaded
[OPSK-560] - Ensure legacy content blobs have a filename or URL
[OPSK-561] - Fix JERM templates referenced from help
[OPSK-563] - Programme adminstrator not correctly cleared when deleting a programme
[OPSK-568] - Validate programme website URL
[OPSK-575] - isa graph disappears on safari
[OPSK-580] - upgrade task to change jws online root url
[OPSK-592] - Size limit configuration stored as Strings
[OPSK-593] - Strange behaviour when registering slideshare URLs
[OPSK-598] - Problem moving somebody between institutions in one transaction
[OPSK-599] - Zenodo URL shows up on snapshot view when disabled
[OPSK-600] - Export to Zenodo option is available when disabled

Improvement

[OPSK-163] - replace the box info from the front page by some auto-playing images
[OPSK-231] - Fix confusion over roles
[OPSK-241] - Update installation documentation
[OPSK-267] - Implement user-defined organisms
[OPSK-326] - Update OTHER DISTRIBUTIONS for SciLinux
[OPSK-344] - Return to the related item when clicked the back button
[OPSK-359] - make file extensions searchable
[OPSK-417] - Add red star at projects association box, when creating an investigation
[OPSK-458] - 'Drop here' for favourites, should say 'Drop below'
[OPSK-489] - Make button/link feedback more prominent
[OPSK-506] - Tidy up project adminstration page for adding members
[OPSK-515] - Don't default to Afghanistan for the list of countries
[OPSK-523] - Distinguish between the 2 types of roles
[OPSK-535] - Reduce the list of organisms that can be assigned to things, to just those from the project
[OPSK-537] - Ensure source of failure is correctly shown
[OPSK-562] - List programme administrators on Programme page
[OPSK-566] - If no people are in a project, say so on the project roles page
[OPSK-567] - Allow external help
[OPSK-578] - Add funding text
[OPSK-582] - Allow programme administrator to create organisms
[OPSK-583] - Better control over default project administrator whilst create a project
[OPSK-585] - Tweak UI for adding an organism to a project
[OPSK-586] - Allow programme administrator to remove themself from project
[OPSK-587] - Tweak box_editing_inner colour in CSS
[OPSK-594] - Add allow_user_programme_creation config to admin pages
[OPSK-595] - Include content blob urls in search indexing.

Issue

[OPSK-327] - even the url is registered in dns, disable it if it is not declared in any apache virtual host config
[OPSK-436] - Resolve which creators get credited in Zenodo/Datacite/RO metadata
[OPSK-437] - Publishing resources in Zenodo
[OPSK-484] - Decide on a maximum size for remote files to be copied to SEEK
[OPSK-513] - several files and folders have been added to fairdomhub repo