be4311c07e14feb728abc6425ee606ffaa611a58 markd Fri Jan 22 06:46:58 2021 -0800 merge with master diff --git src/hca/hcat/mysite/versions.txt src/hca/hcat/mysite/versions.txt index baf7abd..1c99f39 100644 --- src/hca/hcat/mysite/versions.txt +++ src/hca/hcat/mysite/versions.txt @@ -1,95 +1,107 @@ 0.1 - Got Django 2.1 admin running on hgwdev and proof of concept that the multiple selects on many-to-many fields work there. Made basic Contributor, Lab, Project, Grant tables and a few of the biologically relevant tables in first draft. Showed to Clay. 0.2 - Went through Clay's wish list and got through about 3/4 of the stuff we have control over. There's lots of tables for things like organs, assays, and project state. The controlled vocabs are managed by a separate table for the vocab in question that the wranglers can extend. People can put comments on most things. 0.3 - Figured out how to set up file uploads so that people can download a file after it's uploaded. Used this for holding the excel spreadsheets and other key files for wranglers. Got through the other 1/4 of Clay's wish list. Polished up the project details page a bit to condense it again with all the recent additions. Changing 'vocab' to 'wrangler' as a prefix for the tables most people should ignore, and figured out how to do this without changing the table names. 0.4 - Adding a bunch of date fields in project, and a specific comment field for the submission. Refining state names and adding more so can show project as it goes through analysis a bit. Breaking now huge wrangling section into three: wrangling, submission steps, post-submission. tech note: Django migration gets easily confused around multi-to-multi tables that are reflected so as to appear on both tables being related. I've had to do pretty painful patches two or three times now. :-( I'll probably figure out the pattern though. 0.5 - Changes done largely in response to feedback from the wranglers and Max. These include - Making the comments simple text fields rather than many-to-many relations with a hcat_comment table. - Making a wrangler table, to add more info without burdening contributor. This should also make it simpler to filter by wrangler. - Made some fields in the lab optional. - You can filter projects by wrangler1. - Added chat url to overall section - Added a new submission step - assigned to curator - The contributor role is now a key into a vocab table. There's roles defined for program officer (Jonah), pipeliner (Tim), analyst (Jing Zhu and Max), lab contact (not enough), PI (too many), intern (just enough) with parenthetical remarks addressed to our test database. - The submission steps section is changed to be date first, and a few have been renamed, notably curation. In anticipation of working with interns I made an Intern object similar to the Wrangler one. I also added SoftwareDeveloper while I was in there. 0.6 - Changes largely done to integrate in existing datasets and info from Parth's project tracker, a nice tool at https://tracker.data.humancellatlas.org, that tracks bundles and matrix cell counts. Table is hcat_tracker. Visible changes include - 22 new projects (we only had 2 of the already submitted ones before) - New "Tracking after submission" object in the admin. This has most of the nonredundant fields from Parth's tracker that weren't already in the "Projects" part. The list display shows mostly bundle counts and if it has a matrix computed an actual number of cells! - The "post-submit" section of the project details page is gone, and replaced with a section now at the bottom called "post-submission tracking - bundles and cells" which is just an inline non-editable view of the tracker info. - Note that the import of both project descriptions and validated spreadsheets was done manually and is incomplete. I think I'd like wrangler help to do about 15 of these from when the ingest ui site seems to have lost track of the spreadsheets. 0.7 - Put in a json API. <tuataraUrl>/api - Gives you list of api entry points, <tuataraUrl>/api/project - Gives you list of projects <tuataraUrl>/api/contributor - Gives you list of contributors <tuataraUrl>/api/organ - Gives you list of organ <tuataraUrl>/api/disease - Gives you list of diseases <tuataraUrl>/api/tracker - Gives you list of project post-submission tracking Where I'm hoping tuataraUrl will be https://tuatara.data.humancellatlas.org, but at the moment it's http://hgwdev.gi.ucsc.edu:8123/ Also Changes suggested by Will and Chris after putting in some of their projects in particular: - there's a "shared_google_sheet" url that they may use sometimes in place of the spreadsheet to/from lab fields. - the staging area is text instead of URL since S3 didn't work in URL - "chat url" is now called "git ticket url." If we can figure out a way to start a git ticket when a project is started it'd save them some clicks. Chris didn't like seeing "wrangler diseases" and the like, since the diseases really weren't about the wranglers, so am prefixing the less public/more preliminary tables with "x" instead of "wrangler" 0.8 - Changes made primarily from wrangler feedback. In general this consisted of simplifying things by removing tables or fields people didn't really want, renaming things where the meaning wasn't clear, not sharing contributor contact info beyond name. This version does not address any wrangler specific views but it should contain most of the database changes. - Removed responder fields from project since wranglers felt they weren't needed as separate from the contacts fields. - Removed assay type fields and table. - Renamed state_reached to status and cur_state to wrangling_status. - Added WranglingStatus model and field as distinct from overall ProjectStatus. - Moving wrangler sections to bottom of the project page. - Changed "wrangler1" to "primary wrangler" and "wrangler2" to "secondary wrangler" - Made API only return name, projects, and labs from contributors since other info especially contributors might want wranglers to have but not the web at large. - Made pubmed id and doi fields optional for publications - It's not visible in code but in database I adjusted some tables to view only for wranglers at their request including species. - Buried Grant and Wrangler behind an x in the admin list since these are also seldom used. + - Renaming AssayTech to CdnaLibraryPrep + - Making title field have more space + - Rearranging top part of Project details page in admin. + - See issues 1-5 for even more detail. +0.9 - Added a landing page that explains Tuatara and includes links to the admin interface + and a decent description of the API. Also: + - Fixed a bug that made the project search box crash + - Minor configuration adjustments to make it fit into https://tuatara.data.humancellatlas.org + ES-2 unit. + - Removed lab affiliation from api/contributors since not really needed + +