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SIMSBIOHUB-207/216: Survey Animals Table and Telemetry Device Deployment #1087

Merged
merged 227 commits into from
Sep 13, 2023
Merged

SIMSBIOHUB-207/216: Survey Animals Table and Telemetry Device Deployment #1087

merged 227 commits into from
Sep 13, 2023

Commits on Jul 18, 2023

  1. Created section for individual animals in survey

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  2. consolidated duplicate components into single component -> now using … 

    …NoSummarySectionData.tsx
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    MacQSL committed Jul 18, 2023
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  3. added SurveyAnimals.tsx to SurveyPage

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  4. renamed file to NoSurveySectionData

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    MacQSL committed Jul 18, 2023
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  5. updated references to use new component name/import

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  6. Added new express router and relevant env variables to connect to cri… 

    …tterbase from within SIMS api
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  7. Added simple critterbase hook and test page to app

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Commits on Jul 19, 2023

  1. Frontend / API will not pass correct authentication headers through t… 

    …o critterbase calls, still need to implement automated signup
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  2. adding state for animal section buttons

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    MacQSL committed Jul 19, 2023
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Commits on Jul 20, 2023

  1. Implemented critterbase signup and markings endpoint as express-opena… 

    …pi routes similar to existing SIMS routes
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  2. fixed merge conflict, and updated styling to use MUI5 standards

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  3. Added state for handling the form sections

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  4. created form context + custom hook for handling form section data

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  5. Added first form section (General)

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  6. updated default export to be the wrapped instance of the AnimalForm

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  7. placeholder content created for General section

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Commits on Jul 21, 2023

  1. updated useAnimalFormData.tsx to implement useReducer for form state … 

    …handling
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  2. created helpButton tooltip component, styled simlarily to current pop… 

    …out menus in UI
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  3. modified the way the state is being handled inside the AnimalForm, co… 

    …mponents can now be added to form on button click
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Commits on Jul 25, 2023

  1. added temp delete button for each generated form section

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  2. Removes express-openapi style critterbase routes in favor of directly… 

    … calling cb api through hooks in the frontend. No more extra auth headers, now all done through keycloak JWT.
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  3. Forgot to start tracking files for critterbase frontend hooks.

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Commits on Jul 26, 2023

  1. renamed GeneralAnimalForm and refactored

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  2. refactored CaptureAnimalForm

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  3. created form section wrapper to reduce syling duplication

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  4. refactored IndividualAnimalForm to use formik FieldArray

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  5. updated animal form related types

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  6. Made another hook for getting the lookup tables and enums from critte… 

    …rbase. Made a wrapper function for critterbase selects that uses existing Formik components
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  7. Removed some extra critterbase-sims api fusion stuff from the api fol… 

    …der and the docker compose that we don't need anymore
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  8. Adds conditonal render to AppRouter to only display dev Playground pa… 

    …ge in dev environment
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  9. created addSectionBtn for animal form sections

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  10. removed unused context (formik refactor) -> created animal.ts types f… 

    …ile, updated refs
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Commits on Jul 27, 2023

  1. updated formSectionWrapper and styling in input sections

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  2. added constants for animal form to i18n.ts and updated refs

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  3. updated customTextField to handle onBlur changes, used for formik val… 

    …idation
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  4. updated animal.ts to use yup validation schemas, updated styling / wo… 

    …rking form validation
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  5. Implements working floating point field with proper validation. Also … 

    …adds a ClickMarker component that can be placed on map with mouse click. Resizable circle zone requires some work.
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Commits on Jul 28, 2023

  1. Consolidated marker and resizable circle into one component. Renamed … 

    …component to reflect this. Circle resize function now occurs on click and hold, so you can still replace the marker if you click inside the circle.
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  2. Merge branch 'critterbase-map-component' into BCTW-935-Add-Critter-Form

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  3. added release section to capture and helper function for generating f… 

    …ield name prop
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  4. created TextInputToggle.tsx for animal comment inputs

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  5. moved inputs to separate component for CaptureAnimalForm

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  6. added marking boiler plate code

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  7. Added taxon select and capture tab component to the critter form. Als… 

    …o fixed CbSelect to use a normal select instead of subtext select
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  8. Merge branch 'BCTW-935-Add-Critter-Form' of github.com:bcgov/biohubbc… 

    … into BCTW-935-Add-Critter-Form
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  9. added controlProps for CbSelect comp, improved validation errs

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Commits on Jul 31, 2023

  1. added marking section

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  2. created UI section for measurements

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  3. Capture form now has toggle between WGS latlon or UTM Zone 10 input. … 

    …They sync with each other and both work with the map
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  4. Merge branch 'BCTW-935-Add-Critter-Form' of github.com:bcgov/biohubbc… 

    … into BCTW-935-Add-Critter-Form
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Commits on Aug 1, 2023

  1. Implemented separate placement of release coordinate on map page as w… 

    …ell as UTM coordinate convversion
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  2. Updated CbSelect to handle taxon changes

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  3. Merge branch 'BCTW-935-Add-Critter-Form' of https://github.com/bcgov/… 

    …biohubbc into BCTW-935-Add-Critter-Form
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Commits on Aug 2, 2023

  1. Added Family form section, added critterApi, added some custom valida… 

    …tion that uses the critter by id endpoint
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  2. Merge branch 'BCTW-935-Add-Critter-Form' of github.com:bcgov/biohubbc… 

    … into BCTW-935-Add-Critter-Form
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  3. Adds mortality event form, relevant string constants. Modified CbSele… 

    …ct so that you can do actions based off the label (which often differs from the real value). MarkerWithResizableRadius has a red option now.
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Commits on Aug 3, 2023

  1. Added comments to new components, broke some helpers out into separat… 

    …e files.
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  2. created measurement section and handling qual/quant measurements as o… 

    …ne list
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  3. Refactored all the custom map stuff inside the Capture and Mortality … 

    …forms so that it can be reused across components.
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  4. fixed merge conflict with CbSelect + modified measruement to handle o… 

    …ptions change
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  5. fixed type issue in LocationEntryForm

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Commits on Aug 4, 2023

  1. commit before CbSelect refactor

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  2. created FormikSelectWrapper component to handle custom select renderings

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  3. updated measurements to now support unit type

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  4. Merge branch 'dev' into BCTW-935-Add-Critter-Form

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Commits on Aug 9, 2023

  1. created critter class for handling critterbase payload

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  2. fixed measurements from not being fetched

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Commits on Aug 10, 2023

  1. Updated Critter class payload formatting

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  2. updated capture form styling

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Commits on Aug 11, 2023

  1. Modified some of the critter form transformations to make each of the… 

    … sections work corectly with the bulk creation endpoint
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  2. Fixed markings so that they won't have empty string default for non r… 

    …equired fields
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  3. modified temp date fields to real date/timestamp inputs

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  4. corrected merge conflict

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  5. commit before grouping refactor

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  6. updated form styling to be inline with current sims forms

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Commits on Aug 14, 2023

  1. finalized UI changes for Indivdual Animal form

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  2. created helper function for required fields for yup validation

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  3. Fixed sending empty values on mortality form section and corrected a … 

    …field name for qualitative measurements
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  4. updated required fields to use helper function

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Commits on Aug 15, 2023

  1. added temp dev logs for form_values and payload

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  2. corrected merge conflict in markings

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  3. Updated critter payload class and UI components to be centered around… 

    … family_id's, added useFamilyApi hook to get full list of families
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  4. Merge branch 'BCTW-935-Add-Critter-Form' of github.com:bcgov/biohubbc… 

    … into BCTW-935-Add-Critter-Form
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  5. fixed animal mutation bug + removed excess logging

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  6. Merge branch 'BCTW-935-Add-Critter-Form' of github.com:bcgov/biohubbc… 

    … into BCTW-935-Add-Critter-Form
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  7. removed deep copy from Critter constructor

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  8. removed deep copy from Critter constructor

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  9. updated component / function comments

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  10. corrected merge conflict in animal constructor

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Commits on Aug 16, 2023

  1. updated animal captured sub header

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  2. Family section now has a button to view the basic hierarchy of the fa… 

    …mily that's selected
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  3. Merge branch 'BCTW-935-Add-Critter-Form' of github.com:bcgov/biohubbc… 

    … into BCTW-935-Add-Critter-Form
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  4. wrapped children of family modal in outlined papers

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  5. added temp dev button to display form values

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  6. Added snackbar toast to animal form

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  7. added helper function to pluarlize dialog/toast text

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  8. auto formatted code for PR

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  9. fixed CB_API_URL formatting error

    @MacQSL
    MacQSL committed Aug 16, 2023
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  10. fixed merge conflicts with dev

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  11. added tests for animal.ts helper functions

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Commits on Aug 17, 2023

  1. Fixed a bug where switching to UTM coordinates would not populate the… 

    … release UTM fields correctly
    @GrahamS-Quartech
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  2. Merge branch 'BCTW-935-Add-Critter-Form' of github.com:bcgov/biohubbc… 

    … into BCTW-935-Add-Critter-Form
    @GrahamS-Quartech
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  3. added tests for critter captures/markings

    @MacQSL
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  4. Merge branch 'BCTW-935-Add-Critter-Form' of https://github.com/bcgov/… 

    …biohubbc into BCTW-935-Add-Critter-Form
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  5. Added some basic tests for critterbase api hooks

    @GrahamS-Quartech
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  6. changed function isReq -> isRequiredInSchema

    @MacQSL
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  7. created stable id values for the array form sections

    @MacQSL
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  8. removed commented code

    @MacQSL
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  9. updated tests

    @MacQSL
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  10. fixed formatting issue in measurement

    @MacQSL
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  11. Created basic service to send requests to BCTW API

    @JeremyQuartech
    JeremyQuartech committed Aug 17, 2023
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  12. fixed multiple codeSmells ignore-skip

    @MacQSL
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  13. removed nested template literal ignore-skip

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  14. fixed key issue in formSectionWrapper

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Commits on Aug 18, 2023

  1. fixed issue with url formatting in useAxios

    @MacQSL
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  2. Added bctw health endpoint to test connection and auth.

    @JeremyQuartech
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  3. corrected all issues in PR comments

    @MacQSL
    MacQSL committed Aug 18, 2023
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  4. fixed formatting

    @MacQSL
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Commits on Aug 21, 2023

  1. Added new keycloak method to get service token.

    @JeremyQuartech
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  2. CbSelectField updated for exhaustive dependecies / ignoring one instance

    @MacQSL
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  3. wrapped isValueInRange in useMemo

    @MacQSL
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  4. updated animal constructor to removed dead values

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  5. updated family to use CbSelectWrapper

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  6. fixed issue with capture section add btn being incorrectly disabled

    @MacQSL
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  7. removed console.log in capture

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Commits on Aug 22, 2023

  1. added additional props for TextInputToggle to control the toggle stat… 

    …e. Used in Capture/Release/Mortality form sections
    @MacQSL
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  2. fixed measurement selection bug

    @MacQSL
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  3. updated general section key + added custom canAddSection handler for … 

    …measurement
    @MacQSL
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  4. WIP: Adds basic endpoints to BCTW service.

    @JeremyQuartech
    JeremyQuartech committed Aug 22, 2023
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Commits on Aug 23, 2023

  1. Fixed typescript error in makeRequest function

    @JeremyQuartech
    JeremyQuartech committed Aug 23, 2023
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  2. Merge branch 'BCTW-935-Add-Critter-Form' of github.com:bcgov/biohubbc… 

    … into BCTW-935-Add-Critter-Form
    @GrahamS-Quartech
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  3. Added support for query to makeGetRequest bctw method.

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  4. Added a critterbase service in the same style as the bctw-service

    @GrahamS-Quartech
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  5. Merge branch 'BCTW-935-Add-Critter-Form' into critterbase-service

    @GrahamS-Quartech
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  6. Added unit tests for bctw-service.

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  7. Added test coverage for missing line.

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Commits on Aug 24, 2023

  1. Added telemetry vendor lookup route and removed deprecated deployment… 

    … route.
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  2. Added unit tests for vendor request handler.

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  3. Fleshed out the critterbase service with more of the required routes … 

    …and integrated these changes so that they still work with the Add critter form
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Commits on Aug 28, 2023

  1. Fixed signup hook so that it also goes through the critterbase servic… 

    …e now
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  2. Fixed names of some of the ICbRoute keys to be more consistent with o… 

    …thers
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  3. Some more renames, removed console logs, fixed lint issues

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  4. Merge branch 'critterbase-service' into SIMSBIOHUB-239

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  5. Moved some duplicate code from critter measurement paths into a reusa… 

    …ble object
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  6. Merge branch 'dev' into SIMSBIOHUB-239

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  7. Added a missing function to the lookup hook, fixed a broken test

    @GrahamS-Quartech
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  8. Fixed a duplicately named function

    @GrahamS-Quartech
    GrahamS-Quartech committed Aug 28, 2023
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  9. Fixed some tests and linting issues

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Commits on Aug 29, 2023

  1. Added tests for critterbase service

    @GrahamS-Quartech
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  2. Added family index request handler try/catch and unit tests.

    @JeremyQuartech
    JeremyQuartech committed Aug 29, 2023
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  3. Merge branch 'SIMSBIOHUB-239' of https://github.com/bcgov/biohubbc in… 

    …to SIMSBIOHUB-239
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  4. Added unit tests for 'getFamilyById'

    @JeremyQuartech
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  5. Added unit test for 'getTaxonBodyLocations'

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    JeremyQuartech committed Aug 29, 2023
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  6. Added unit tests for 'getTaxonMeasurements'

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  7. Added unit tests for 'getQualMeasurementOptions'

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  8. Added unit tests for 'signUp'

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  9. Added tests for critters and lookups paths

    @GrahamS-Quartech
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  10. Merge branch 'SIMSBIOHUB-239' of github.com:bcgov/biohubbc into SIMSB… 

    …IOHUB-239
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  11. Merge branch 'dev' into SIMSBIOHUB-239

    @JeremyQuartech
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  12. Merge branch 'SIMSBIOHUB-239' of github.com:bcgov/biohubbc into SIMSB… 

    …IOHUB-239
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  13. Missed the tiniest of tiny lints

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  14. Added environment variables for BCTW and Critterbase API URLs, ignore… 

    …-skip
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  15. Small fixes to deployment config

    @GrahamS-Quartech
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  16. Added new env to the top of the template as well

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  17. Changed BctwService interfaces to zod objects

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  18. Adressed review comments. Renamed critter post path, fixed some strin… 

    …g joins, cached axiosInstance, etc.
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  19. Merge branch 'SIMSBIOHUB-239' of github.com:bcgov/biohubbc into SIMSB… 

    …IOHUB-239
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  20. Merge branch 'dev' into SIMSBIOHUB-239

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  21. ignore-skip

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Commits on Aug 30, 2023

  1. SIMSBIOHUB-239: updated error handling

    @curtisupshall
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  2. Added error handling to interceptor and removed makePostPatch method … 

    …for bctw and critterbase services
    @JeremyQuartech
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  3. Added request interceptor to axios instance to allow async keycloak t… 

    …oken retrieval
    @JeremyQuartech
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  4. Removed test code

    @JeremyQuartech
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  5. Fixed axios instance for critterbase service, fixed bulk insert behav… 

    …ior, fixed critterbase service test
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  6. Merge branch 'SIMSBIOHUB-239' of github.com:bcgov/biohubbc into SIMSB… 

    …IOHUB-239
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  7. WIP: Updated bctw tests

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  8. Merge branch 'SIMSBIOHUB-239' of https://github.com/bcgov/biohubbc in… 

    …to SIMSBIOHUB-239
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  9. Fixed failing BctwService tests

    @JeremyQuartech
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  10. Fixed failing critterbase service tests

    @JeremyQuartech
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  11. Addressed more review comments. Added uuid format to paths, fixed tes… 

    …t code smells, improved assertions.
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  12. Removed some outdated checks against frontend critterbase env vars

    @GrahamS-Quartech
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  13. Added hooks and endpoint for filtering critterbase critters

    @GrahamS-Quartech
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Commits on Aug 31, 2023

  1. Added empty telemetry form

    @JeremyQuartech
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  2. Merge branch 'dev' into SIMSBIOHUB-207

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  3. Added typing for the critter response, basic table with actions menu … 

    …implemented
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  4. Merge branch 'dev' into SIMSBIOHUB-216

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  5. WIP: telemetry form

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Commits on Sep 1, 2023

  1. WIP: Telemetry Device form, Telemetry select fields, and telemetry Ap… 

    …i hooks.
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  2. Adds relevant routes, types, and services functions to add critters a… 

    …nd fetch critters using both the biohub and critterbase data about them.
    @GrahamS-Quartech
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  3. Added routes and functions for removing a critter from a survey. Ther… 

    …e's now an entry in the actions menu for this.
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  4. Merge branch 'SIMSBIOHUB-207' into SIMSBIOHUB-216

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Commits on Sep 6, 2023

  1. This adds the ability to deploy devices from SIMS. Also adds code fet… 

    …ch from bctw. Has routes for getting all deployments in a survey, not fully implemented in UI
    @GrahamS-Quartech
    GrahamS-Quartech committed Sep 6, 2023
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  2. WIP: Joined device data to critters in SurveyAnimalsTable

    @JeremyQuartech
    JeremyQuartech committed Sep 6, 2023
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  3. Added support for multiple devices per critter at survey level.

    @JeremyQuartech
    JeremyQuartech committed Sep 6, 2023
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Commits on Sep 7, 2023

  1. Added basic tests for useDeviceApi

    @JeremyQuartech
    JeremyQuartech committed Sep 7, 2023
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  2. Fixed infered type error

    @JeremyQuartech
    JeremyQuartech committed Sep 7, 2023
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  3. WIP: Writing tests for new critter and device endpoints

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    JeremyQuartech committed Sep 7, 2023
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  4. WIP: Added tests to critter / deployment related survey endpoints

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    JeremyQuartech committed Sep 7, 2023
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Commits on Sep 8, 2023

  1. Updated BctwService and CritterbaseService tests

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    JeremyQuartech committed Sep 8, 2023
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  2. Various PR recommendations

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    JeremyQuartech committed Sep 8, 2023
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  3. Removed old comments, ignore-skip

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    JeremyQuartech committed Sep 8, 2023
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  4. Added new survey-repository tests for new critter and device funciton… 

    …ality
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    JeremyQuartech committed Sep 8, 2023
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  5. Added survey-service tests for new critter and device methods

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    JeremyQuartech committed Sep 8, 2023
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Commits on Sep 11, 2023

  1. Fixed code smells and lint errors

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    JeremyQuartech committed Sep 11, 2023
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  2. Code smell fixes

    @JeremyQuartech
    JeremyQuartech committed Sep 11, 2023
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  3. Create critter duplicated code fix.

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    JeremyQuartech committed Sep 11, 2023
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  4. Addressed review comments, made critter service its own thing separat… 

    …e from survey service, added test for survey hook
    @GrahamS-Quartech
    GrahamS-Quartech committed Sep 11, 2023
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  5. Merge branch 'SIMSBIOHUB-216' of github.com:bcgov/biohubbc into SIMSB… 

    …IOHUB-216
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  6. Merge branch 'dev' into SIMSBIOHUB-216

    @JeremyQuartech
    JeremyQuartech authored Sep 11, 2023
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  7. Added string / number type to Telemetry select field data loader types

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  8. Merge branch 'SIMSBIOHUB-216' of https://github.com/bcgov/biohubbc in… 

    …to SIMSBIOHUB-216
    @JeremyQuartech
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  9. Made generic CustomDataGrid so custom styling can be reused

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    GrahamS-Quartech committed Sep 11, 2023
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  10. Merge branch 'SIMSBIOHUB-216' of github.com:bcgov/biohubbc into SIMSB… 

    …IOHUB-216
    @GrahamS-Quartech
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  11. Fixed some broken api tests

    @GrahamS-Quartech
    GrahamS-Quartech committed Sep 11, 2023
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  12. Refactored critter-survey matching for faster lookup

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  13. Merge branch 'SIMSBIOHUB-216' of https://github.com/bcgov/biohubbc in… 

    …to SIMSBIOHUB-216
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  14. Added some additional tests for the survey hook

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  15. Merge branch 'SIMSBIOHUB-216' of github.com:bcgov/biohubbc into SIMSB… 

    …IOHUB-216
    @GrahamS-Quartech
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  16. Adds some api routes and added error handling in the frontend for the… 

    … device deployment form. This will now lookup information about the device id, and if one already exists in bctw, it will disallow changing the make or deploying on existing deployment times.
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  17. Merge branch 'dev' into SIMSBIOHUB-216

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    JeremyQuartech authored Sep 11, 2023
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  18. Adds missing test for deviceId route

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  19. Merge branch 'SIMSBIOHUB-216' of github.com:bcgov/biohubbc into SIMSB… 

    …IOHUB-216
    @GrahamS-Quartech
    GrahamS-Quartech committed Sep 11, 2023
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Commits on Sep 12, 2023

  1. Fixes a small type complaint

    @GrahamS-Quartech
    GrahamS-Quartech committed Sep 12, 2023
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  2. Merge branch 'dev' into SIMSBIOHUB-216

    @al-rosenthal
    al-rosenthal authored Sep 12, 2023
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  3. Resolved various PR comments

    @JeremyQuartech
    JeremyQuartech committed Sep 12, 2023
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  4. Resolved PR comments

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    JeremyQuartech committed Sep 12, 2023
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Commits on Sep 13, 2023

  1. Adressed remaining PR comments

    @GrahamS-Quartech
    GrahamS-Quartech committed Sep 13, 2023
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