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Pull master into KDP_dev #41

Merged
merged 8 commits into from
Jul 26, 2021
Merged

Pull master into KDP_dev #41

merged 8 commits into from
Jul 26, 2021

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themerekat
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- Adjust method of coordinating taxon rankIDs so that they are more in line with taxon ranks defined with taxonranks table
- Accept inclusion of taxa even if the taxon rankID fails to be returned
- Handle section and subsection differently depending on kingdom equaling Animalia or Plantae, Fungi
- Add French version of Symbiota Guide originally put together by CCH2 project
@themerekat themerekat merged commit bef60c2 into KDP_dev Jul 26, 2021
themerekat pushed a commit that referenced this pull request Oct 7, 2021
GregoryPost pushed a commit that referenced this pull request Jan 10, 2023
egbot added a commit that referenced this pull request Jun 27, 2024
Revert "Revert "Merge Symbiota-light developments into bryo-lichen code repo""
GregoryPost added a commit that referenced this pull request Aug 2, 2024
Atticus29 added a commit that referenced this pull request Aug 6, 2024
# This is the 1st commit message:

begin to implement front end of association-based search

# This is the commit message #2:

continue fleshing out the front and back end of association-based search

# This is the commit message #3:

rename some variables to be more accurate and fix a few array-vs-string handlers

# This is the commit message #4:

remove assistive-text lines

# This is the commit message #5:

fix issue with taxa suggest

# This is the commit message #6:

DRY up taxa suggest in a way that is usable for more than one element on the same page

# This is the commit message #7:

fix bug where reverse relationship was not returning results correctly

# This is the commit message #8:

begin to flesh out populating readRequestVariables with association-related data

# This is the commit message #9:

continue making progress with writing setAssociationRequestVariable method

# This is the commit message #10:

continue working on setAssociationRequestVariable and subfunctions

# This is the commit message #11:

continue subfunctionalizing

# This is the commit message #12:

continue fleshing out the associated-taxon query

# This is the commit message #13:

continue to make progress on the new search-by-association query infrastructure

# This is the commit message #14:

get search results to display

# This is the commit message #15:

Get the search criteria to display

# This is the commit message #16:

Update harvester.php (#1447)

Modifies logic to display available boundary tool when no active geographic thesaurus exist in the DB
# This is the commit message #17:

CSS drop-down menus (#1452)

* CSS drop-down menus

Add styling to header.css that enables top drop-down menus
# This is the commit message #18:

Update OmCollections.php (#1455)

Errant line of code short circuiting collection meta data update.
# This is the commit message #19:

closes #1449 which was preventing checklist polyaid from opening (#1458)


# This is the commit message #20:

Occurrence editor crowdsource adjustments

- Add formatting for eventDate2
- Adjust exsicati
- Remove from display: additional identifiers, behavior, vitality

# This is the commit message #21:

occurrence editor crowdsource adjustments

- Add vertical-align to crowdsource css to override value set within reset.css
- Force refresh of crowdsource.css within client's browsers

# This is the commit message #22:

crowdsource editor styling issue

- resolve vertical-align issue, which persisted when opening in crowdsourcing mode and then switching between long and short forms
- Fix fieldset padding issue within image popout

# This is the commit message #23:

Api media 2024 06 (#1463)

- Fix route bug interfering with POST write calls
- Add recordID UUID to POST call
- Improve error output media object isn't found (400 error)
- Improve standardization of all response output
- Add sort fields to api documentation
- Add function that attempts to determine mime type via file header. Has added benefit of ensuring input file exists.
- Update swagger documentation 

# This is the commit message #24:

Media API

- Add ability to match images based on recordID UUID within PATCH call

# This is the commit message #25:

added confirmation windows for project and editor delete icons (#1454)


# This is the commit message #26:

[3.1] -burpsuite-fix: do not add taxa to query if there are special characters or quotes (#1436)

* do not add taxa to query if there are special characters or quotes

* cherry pick fix in 6250abd where getTaxonWhereFrag was getting un-cleaned taxon string

* respond to code review feedback
# This is the commit message #27:

Occurrence download bug (#1478)

- searchvar term is being sanitized prior to being set as a session variable, which is converting & to &, thus interfering with parsing of all terms after the first term. Translating & to & fixes the issue.
- The cleanOutStr function santizes output using htmlspecialchars. The htmlspecialchars on line 638 will double sanitize output, thus converting "east & west" to "east & west".
- Variable is getting sanitized within index.php with htmlspecialchars twice. Once on line 12 and again on line 205

Addresses GH issue: #1470 


# This is the commit message #28:

subfunctionalize the chip button click to the handleRemoval method

# This is the commit message #29:

only run getAssociatedTaxaSqlFragment when the relevant form field values are present in the query

# This is the commit message #30:

fix the behavior of the chip removal

# This is the commit message #31:

persist search terms

# This is the commit message #32:

fix the non-persisting taxon type selection

# This is the commit message #33:

remove var_dump

# This is the commit message #34:

fix bug where association search is not playing well with taxon accordion

# This is the commit message #35:

get the synonym searching to work

# This is the commit message #36:

get the sql command for wider taxa to work but not to display successfully on the UI yet

# This is the commit message #37:

remove spurious TODO and correct issue where usethes-associations and usethes were reversed

# This is the commit message #38:

Fix bug where synonym choice is not being respected

# This is the commit message #39:

Fix bug where synonym choice is not being respected

# This is the commit message #40:

Add all reciprocal relationships to drop down menu and Exclude non-relevant controlled vocabulary from the association dropdown list

# This is the commit message #41:

Accommodate no particular relationship in the search

# This is the commit message #42:

Accommodate no particular taxon in the search

# This is the commit message #43:

remove print statement

# This is the commit message #44:

add none as an option to the association dropdown and handle its logic

# This is the commit message #45:

remove cruft from classes/AssociationManager.php

# This is the commit message #46:

clean up OccurrenceListManager

# This is the commit message #47:

fix bug where family-based search was not working

# This is the commit message #48:

make the taxstatus join only happen when family is selected from the dropdown

# This is the commit message #49:

fix bug where there were duplicates in the relationship dropdown
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2 participants