Hotfix 2023 06 03 #508
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- Trim off delimiters that are left on the beginning or end of filter string to ensure that null values are not included
- Collection categories failing to be persist
- Set default image sort order to 40 for observations to ensure that preserved specimen images do not take precedence
- collection identifier (collid) failed to be passed to statistics update function
- Improve TROPICOS method of matching on infraspecific taxa - Improve close match suggestings
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Jun 16, 2023
* Occurrence Upload adjustment
- Trim off delimiters that are left on the beginning or end of filter string to ensure that null values are not included
* Collection Listing bug fix
- Collection categories failing to be persist
* Occurrence Image Submissions issue resolution
- Set default image sort order to 40 for observations to ensure that preserved specimen images do not take precedence
* Image Processing bug
- collection identifier (collid) failed to be passed to statistics update function
* Resolve Taxonomy Harvester issues
- Improve TROPICOS method of matching on infraspecific taxa
- Improve close match suggestions
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Hotfix 2023 06 03 (BioKIC#508)
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commit deb6549 Author: Edward Gilbert <[email protected]> Date: Thu Jun 22 09:24:36 2023 -0700 Hotfix 2023 06 19 (BioKIC#518) * Taxonomy Harvesting minor adjustments - Check resources before interpretation and again after interpretation - If name is matched within one recourse, skip the unnecessary step to check other resources - Synchronize display text * Refactor ImageLocalProcessor and resolve various bugs - Provide support for input file to include medium and thumbnail image derivatives - Expand Image Map processing to allow mapping file to include any images table field name - Expand images insert function to handle any valid field found within images table - Merge duplicate actions into shared private functions - MD5 hash large version of image input file, but don't overwrite hash if supplied by source, unless image is not modified by upload scripts - Handle BOM characters at start of csv file. - Trim header elements for testing column names. - Enforce default action of accepting derivative urls supplied within a csv image map file - Improve uriExists function - Make sure to remove staging images * Occurrence Public Display page - Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted * Checklist multi-polygon map Issue - Multipolygons defined within a checklist fail to map within both simple and dynamic maps * Suppress geo ref index during stats update * Occurrence Reviewer bug - Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records BioKIC#335 * Collection metadata editor bug - Reset contact array to ensure that JSON string is standardized as a non-associated array Resolves issue: BioKIC#487 --------- Co-authored-by: Greg Post <[email protected]> commit f55bc39 Author: Greg Post <[email protected]> Date: Tue Jun 20 13:42:28 2023 -0500 Update .gitignore commit c79fe50 Author: Edward Gilbert <[email protected]> Date: Fri Jun 16 11:08:57 2023 -0700 Hotfix 2023 06 03 (BioKIC#508) * Occurrence Upload adjustment - Trim off delimiters that are left on the beginning or end of filter string to ensure that null values are not included * Collection Listing bug fix - Collection categories failing to be persist * Occurrence Image Submissions issue resolution - Set default image sort order to 40 for observations to ensure that preserved specimen images do not take precedence * Image Processing bug - collection identifier (collid) failed to be passed to statistics update function * Resolve Taxonomy Harvester issues - Improve TROPICOS method of matching on infraspecific taxa - Improve close match suggestions commit 091676d Merge: de15df7 30c8a55 Author: Edward Gilbert <[email protected]> Date: Fri Jun 2 15:16:18 2023 -0700 Merge pull request BioKIC#492 from BioKIC/hotfix_2023-06-01 Hotfix: Occurrence upload, Key editor, Taxon Profile commit 30c8a55 Author: Edward Gilbert <[email protected]> Date: Fri Jun 2 15:13:18 2023 -0700 Hotfix: Occurrence upload, Key editor, Taxon Profile - Resolve issue with occurrence-taxon indexing code - Only build sciname from taxon units if all units are mapped - Resolve issue with ID Key editor not displaying characters that are not grouped -Taxon Profile insert issue
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* Occurrence Taxon Indexing adjustments - Refactor OccurrenceMaintenance class to consolidate occurrence indexing tools into single set of functions - Isolate general occurrence cleaning SQL statements from taxon indexing SQL - Extend occurrence-taxon indexing to accommodate a matching hierarchy that involves taxon author, subgeneric formats, etc - Refactor occurrence statistic function * Taxonomic function adjustments - Remove occurrence cleaning and occurrence-taxon indexing functions in preference to identical functions within OccurrenceMaintenance class (consolidate functions) * Taxonomic Harvester bug - Fix Catalog of Life API import issue where in certain situation species names are duplicated with one containing imbedded subgeneric name and the other not * Resolve COL Taxonomy Harvesting discrepancies - Include taxonRank within the ranking algorithm to get a correct match on subgenera search - Condense translateColNode algorithm into a single function that can translate both api and webservice formats - Various adjustments to subgeneric formatting * Update code version * Hotfix 2023-05-25 (#488) * Taxon Profile display bug - Ensure the taxadescrblock field take precedence * GeoLocate CoGe bug fix - path correction for temp staging area * Hotfix: Occurrence upload, Key editor, Taxon Profile - Resolve issue with occurrence-taxon indexing code - Only build sciname from taxon units if all units are mapped - Resolve issue with ID Key editor not displaying characters that are not grouped -Taxon Profile insert issue * Hotfix 2023 06 03 (#508) * Occurrence Upload adjustment - Trim off delimiters that are left on the beginning or end of filter string to ensure that null values are not included * Collection Listing bug fix - Collection categories failing to be persist * Occurrence Image Submissions issue resolution - Set default image sort order to 40 for observations to ensure that preserved specimen images do not take precedence * Image Processing bug - collection identifier (collid) failed to be passed to statistics update function * Resolve Taxonomy Harvester issues - Improve TROPICOS method of matching on infraspecific taxa - Improve close match suggestions * Update .gitignore * Hotfix 2023 06 19 (#518) * Taxonomy Harvesting minor adjustments - Check resources before interpretation and again after interpretation - If name is matched within one recourse, skip the unnecessary step to check other resources - Synchronize display text * Refactor ImageLocalProcessor and resolve various bugs - Provide support for input file to include medium and thumbnail image derivatives - Expand Image Map processing to allow mapping file to include any images table field name - Expand images insert function to handle any valid field found within images table - Merge duplicate actions into shared private functions - MD5 hash large version of image input file, but don't overwrite hash if supplied by source, unless image is not modified by upload scripts - Handle BOM characters at start of csv file. - Trim header elements for testing column names. - Enforce default action of accepting derivative urls supplied within a csv image map file - Improve uriExists function - Make sure to remove staging images * Occurrence Public Display page - Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted * Checklist multi-polygon map Issue - Multipolygons defined within a checklist fail to map within both simple and dynamic maps * Suppress geo ref index during stats update * Occurrence Reviewer bug - Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records #335 * Collection metadata editor bug - Reset contact array to ensure that JSON string is standardized as a non-associated array Resolves issue: #487 --------- Co-authored-by: Greg Post <[email protected]> --------- Co-authored-by: Greg Post <[email protected]>
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* Hotfix: Occurrence upload, Key editor, Taxon Profile - Resolve issue with occurrence-taxon indexing code - Only build sciname from taxon units if all units are mapped - Resolve issue with ID Key editor not displaying characters that are not grouped -Taxon Profile insert issue * Hotfix 2023 06 03 (BioKIC#508) * Occurrence Upload adjustment - Trim off delimiters that are left on the beginning or end of filter string to ensure that null values are not included * Collection Listing bug fix - Collection categories failing to be persist * Occurrence Image Submissions issue resolution - Set default image sort order to 40 for observations to ensure that preserved specimen images do not take precedence * Image Processing bug - collection identifier (collid) failed to be passed to statistics update function * Resolve Taxonomy Harvester issues - Improve TROPICOS method of matching on infraspecific taxa - Improve close match suggestions * Update .gitignore * Hotfix 2023 06 19 (BioKIC#518) * Taxonomy Harvesting minor adjustments - Check resources before interpretation and again after interpretation - If name is matched within one recourse, skip the unnecessary step to check other resources - Synchronize display text * Refactor ImageLocalProcessor and resolve various bugs - Provide support for input file to include medium and thumbnail image derivatives - Expand Image Map processing to allow mapping file to include any images table field name - Expand images insert function to handle any valid field found within images table - Merge duplicate actions into shared private functions - MD5 hash large version of image input file, but don't overwrite hash if supplied by source, unless image is not modified by upload scripts - Handle BOM characters at start of csv file. - Trim header elements for testing column names. - Enforce default action of accepting derivative urls supplied within a csv image map file - Improve uriExists function - Make sure to remove staging images * Occurrence Public Display page - Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted * Checklist multi-polygon map Issue - Multipolygons defined within a checklist fail to map within both simple and dynamic maps * Suppress geo ref index during stats update * Occurrence Reviewer bug - Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records BioKIC#335 * Collection metadata editor bug - Reset contact array to ensure that JSON string is standardized as a non-associated array Resolves issue: BioKIC#487 --------- Co-authored-by: Greg Post <[email protected]> * Hotfix 2023 07 22 (BioKIC#559) * Hotfix - 2023-07-22 - DwcArchivePublishing: Material Sample publishing bug - DwC-A upload: Scientific name failed to be built when taxonomic data is supplied by by individual components - Taxonomic autocomplete: Allow autocomplete handle apostrophes - Checklist Display: Bug fix that interfered with display of linked voucher images - Checklist Manager: Checklist taxon search autocomplete failed to include higher taxa (parent data) - Taxonomy Harvester bug: F-dex harvest failed to grab parents when source was not "Index Fungorum" - Specimen Upload: Set version data changes as the default action only when a collection is live managed - Occurrence Search Harvest: Reworked search form validation to be more efficient; Fix bug with occurrence attribute checkbox/radio failing to be recognized as a selected component * Hotfix 2023-06-19 (BioKIC#518) - Taxonomy Harvesting: Don't check following taxonomic resource on a positive match and input; synchronize display text - Refactor ImageLocalProcessor: -- Provide support for input file to include medium and thumbnail image derivatives -- Expand Image Map processing to allow mapping file to include any images table field name -- Expand images insert function to handle any valid field found within images table -- MD5 hash large version of image input file, but don't overwrite hash if supplied by source -- Handle BOM characters at start of csv file. -- Trim header elements for testing column names. -- Enforce default action of accepting derivative urls supplied within a csv image map file -- Make sure to remove staging images - Occurrence Public Display: Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted - Checklist multi-polygon Map: resolve Multipolygons failing to map within both simple and dynamic maps - Occurrence Reviewer: Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records - Collection metadata editor: Reset contact array to ensure that JSON string is standardized as a non-associated array --------- Co-authored-by: Greg Post <[email protected]> * Hotfix 2023 07 31 (BioKIC#564) hotfix 2023-07-31 * Glossary issues - Allow terms search to do a double wildcard search to expand functionality and resolve issue with zero return when html tags (e.g. italic) are included with the terms - Remove restrictions and unnecessary default actions associated with unset language and taxon terms so that thesaurus better functions as a single language glossaries - Fix various issues with export of report when there is a single language glossary and/or terms are not linked to specific taxa - Fix issue report export not including full list when terms have complex language relationships - Improve file naming and content/layout of Word report export - Resolve issues with inclusion of all Spanish language translation files - Include translations for some missed terms * Occurrence editor - Fix bug with year, month, day field failing to null when eventDate is nulled out - allow tidInterpreted value to be transferred when scientific name is added to form via duplicate tool * Occurrence Search - Fix issue with autocomplete failing to return names that contain single or double quotes - Fix issue taxon name search failing to return correct data when name contains single or double quotes - Map Search: resolved issue where map recenters in the middle of the ocean when a search returns no coordinates * Taxonomy issues and bugs - Taxonomy Utilities: Fix issue interfering import of taxa with hybrid symbol when there is not a space between symbol and name units - Taxonomy Harvesting: Resolve 'Unranked" taxonRank designations when taxon is a non-accepted genus - Taxonomy Upload: Minor adjustments needed to support processing of taxa immediately adjacent to kingdom rank * Hotfix 2023 08 08 (BioKIC#569) * Occurrence Search bug - Resolve issue with sanitation of occurrence search variables held within session storage --------- Co-authored-by: Edward Gilbert <[email protected]> Co-authored-by: Greg Post <[email protected]>
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* Hotfix: Occurrence upload, Key editor, Taxon Profile - Resolve issue with occurrence-taxon indexing code - Only build sciname from taxon units if all units are mapped - Resolve issue with ID Key editor not displaying characters that are not grouped -Taxon Profile insert issue * Hotfix 2023 06 03 (BioKIC#508) * Occurrence Upload adjustment - Trim off delimiters that are left on the beginning or end of filter string to ensure that null values are not included * Collection Listing bug fix - Collection categories failing to be persist * Occurrence Image Submissions issue resolution - Set default image sort order to 40 for observations to ensure that preserved specimen images do not take precedence * Image Processing bug - collection identifier (collid) failed to be passed to statistics update function * Resolve Taxonomy Harvester issues - Improve TROPICOS method of matching on infraspecific taxa - Improve close match suggestions * Update .gitignore * Hotfix 2023 06 19 (BioKIC#518) * Taxonomy Harvesting minor adjustments - Check resources before interpretation and again after interpretation - If name is matched within one recourse, skip the unnecessary step to check other resources - Synchronize display text * Refactor ImageLocalProcessor and resolve various bugs - Provide support for input file to include medium and thumbnail image derivatives - Expand Image Map processing to allow mapping file to include any images table field name - Expand images insert function to handle any valid field found within images table - Merge duplicate actions into shared private functions - MD5 hash large version of image input file, but don't overwrite hash if supplied by source, unless image is not modified by upload scripts - Handle BOM characters at start of csv file. - Trim header elements for testing column names. - Enforce default action of accepting derivative urls supplied within a csv image map file - Improve uriExists function - Make sure to remove staging images * Occurrence Public Display page - Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted * Checklist multi-polygon map Issue - Multipolygons defined within a checklist fail to map within both simple and dynamic maps * Suppress geo ref index during stats update * Occurrence Reviewer bug - Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records BioKIC#335 * Collection metadata editor bug - Reset contact array to ensure that JSON string is standardized as a non-associated array Resolves issue: BioKIC#487 --------- Co-authored-by: Greg Post <[email protected]> * Hotfix 2023 07 22 (BioKIC#559) * Hotfix - 2023-07-22 - DwcArchivePublishing: Material Sample publishing bug - DwC-A upload: Scientific name failed to be built when taxonomic data is supplied by by individual components - Taxonomic autocomplete: Allow autocomplete handle apostrophes - Checklist Display: Bug fix that interfered with display of linked voucher images - Checklist Manager: Checklist taxon search autocomplete failed to include higher taxa (parent data) - Taxonomy Harvester bug: F-dex harvest failed to grab parents when source was not "Index Fungorum" - Specimen Upload: Set version data changes as the default action only when a collection is live managed - Occurrence Search Harvest: Reworked search form validation to be more efficient; Fix bug with occurrence attribute checkbox/radio failing to be recognized as a selected component * Hotfix 2023-06-19 (BioKIC#518) - Taxonomy Harvesting: Don't check following taxonomic resource on a positive match and input; synchronize display text - Refactor ImageLocalProcessor: -- Provide support for input file to include medium and thumbnail image derivatives -- Expand Image Map processing to allow mapping file to include any images table field name -- Expand images insert function to handle any valid field found within images table -- MD5 hash large version of image input file, but don't overwrite hash if supplied by source -- Handle BOM characters at start of csv file. -- Trim header elements for testing column names. -- Enforce default action of accepting derivative urls supplied within a csv image map file -- Make sure to remove staging images - Occurrence Public Display: Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted - Checklist multi-polygon Map: resolve Multipolygons failing to map within both simple and dynamic maps - Occurrence Reviewer: Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records - Collection metadata editor: Reset contact array to ensure that JSON string is standardized as a non-associated array --------- Co-authored-by: Greg Post <[email protected]> * Hotfix 2023 07 31 (BioKIC#564) hotfix 2023-07-31 * Glossary issues - Allow terms search to do a double wildcard search to expand functionality and resolve issue with zero return when html tags (e.g. italic) are included with the terms - Remove restrictions and unnecessary default actions associated with unset language and taxon terms so that thesaurus better functions as a single language glossaries - Fix various issues with export of report when there is a single language glossary and/or terms are not linked to specific taxa - Fix issue report export not including full list when terms have complex language relationships - Improve file naming and content/layout of Word report export - Resolve issues with inclusion of all Spanish language translation files - Include translations for some missed terms * Occurrence editor - Fix bug with year, month, day field failing to null when eventDate is nulled out - allow tidInterpreted value to be transferred when scientific name is added to form via duplicate tool * Occurrence Search - Fix issue with autocomplete failing to return names that contain single or double quotes - Fix issue taxon name search failing to return correct data when name contains single or double quotes - Map Search: resolved issue where map recenters in the middle of the ocean when a search returns no coordinates * Taxonomy issues and bugs - Taxonomy Utilities: Fix issue interfering import of taxa with hybrid symbol when there is not a space between symbol and name units - Taxonomy Harvesting: Resolve 'Unranked" taxonRank designations when taxon is a non-accepted genus - Taxonomy Upload: Minor adjustments needed to support processing of taxa immediately adjacent to kingdom rank * Hotfix 2023 08 08 (BioKIC#569) * Occurrence Search bug - Resolve issue with sanitation of occurrence search variables held within session storage --------- Co-authored-by: Edward Gilbert <[email protected]> Co-authored-by: Greg Post <[email protected]>
cdtyrrell
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Aug 14, 2023
* Hotfix: Occurrence upload, Key editor, Taxon Profile - Resolve issue with occurrence-taxon indexing code - Only build sciname from taxon units if all units are mapped - Resolve issue with ID Key editor not displaying characters that are not grouped -Taxon Profile insert issue * Hotfix 2023 06 03 (BioKIC#508) * Occurrence Upload adjustment - Trim off delimiters that are left on the beginning or end of filter string to ensure that null values are not included * Collection Listing bug fix - Collection categories failing to be persist * Occurrence Image Submissions issue resolution - Set default image sort order to 40 for observations to ensure that preserved specimen images do not take precedence * Image Processing bug - collection identifier (collid) failed to be passed to statistics update function * Resolve Taxonomy Harvester issues - Improve TROPICOS method of matching on infraspecific taxa - Improve close match suggestions * Update .gitignore * Hotfix 2023 06 19 (BioKIC#518) * Taxonomy Harvesting minor adjustments - Check resources before interpretation and again after interpretation - If name is matched within one recourse, skip the unnecessary step to check other resources - Synchronize display text * Refactor ImageLocalProcessor and resolve various bugs - Provide support for input file to include medium and thumbnail image derivatives - Expand Image Map processing to allow mapping file to include any images table field name - Expand images insert function to handle any valid field found within images table - Merge duplicate actions into shared private functions - MD5 hash large version of image input file, but don't overwrite hash if supplied by source, unless image is not modified by upload scripts - Handle BOM characters at start of csv file. - Trim header elements for testing column names. - Enforce default action of accepting derivative urls supplied within a csv image map file - Improve uriExists function - Make sure to remove staging images * Occurrence Public Display page - Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted * Checklist multi-polygon map Issue - Multipolygons defined within a checklist fail to map within both simple and dynamic maps * Suppress geo ref index during stats update * Occurrence Reviewer bug - Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records BioKIC#335 * Collection metadata editor bug - Reset contact array to ensure that JSON string is standardized as a non-associated array Resolves issue: BioKIC#487 --------- Co-authored-by: Greg Post <[email protected]> * Add vouchers step 1 New cl voucher tab; language support; get method for checklistvoucheradmin to check if cl is associated with external service * Toggle inputs if no ext. service * Various in-progress steps (non-functional) * Hotfix 2023 07 22 (BioKIC#559) * Hotfix - 2023-07-22 - DwcArchivePublishing: Material Sample publishing bug - DwC-A upload: Scientific name failed to be built when taxonomic data is supplied by by individual components - Taxonomic autocomplete: Allow autocomplete handle apostrophes - Checklist Display: Bug fix that interfered with display of linked voucher images - Checklist Manager: Checklist taxon search autocomplete failed to include higher taxa (parent data) - Taxonomy Harvester bug: F-dex harvest failed to grab parents when source was not "Index Fungorum" - Specimen Upload: Set version data changes as the default action only when a collection is live managed - Occurrence Search Harvest: Reworked search form validation to be more efficient; Fix bug with occurrence attribute checkbox/radio failing to be recognized as a selected component * Hotfix 2023-06-19 (BioKIC#518) - Taxonomy Harvesting: Don't check following taxonomic resource on a positive match and input; synchronize display text - Refactor ImageLocalProcessor: -- Provide support for input file to include medium and thumbnail image derivatives -- Expand Image Map processing to allow mapping file to include any images table field name -- Expand images insert function to handle any valid field found within images table -- MD5 hash large version of image input file, but don't overwrite hash if supplied by source -- Handle BOM characters at start of csv file. -- Trim header elements for testing column names. -- Enforce default action of accepting derivative urls supplied within a csv image map file -- Make sure to remove staging images - Occurrence Public Display: Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted - Checklist multi-polygon Map: resolve Multipolygons failing to map within both simple and dynamic maps - Occurrence Reviewer: Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records - Collection metadata editor: Reset contact array to ensure that JSON string is standardized as a non-associated array --------- Co-authored-by: Greg Post <[email protected]> * Hotfix 2023 07 31 (BioKIC#564) hotfix 2023-07-31 * Glossary issues - Allow terms search to do a double wildcard search to expand functionality and resolve issue with zero return when html tags (e.g. italic) are included with the terms - Remove restrictions and unnecessary default actions associated with unset language and taxon terms so that thesaurus better functions as a single language glossaries - Fix various issues with export of report when there is a single language glossary and/or terms are not linked to specific taxa - Fix issue report export not including full list when terms have complex language relationships - Improve file naming and content/layout of Word report export - Resolve issues with inclusion of all Spanish language translation files - Include translations for some missed terms * Occurrence editor - Fix bug with year, month, day field failing to null when eventDate is nulled out - allow tidInterpreted value to be transferred when scientific name is added to form via duplicate tool * Occurrence Search - Fix issue with autocomplete failing to return names that contain single or double quotes - Fix issue taxon name search failing to return correct data when name contains single or double quotes - Map Search: resolved issue where map recenters in the middle of the ocean when a search returns no coordinates * Taxonomy issues and bugs - Taxonomy Utilities: Fix issue interfering import of taxa with hybrid symbol when there is not a space between symbol and name units - Taxonomy Harvesting: Resolve 'Unranked" taxonRank designations when taxon is a non-accepted genus - Taxonomy Upload: Minor adjustments needed to support processing of taxa immediately adjacent to kingdom rank * Hotfix 2023 08 08 (BioKIC#569) * Occurrence Search bug - Resolve issue with sanitation of occurrence search variables held within session storage --------- Co-authored-by: Edward Gilbert <[email protected]> Co-authored-by: Greg Post <[email protected]>
cdtyrrell
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Aug 14, 2023
* Hotfix: Occurrence upload, Key editor, Taxon Profile - Resolve issue with occurrence-taxon indexing code - Only build sciname from taxon units if all units are mapped - Resolve issue with ID Key editor not displaying characters that are not grouped -Taxon Profile insert issue * Hotfix 2023 06 03 (BioKIC#508) * Occurrence Upload adjustment - Trim off delimiters that are left on the beginning or end of filter string to ensure that null values are not included * Collection Listing bug fix - Collection categories failing to be persist * Occurrence Image Submissions issue resolution - Set default image sort order to 40 for observations to ensure that preserved specimen images do not take precedence * Image Processing bug - collection identifier (collid) failed to be passed to statistics update function * Resolve Taxonomy Harvester issues - Improve TROPICOS method of matching on infraspecific taxa - Improve close match suggestions * Update .gitignore * Hotfix 2023 06 19 (BioKIC#518) * Taxonomy Harvesting minor adjustments - Check resources before interpretation and again after interpretation - If name is matched within one recourse, skip the unnecessary step to check other resources - Synchronize display text * Refactor ImageLocalProcessor and resolve various bugs - Provide support for input file to include medium and thumbnail image derivatives - Expand Image Map processing to allow mapping file to include any images table field name - Expand images insert function to handle any valid field found within images table - Merge duplicate actions into shared private functions - MD5 hash large version of image input file, but don't overwrite hash if supplied by source, unless image is not modified by upload scripts - Handle BOM characters at start of csv file. - Trim header elements for testing column names. - Enforce default action of accepting derivative urls supplied within a csv image map file - Improve uriExists function - Make sure to remove staging images * Occurrence Public Display page - Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted * Checklist multi-polygon map Issue - Multipolygons defined within a checklist fail to map within both simple and dynamic maps * Suppress geo ref index during stats update * Occurrence Reviewer bug - Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records BioKIC#335 * Collection metadata editor bug - Reset contact array to ensure that JSON string is standardized as a non-associated array Resolves issue: BioKIC#487 --------- Co-authored-by: Greg Post <[email protected]> * Add vouchers step 1 New cl voucher tab; language support; get method for checklistvoucheradmin to check if cl is associated with external service * Toggle inputs if no ext. service * Various in-progress steps (non-functional) * Hotfix 2023 07 22 (BioKIC#559) * Hotfix - 2023-07-22 - DwcArchivePublishing: Material Sample publishing bug - DwC-A upload: Scientific name failed to be built when taxonomic data is supplied by by individual components - Taxonomic autocomplete: Allow autocomplete handle apostrophes - Checklist Display: Bug fix that interfered with display of linked voucher images - Checklist Manager: Checklist taxon search autocomplete failed to include higher taxa (parent data) - Taxonomy Harvester bug: F-dex harvest failed to grab parents when source was not "Index Fungorum" - Specimen Upload: Set version data changes as the default action only when a collection is live managed - Occurrence Search Harvest: Reworked search form validation to be more efficient; Fix bug with occurrence attribute checkbox/radio failing to be recognized as a selected component * Hotfix 2023-06-19 (BioKIC#518) - Taxonomy Harvesting: Don't check following taxonomic resource on a positive match and input; synchronize display text - Refactor ImageLocalProcessor: -- Provide support for input file to include medium and thumbnail image derivatives -- Expand Image Map processing to allow mapping file to include any images table field name -- Expand images insert function to handle any valid field found within images table -- MD5 hash large version of image input file, but don't overwrite hash if supplied by source -- Handle BOM characters at start of csv file. -- Trim header elements for testing column names. -- Enforce default action of accepting derivative urls supplied within a csv image map file -- Make sure to remove staging images - Occurrence Public Display: Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted - Checklist multi-polygon Map: resolve Multipolygons failing to map within both simple and dynamic maps - Occurrence Reviewer: Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records - Collection metadata editor: Reset contact array to ensure that JSON string is standardized as a non-associated array --------- Co-authored-by: Greg Post <[email protected]> * Hotfix 2023 07 31 (BioKIC#564) hotfix 2023-07-31 * Glossary issues - Allow terms search to do a double wildcard search to expand functionality and resolve issue with zero return when html tags (e.g. italic) are included with the terms - Remove restrictions and unnecessary default actions associated with unset language and taxon terms so that thesaurus better functions as a single language glossaries - Fix various issues with export of report when there is a single language glossary and/or terms are not linked to specific taxa - Fix issue report export not including full list when terms have complex language relationships - Improve file naming and content/layout of Word report export - Resolve issues with inclusion of all Spanish language translation files - Include translations for some missed terms * Occurrence editor - Fix bug with year, month, day field failing to null when eventDate is nulled out - allow tidInterpreted value to be transferred when scientific name is added to form via duplicate tool * Occurrence Search - Fix issue with autocomplete failing to return names that contain single or double quotes - Fix issue taxon name search failing to return correct data when name contains single or double quotes - Map Search: resolved issue where map recenters in the middle of the ocean when a search returns no coordinates * Taxonomy issues and bugs - Taxonomy Utilities: Fix issue interfering import of taxa with hybrid symbol when there is not a space between symbol and name units - Taxonomy Harvesting: Resolve 'Unranked" taxonRank designations when taxon is a non-accepted genus - Taxonomy Upload: Minor adjustments needed to support processing of taxa immediately adjacent to kingdom rank * Hotfix 2023 08 08 (BioKIC#569) * Occurrence Search bug - Resolve issue with sanitation of occurrence search variables held within session storage --------- Co-authored-by: Edward Gilbert <[email protected]> Co-authored-by: Greg Post <[email protected]>
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this pull request
Aug 21, 2023
* sync tyrrell-dev with tyrrell-master (local) (#8) * Hotfix: Occurrence upload, Key editor, Taxon Profile - Resolve issue with occurrence-taxon indexing code - Only build sciname from taxon units if all units are mapped - Resolve issue with ID Key editor not displaying characters that are not grouped -Taxon Profile insert issue * Hotfix 2023 06 03 (BioKIC#508) * Occurrence Upload adjustment - Trim off delimiters that are left on the beginning or end of filter string to ensure that null values are not included * Collection Listing bug fix - Collection categories failing to be persist * Occurrence Image Submissions issue resolution - Set default image sort order to 40 for observations to ensure that preserved specimen images do not take precedence * Image Processing bug - collection identifier (collid) failed to be passed to statistics update function * Resolve Taxonomy Harvester issues - Improve TROPICOS method of matching on infraspecific taxa - Improve close match suggestions * Update .gitignore * Hotfix 2023 06 19 (BioKIC#518) * Taxonomy Harvesting minor adjustments - Check resources before interpretation and again after interpretation - If name is matched within one recourse, skip the unnecessary step to check other resources - Synchronize display text * Refactor ImageLocalProcessor and resolve various bugs - Provide support for input file to include medium and thumbnail image derivatives - Expand Image Map processing to allow mapping file to include any images table field name - Expand images insert function to handle any valid field found within images table - Merge duplicate actions into shared private functions - MD5 hash large version of image input file, but don't overwrite hash if supplied by source, unless image is not modified by upload scripts - Handle BOM characters at start of csv file. - Trim header elements for testing column names. - Enforce default action of accepting derivative urls supplied within a csv image map file - Improve uriExists function - Make sure to remove staging images * Occurrence Public Display page - Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted * Checklist multi-polygon map Issue - Multipolygons defined within a checklist fail to map within both simple and dynamic maps * Suppress geo ref index during stats update * Occurrence Reviewer bug - Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records BioKIC#335 * Collection metadata editor bug - Reset contact array to ensure that JSON string is standardized as a non-associated array Resolves issue: BioKIC#487 --------- Co-authored-by: Greg Post <[email protected]> * Add vouchers step 1 New cl voucher tab; language support; get method for checklistvoucheradmin to check if cl is associated with external service * Toggle inputs if no ext. service * Various in-progress steps (non-functional) * Hotfix 2023 07 22 (BioKIC#559) * Hotfix - 2023-07-22 - DwcArchivePublishing: Material Sample publishing bug - DwC-A upload: Scientific name failed to be built when taxonomic data is supplied by by individual components - Taxonomic autocomplete: Allow autocomplete handle apostrophes - Checklist Display: Bug fix that interfered with display of linked voucher images - Checklist Manager: Checklist taxon search autocomplete failed to include higher taxa (parent data) - Taxonomy Harvester bug: F-dex harvest failed to grab parents when source was not "Index Fungorum" - Specimen Upload: Set version data changes as the default action only when a collection is live managed - Occurrence Search Harvest: Reworked search form validation to be more efficient; Fix bug with occurrence attribute checkbox/radio failing to be recognized as a selected component * Hotfix 2023-06-19 (BioKIC#518) - Taxonomy Harvesting: Don't check following taxonomic resource on a positive match and input; synchronize display text - Refactor ImageLocalProcessor: -- Provide support for input file to include medium and thumbnail image derivatives -- Expand Image Map processing to allow mapping file to include any images table field name -- Expand images insert function to handle any valid field found within images table -- MD5 hash large version of image input file, but don't overwrite hash if supplied by source -- Handle BOM characters at start of csv file. -- Trim header elements for testing column names. -- Enforce default action of accepting derivative urls supplied within a csv image map file -- Make sure to remove staging images - Occurrence Public Display: Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted - Checklist multi-polygon Map: resolve Multipolygons failing to map within both simple and dynamic maps - Occurrence Reviewer: Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records - Collection metadata editor: Reset contact array to ensure that JSON string is standardized as a non-associated array --------- Co-authored-by: Greg Post <[email protected]> * Hotfix 2023 07 31 (BioKIC#564) hotfix 2023-07-31 * Glossary issues - Allow terms search to do a double wildcard search to expand functionality and resolve issue with zero return when html tags (e.g. italic) are included with the terms - Remove restrictions and unnecessary default actions associated with unset language and taxon terms so that thesaurus better functions as a single language glossaries - Fix various issues with export of report when there is a single language glossary and/or terms are not linked to specific taxa - Fix issue report export not including full list when terms have complex language relationships - Improve file naming and content/layout of Word report export - Resolve issues with inclusion of all Spanish language translation files - Include translations for some missed terms * Occurrence editor - Fix bug with year, month, day field failing to null when eventDate is nulled out - allow tidInterpreted value to be transferred when scientific name is added to form via duplicate tool * Occurrence Search - Fix issue with autocomplete failing to return names that contain single or double quotes - Fix issue taxon name search failing to return correct data when name contains single or double quotes - Map Search: resolved issue where map recenters in the middle of the ocean when a search returns no coordinates * Taxonomy issues and bugs - Taxonomy Utilities: Fix issue interfering import of taxa with hybrid symbol when there is not a space between symbol and name units - Taxonomy Harvesting: Resolve 'Unranked" taxonRank designations when taxon is a non-accepted genus - Taxonomy Upload: Minor adjustments needed to support processing of taxa immediately adjacent to kingdom rank * Hotfix 2023 08 08 (BioKIC#569) * Occurrence Search bug - Resolve issue with sanitation of occurrence search variables held within session storage --------- Co-authored-by: Edward Gilbert <[email protected]> Co-authored-by: Greg Post <[email protected]> * External service voucher code (#9) * Hotfix: Occurrence upload, Key editor, Taxon Profile - Resolve issue with occurrence-taxon indexing code - Only build sciname from taxon units if all units are mapped - Resolve issue with ID Key editor not displaying characters that are not grouped -Taxon Profile insert issue * Hotfix 2023 06 03 (BioKIC#508) * Occurrence Upload adjustment - Trim off delimiters that are left on the beginning or end of filter string to ensure that null values are not included * Collection Listing bug fix - Collection categories failing to be persist * Occurrence Image Submissions issue resolution - Set default image sort order to 40 for observations to ensure that preserved specimen images do not take precedence * Image Processing bug - collection identifier (collid) failed to be passed to statistics update function * Resolve Taxonomy Harvester issues - Improve TROPICOS method of matching on infraspecific taxa - Improve close match suggestions * Update .gitignore * Hotfix 2023 06 19 (BioKIC#518) * Taxonomy Harvesting minor adjustments - Check resources before interpretation and again after interpretation - If name is matched within one recourse, skip the unnecessary step to check other resources - Synchronize display text * Refactor ImageLocalProcessor and resolve various bugs - Provide support for input file to include medium and thumbnail image derivatives - Expand Image Map processing to allow mapping file to include any images table field name - Expand images insert function to handle any valid field found within images table - Merge duplicate actions into shared private functions - MD5 hash large version of image input file, but don't overwrite hash if supplied by source, unless image is not modified by upload scripts - Handle BOM characters at start of csv file. - Trim header elements for testing column names. - Enforce default action of accepting derivative urls supplied within a csv image map file - Improve uriExists function - Make sure to remove staging images * Occurrence Public Display page - Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted * Checklist multi-polygon map Issue - Multipolygons defined within a checklist fail to map within both simple and dynamic maps * Suppress geo ref index during stats update * Occurrence Reviewer bug - Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records BioKIC#335 * Collection metadata editor bug - Reset contact array to ensure that JSON string is standardized as a non-associated array Resolves issue: BioKIC#487 --------- Co-authored-by: Greg Post <[email protected]> * Add vouchers step 1 New cl voucher tab; language support; get method for checklistvoucheradmin to check if cl is associated with external service * Toggle inputs if no ext. service * Various in-progress steps (non-functional) * Hotfix 2023 07 22 (BioKIC#559) * Hotfix - 2023-07-22 - DwcArchivePublishing: Material Sample publishing bug - DwC-A upload: Scientific name failed to be built when taxonomic data is supplied by by individual components - Taxonomic autocomplete: Allow autocomplete handle apostrophes - Checklist Display: Bug fix that interfered with display of linked voucher images - Checklist Manager: Checklist taxon search autocomplete failed to include higher taxa (parent data) - Taxonomy Harvester bug: F-dex harvest failed to grab parents when source was not "Index Fungorum" - Specimen Upload: Set version data changes as the default action only when a collection is live managed - Occurrence Search Harvest: Reworked search form validation to be more efficient; Fix bug with occurrence attribute checkbox/radio failing to be recognized as a selected component * Hotfix 2023-06-19 (BioKIC#518) - Taxonomy Harvesting: Don't check following taxonomic resource on a positive match and input; synchronize display text - Refactor ImageLocalProcessor: -- Provide support for input file to include medium and thumbnail image derivatives -- Expand Image Map processing to allow mapping file to include any images table field name -- Expand images insert function to handle any valid field found within images table -- MD5 hash large version of image input file, but don't overwrite hash if supplied by source -- Handle BOM characters at start of csv file. -- Trim header elements for testing column names. -- Enforce default action of accepting derivative urls supplied within a csv image map file -- Make sure to remove staging images - Occurrence Public Display: Allow occurrence archive (deleted occurrences) to be searchable by GUID (occurrenceID, recordID), thus reporting when a record is deleted - Checklist multi-polygon Map: resolve Multipolygons failing to map within both simple and dynamic maps - Occurrence Reviewer: Fix for field name and start and end date filter variables failing to be carried forward when advancing to pages beyond 1000 records - Collection metadata editor: Reset contact array to ensure that JSON string is standardized as a non-associated array --------- Co-authored-by: Greg Post <[email protected]> * Hotfix 2023 07 31 (BioKIC#564) hotfix 2023-07-31 * Glossary issues - Allow terms search to do a double wildcard search to expand functionality and resolve issue with zero return when html tags (e.g. italic) are included with the terms - Remove restrictions and unnecessary default actions associated with unset language and taxon terms so that thesaurus better functions as a single language glossaries - Fix various issues with export of report when there is a single language glossary and/or terms are not linked to specific taxa - Fix issue report export not including full list when terms have complex language relationships - Improve file naming and content/layout of Word report export - Resolve issues with inclusion of all Spanish language translation files - Include translations for some missed terms * Occurrence editor - Fix bug with year, month, day field failing to null when eventDate is nulled out - allow tidInterpreted value to be transferred when scientific name is added to form via duplicate tool * Occurrence Search - Fix issue with autocomplete failing to return names that contain single or double quotes - Fix issue taxon name search failing to return correct data when name contains single or double quotes - Map Search: resolved issue where map recenters in the middle of the ocean when a search returns no coordinates * Taxonomy issues and bugs - Taxonomy Utilities: Fix issue interfering import of taxa with hybrid symbol when there is not a space between symbol and name units - Taxonomy Harvesting: Resolve 'Unranked" taxonRank designations when taxon is a non-accepted genus - Taxonomy Upload: Minor adjustments needed to support processing of taxa immediately adjacent to kingdom rank * Hotfix 2023 08 08 (BioKIC#569) * Occurrence Search bug - Resolve issue with sanitation of occurrence search variables held within session storage --------- Co-authored-by: Edward Gilbert <[email protected]> Co-authored-by: Greg Post <[email protected]> * plot iNat points * Update checklistmap.php * changed link to retrieve * Update externalvouchers.php Will now access checklist metadata (remove debug external checklist from externalvouchers.php) * parse ids and call api * Update checklists.externalserviceapi.js * Grabs voucher data This is just element zero, wtill need to loop over array. * loops over multiple results * Update checklists.externalserviceapi.js * Ext Vouch save complete * Update externalvouchers.php * Draft iNat vouchers working * Don't show inat vouchers if cl not associated --------- Co-authored-by: Edward Gilbert <[email protected]> Co-authored-by: Greg Post <[email protected]>
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Update from BioKIC Development
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