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Error in `check_fields()`:
! Can't use fields that don't exist.
ℹ Use `search_all(fields)` to find a valid field ID.
✖ Can't find field(s) in
• `galah_group_by()`: species_guid
Fix
The species_facets function defined in R/utilities_internal.R needs to be updated as below
Better Fix
In a number of function, fields or a list of fields are being specified on a per LA instance basis. Instead of adding the field for individual atlas instances, maybe a column could be added to the data-raw/node_config.csv file to indicate if the instance is using la-pipelines generated index or the legacy biocache-cli tool . This field could also be used in a similar situation in default_columns function in R/galah_select.R
The text was updated successfully, but these errors were encountered:
- ensure working APIs for atlases using pipelines infrastructure
- use less intrusive column renaming
- remove APIs for atlases where we have been unable to test downloads (Portugal and Estonia)
Describe the bug
galah
atlas_species()
function fails against LA instance with la-pipelines generated index (Sweden, France, Spain)galah version
2.0.1
To Reproduce
Steps to reproduce the behaviour:
See error
Fix
The
species_facets
function defined inR/utilities_internal.R
needs to be updated as belowBetter Fix
In a number of function, fields or a list of fields are being specified on a per LA instance basis. Instead of adding the field for individual atlas instances, maybe a column could be added to the
data-raw/node_config.csv
file to indicate if the instance is using la-pipelines generated index or the legacy biocache-cli tool . This field could also be used in a similar situation indefault_columns
function inR/galah_select.R
The text was updated successfully, but these errors were encountered: