Comments (4)
Rekyt
commented on June 16, 2024
1
Looking into more details it seems that most sampling protocols don't match with what is reported in the view_full_occurrence_individual, these are the protocols I get from the sampling_protocol column in the view:
tibble::as_tibble(BIEN:::.BIEN_sql("SELECT DISTINCT sampling_protocol FROM view_full_occurrence_individual"))
#> # A tibble: 24 x 1
#> sampling_protocol
#> <chr>
#> 1 0.01 ha, stems >= 10 cm dbh; 16 subplots of 10 x 10 m per plot, 4 rows (UU, ~
#> 2 0.1 ha transect, stems >= 2.5 cm dbh
#> 3 1 ha, stems >= 10 cm dbh
#> 4 All species recorded in a circle of 5 km radius, centered on the geocoordina~
#> 5 Area of each plot was estimated, not based on actual measurements.
#> 6 Carolina Vegetation Survey Standard Sampling Method. See http://www.bio.unc~
#> 7 Cover only
#> 8 Cover values are derived from cover below 1m observed in 25 1m^2 plots suppl~
#> 9 CVS protocol. 2 module plot with 150% supersample for trees >=10cm in DBH. ~
#> 10 CVS Protocol. Pines >=2.5 cm DBH supersampled at 125%
#> # ... with 14 more rowsCreated on 2020-11-10 by the reprex package (v0.3.0)
Session info
devtools::session_info()
#> - Session info ---------------------------------------------------------------
#> setting value
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#> language (EN)
#> collate French_France.1252
#> ctype French_France.1252
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#> date 2020-11-10
#>
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#> yaml 2.2.1 2020-02-01 [1] CRAN (R 4.0.3)
#>
#> [1] C:/Users/ke76dimu/Documents/R/win-library/4.0
#> [2] C:/Program Files/R/R-4.0.2/libraryThere is a discrepancy between the sampling_protocol column provided by BIEN::BIEN_plot_list_sampling_protocols() and the sampling_protocol column in view_full_occurrence_individual. Looking at the code of BIEN_plot_list_sampling_protocols() this means there is a discrepancy between the sampling_protocol column in plot_metadata table and view_full_occurrence_individual. So which one should be the good one?
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bmaitner
commented on June 16, 2024
1
Thanks for letting me know about this @Rekyt . This discrepancy must have crept in during one of the database updates. I'll dig into this and get back to you shortly
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OndrejMottl
commented on June 16, 2024
Is there any development with the Issue? I am still getting the same problem as @Rekyt.
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OndrejMottl
commented on June 16, 2024
The solution presented by @Rekyt does not solve the situation as the sampling_protocol from view_full_occurrence_individual also does not return anything from BIEN::BIEN_plot_sampling_protocol()
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