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HTTP 404 error for get_tsn() #894

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rewcook opened this issue Jul 15, 2022 · 2 comments
Open

HTTP 404 error for get_tsn() #894

rewcook opened this issue Jul 15, 2022 · 2 comments

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@rewcook
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rewcook commented Jul 15, 2022

I'm getting an HTTP 404 error when attempting to get the TSN's from ITIS.

It's only the get_tsn_() function. Other functions (e.g . itis_getrecord) work if I manually add the TSN.

# fails with HTTP 404 error
taxize::get_tsn_('Actitis hypoleucos')

# runs as expected (176613 is Actitis hypoleucos TSN)
taxize::itis_getrecord('176613')
Session Info
R version 4.2.1 (2022-06-23)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Big Sur 11.6.2

Matrix products: default
LAPACK: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRlapack.dylib

locale:
[1] en_CA.UTF-8/en_CA.UTF-8/en_CA.UTF-8/C/en_CA.UTF-8/en_CA.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods  
[7] base     

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.9        compiler_4.2.1    pillar_1.7.0     
 [4] plyr_1.8.7        ritis_1.0.0       iterators_1.0.14 
 [7] tools_4.2.1       uuid_1.1-0        jsonlite_1.8.0   
[10] lifecycle_1.0.1   tibble_3.1.7      nlme_3.1-158     
[13] lattice_0.20-45   pkgconfig_2.0.3   rlang_1.0.4      
[16] foreach_1.5.2     DBI_1.1.3         cli_3.3.0        
[19] rstudioapi_0.13   crul_1.2.0        curl_4.3.2       
[22] parallel_4.2.1    stringr_1.4.0     dplyr_1.0.9      
[25] xml2_1.3.3        generics_0.1.3    vctrs_0.4.1      
[28] triebeard_0.3.0   tidyselect_1.1.2  grid_4.2.1       
[31] reshape_0.8.9     glue_1.6.2        httpcode_0.3.0   
[34] data.table_1.14.2 R6_2.5.1          fansi_1.0.3      
[37] conditionz_0.1.0  solrium_1.2.0     purrr_0.3.4      
[40] magrittr_2.0.3    urltools_1.7.3    codetools_0.2-18 
[43] ellipsis_0.3.2    assertthat_0.2.1  bold_1.2.0       
[46] taxize_0.9.100    ape_5.6-2         utf8_1.2.2       
[49] stringi_1.7.8     crayon_1.5.1      zoo_1.8-10  
@IREdwards27
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I'm having the same issue with get_tsn and classification. Classification works if the input is a TSN, but fails with the same 404 error if a taxon name is used. I tested it with Phrurotimpus alarius, Polistes fuscatus, Gorilla gorilla, and Elateridae.

@rewcook
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rewcook commented Jul 18, 2022

I know this isn't a 'taxize' solution, and if the package authors would like to remove this work-around please do!

# install.packages('ritis')
# install.packages('tidyverse')

library(tidyverse)

input_vector %>%
    str_replace(., ' ', '\\\\\ ') %>%
    paste0('nameWOInd:', .) %>%
    map_df(., ~ritis::itis_search(q = .))

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