ropensci / rcrossref

R client for various CrossRef APIs
https://docs.ropensci.org/rcrossref
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Cannot retrieve works ("application/json;charset=UTF-8" is not TRUE) #230

Closed BEFH closed 1 year ago

BEFH commented 2 years ago
Session Info ```r > sessionInfo() R version 4.1.1 (2021-08-10) Platform: x86_64-apple-darwin17.0 (64-bit) Running under: macOS Big Sur 10.16 Matrix products: default BLAS: /Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libRblas.0.dylib LAPACK: /Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libRlapack.dylib locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] rcrossref_1.1.0 loaded via a namespace (and not attached): [1] Rcpp_1.0.8.3 compiler_4.1.1 pillar_1.6.2 later_1.3.0 plyr_1.8.7 tools_4.1.1 digest_0.6.28 jsonlite_1.7.2 lifecycle_1.0.1 tibble_3.1.4 pkgconfig_2.0.3 [12] rlang_0.4.11 shiny_1.7.0 DBI_1.1.1 crul_1.2.0 curl_4.3.2 fastmap_1.1.0 xml2_1.3.2 stringr_1.4.0 dplyr_1.0.7 generics_0.1.0 vctrs_0.3.8 [23] htmlwidgets_1.5.4 triebeard_0.3.0 DT_0.19 tidyselect_1.1.1 glue_1.4.2 httpcode_0.3.0 R6_2.5.1 fansi_0.5.0 purrr_0.3.4 magrittr_2.0.1 urltools_1.7.3 [34] promises_1.2.0.1 ellipsis_0.3.2 htmltools_0.5.2 assertthat_0.2.1 mime_0.11 xtable_1.8-4 httpuv_1.6.3 utf8_1.2.2 stringi_1.7.4 miniUI_0.1.1.1 crayon_1.4.1 ```

When I attempt to run cr_works(), it fails with the following error:

> cr_works(dois = "10.1371/journal.pone.0228782")
Error in cr_GET(endpoint = path, args, todf = FALSE, ...) :
  res$response_headers$`content-type` == "application/json;charset=UTF-8" is not TRUE

No DOI or URL works. Did CrossRef change their API?

agricolamz commented 1 year ago

Same here...

> cr_cn(dois = "10.1371/journal.pone.0112608", format = "text", style = "apa")
Error in cr_GET(endpoint = sprintf("works/%s/agency", x), args = list(),  : 
  res$response_headers$`content-type` == "application/json;charset=UTF-8" is not TRUE

I added my mail to ~/.Renviron

``` R version 4.2.1 (2022-06-23) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Linux Mint 20.3 Matrix products: default BLAS: /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3 locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=ru_RU.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] rcrossref_1.1.0.99 forcats_0.5.1 stringr_1.4.0 dplyr_1.0.9 purrr_0.3.4 readr_2.1.2 [7] tidyr_1.2.0 tibble_3.1.8 ggplot2_3.3.6 tidyverse_1.3.1 loaded via a namespace (and not attached): [1] Rcpp_1.0.9 lubridate_1.8.0 prettyunits_1.1.1 ps_1.7.1 rprojroot_2.0.3 assertthat_0.2.1 [7] digest_0.6.29 utf8_1.2.2 mime_0.12 R6_2.5.1 cellranger_1.1.0 plyr_1.8.7 [13] backports_1.4.1 reprex_2.0.1 httr_1.4.3 pillar_1.8.0 rlang_1.0.4 curl_4.3.2 [19] readxl_1.4.0 rstudioapi_0.13 miniUI_0.1.1.1 callr_3.7.0 DT_0.23 urltools_1.7.3 [25] htmlwidgets_1.5.4 triebeard_0.3.0 munsell_0.5.0 shiny_1.7.2 broom_0.8.0 compiler_4.2.1 [31] httpuv_1.6.5 modelr_0.1.8 pkgconfig_2.0.3 pkgbuild_1.3.1 htmltools_0.5.3 tidyselect_1.1.2 [37] httpcode_0.3.0 fansi_1.0.3 crayon_1.5.1 tzdb_0.3.0 dbplyr_2.2.0 withr_2.5.0 [43] later_1.3.0 crul_1.2.0 grid_4.2.1 jsonlite_1.8.0 xtable_1.8-4 gtable_0.3.0 [49] lifecycle_1.0.1 DBI_1.1.3 magrittr_2.0.3 scales_1.2.0 cli_3.3.0 stringi_1.7.8 [55] remotes_2.4.2 fs_1.5.2 promises_1.2.0.1 xml2_1.3.3 ellipsis_0.3.2 generics_0.1.3 [61] vctrs_0.4.1 tools_4.2.1 glue_1.6.2 hms_1.1.1 processx_3.6.1 fastmap_1.1.0 [67] colorspace_2.0-3 sessioninfo_1.2.2 rvest_1.0.2 haven_2.5.0 ```
dansmith01 commented 1 year ago

The development version (1.1.0.99) is working for me. The one on CRAN (1.1.0) is giving me the same error that @BEFH and @agricolamz reported.

Aariq commented 1 year ago

I had this issue and tracked it down to a problem with capitalization of "UTF" not matching what was expected ("utf"). But it looks like it's fixed in the development version on GitHub

theamarks commented 1 year ago

Hi All, I am having the same issue using the CRAN 1.1.0 version. Can you point me to the development version that is working? I tried devtools::install_github("ropensci/rcrossref@api_update") with no luck. Where are the development versions listed?

Aariq commented 1 year ago

If you just use devtools::install_github("ropensci/rcrossref") it will install the current development version.

Aariq commented 1 year ago

@njahn82, it might be good to make a patch release for CRAN if this fix isn't in the CRAN version yet

jdblischak commented 1 year ago

if this fix isn't in the CRAN version yet

This fix isn't on CRAN yet. See also https://github.com/ropensci/rcrossref/issues/221#issuecomment-999800245

Related to a CRAN update, the package is currently failing CRAN checks, so it is in risk of being archived

https://cran.r-project.org/web/checks/check_results_rcrossref.html

njahn82 commented 1 year ago

New CRAN release 1.2.0 fixes this issue.