WOA nitrate Climatology
David Stappard & Jens Daniel Müller
13 May, 2024
Last updated: 2024-05-13
Checks: 7 0
Knit directory:
bgc_argo_r_argodata/analysis/
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Task
This script loads the nitrate climatology as described in Garcia et al. (2018). The climatology netCDF has previously been downloaded. The lat and lon fields are harmonised to our requirements, i.e -89.5 ≥ lat ≤ 89.5 and 20.5 ≥ lon ≤ 379.5.
Garcia, H. E., K. Weathers, C. R. Paver, I. Smolyar, T. P. Boyer, R. A. Locarnini, M. M. Zweng, A. V. Mishonov, O. K. Baranova, D. Seidov, and J. R. Reagan, 2018. World Ocean Atlas 2018, Volume 4: Dissolved Inorganic Nutrients (phosphate, nitrate and nitrate+nitrite, silicate). A. Mishonov Technical Ed.; NOAA Atlas NESDIS 84, 35pp.
Dependencies
WOA nitrate climatology - /nfs/kryo/work/datasets/gridded/ocean/interior/observation/woa/2018/nitrate/all/1.00/woa18_all_n01_01.nc
Outputs (in BGC preprocessed folder)
woa_nitrate_clim.rds
path_argo <- '/nfs/kryo/work/datasets/ungridded/3d/ocean/floats/bgc_argo'
path_argo_preprocessed <- paste0(path_argo, "/preprocessed_bgc_data")
path_WOA_nitrate <-"/nfs/kryo/work/datasets/gridded/ocean/interior/observation/woa/2018/nitrate/all/1.00"
# monthly files of the form woa18_all_nMM_01.nc where MM = 01,....12
theme_set(theme_bw())Read data
Maps
clim_argo_nitrate %>%
filter(depth < 30) %>%
ggplot() +
geom_tile(aes(lon, lat, fill = clim_nitrate)) +
facet_wrap(~depth) +
scale_fill_viridis_c() +
coord_quickmap()
| Version | Author | Date |
|---|---|---|
| fa6cf38 | ds2n19 | 2023-12-14 |
clim_argo_nitrate %>%
ggplot(aes(clim_nitrate)) +
geom_histogram(binwidth = 2) +
facet_wrap(~depth) +
scale_y_log10()
| Version | Author | Date |
|---|---|---|
| fa6cf38 | ds2n19 | 2023-12-14 |
Write data to file
clim_argo_nitrate %>%
drop_na() %>%
write_rds(file = paste0(path_argo_preprocessed, "/woa_nitrate_clim.rds"))
sessionInfo()R version 4.2.2 (2022-10-31)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: openSUSE Leap 15.5
Matrix products: default
BLAS: /usr/local/R-4.2.2/lib64/R/lib/libRblas.so
LAPACK: /usr/local/R-4.2.2/lib64/R/lib/libRlapack.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] stars_0.6-0 sf_1.0-9 abind_1.4-5 oce_1.7-10
[5] gsw_1.1-1 forcats_0.5.2 stringr_1.5.0 dplyr_1.1.3
[9] purrr_1.0.2 readr_2.1.3 tidyr_1.3.0 tibble_3.2.1
[13] ggplot2_3.4.4 tidyverse_1.3.2 workflowr_1.7.0
loaded via a namespace (and not attached):
[1] fs_1.5.2 lubridate_1.9.0 httr_1.4.4
[4] rprojroot_2.0.3 tools_4.2.2 backports_1.4.1
[7] bslib_0.4.1 utf8_1.2.2 R6_2.5.1
[10] KernSmooth_2.23-20 DBI_1.2.2 colorspace_2.0-3
[13] withr_2.5.0 tidyselect_1.2.0 processx_3.8.0
[16] compiler_4.2.2 git2r_0.30.1 cli_3.6.1
[19] rvest_1.0.3 RNetCDF_2.6-1 xml2_1.3.3
[22] labeling_0.4.2 sass_0.4.4 scales_1.2.1
[25] classInt_0.4-8 callr_3.7.3 proxy_0.4-27
[28] digest_0.6.30 rmarkdown_2.18 pkgconfig_2.0.3
[31] htmltools_0.5.8.1 highr_0.9 dbplyr_2.2.1
[34] fastmap_1.1.0 rlang_1.1.1 readxl_1.4.1
[37] rstudioapi_0.15.0 farver_2.1.1 jquerylib_0.1.4
[40] generics_0.1.3 jsonlite_1.8.3 googlesheets4_1.0.1
[43] magrittr_2.0.3 ncmeta_0.3.5 Rcpp_1.0.10
[46] munsell_0.5.0 fansi_1.0.3 lifecycle_1.0.3
[49] stringi_1.7.8 whisker_0.4 yaml_2.3.6
[52] grid_4.2.2 parallel_4.2.2 promises_1.2.0.1
[55] crayon_1.5.2 haven_2.5.1 hms_1.1.2
[58] knitr_1.41 ps_1.7.2 pillar_1.9.0
[61] reprex_2.0.2 glue_1.6.2 evaluate_0.18
[64] getPass_0.2-2 modelr_0.1.10 vctrs_0.6.4
[67] tzdb_0.3.0 httpuv_1.6.6 cellranger_1.1.0
[70] gtable_0.3.1 assertthat_0.2.1 cachem_1.0.6
[73] xfun_0.35 lwgeom_0.2-10 broom_1.0.5
[76] e1071_1.7-12 later_1.3.0 viridisLite_0.4.1
[79] class_7.3-20 googledrive_2.0.0 gargle_1.2.1
[82] units_0.8-0 timechange_0.1.1 ellipsis_0.3.2