World Ocean Atlas 2013 - D. Clement
Jens Daniel Müller
17 September, 2020
Last updated: 2020-09-17
Checks: 7 0
Knit directory: Cant_eMLR/
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library(tidyverse)
library(patchwork)
library(tidync)
library(reticulate)
library(oce)basinmask <- read_csv(here::here("data/World_Ocean_Atlas_2018/_summarized_files",
"basin_mask_WOA18.csv"))
landmask <- read_csv(here::here("data/World_Ocean_Atlas_2018/_summarized_files",
"land_mask_WOA18.csv"))
section_global_coordinates <-
read_csv(here::here("data",
"section_global_coordinates.csv"))1 Data source
Dominic Clement provided a netcdf file with the basin mask and neutral densities used in Clement and Gruber (2018), both derived from the World Ocean Atlas 2013.
2 Read ncdfs
nd_mask <- tidync(here::here("data/World_Ocean_Atlas_2013_Clement",
"nd_mask.nc"))
nd_mask_tibble <- nd_mask %>% hyper_tibble()
nd_mask_tibble <- nd_mask_tibble %>%
mutate(gamma = if_else(gamma == -999, NaN, gamma)) %>%
drop_na()
nd_mask_tibble <- nd_mask_tibble %>%
rename(lat = latitude,
lon = longitude) %>%
mutate(lon = if_else(lon < 20, lon + 360, lon))3 Apply basin mask
4 Plots
Below, following subsets of the climatologies are plotted for all relevant parameters:
- Horizontal planes at 0, 150, 500, 2000m
- Meridional sections at longitudes: 335.5, 190.5, 70.5
Section locations are indicated as white lines in maps.
4.1 Basin map
Follwoing basin mask is not further used in this project.
nd_mask_tibble %>%
filter(depth == 0) %>%
ggplot(aes(lon, lat, fill = as.factor(mask))) +
geom_raster() +
geom_vline(
xintercept = c(
parameters$lon_Atl_section,
parameters$lon_Pac_section,
parameters$lon_Ind_section
),
col = "white"
) +
coord_quickmap(expand = 0) +
scale_fill_brewer(palette = "Set1",
name = "basin mask") +
theme(legend.position = "top",
axis.title = element_blank())
4.2 Neutral density
4.2.1 Maps
map_climatology(nd_mask_tibble, "gamma")
4.2.2 Sections
section_global(nd_mask_tibble, "gamma")
4.3 Write file
nd_mask_tibble %>%
write_csv(here::here("data/World_Ocean_Atlas_2013_Clement/_summarized_files",
"WOA13_mask_gamma.csv"))
rm(nd_mask, nd_mask_tibble, Atl_lon, Pac_lon, depth_surface_selection)
sessionInfo()R version 4.0.2 (2020-06-22)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 18363)
Matrix products: default
locale:
[1] LC_COLLATE=English_Germany.1252 LC_CTYPE=English_Germany.1252
[3] LC_MONETARY=English_Germany.1252 LC_NUMERIC=C
[5] LC_TIME=English_Germany.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] oce_1.2-0 gsw_1.0-5 testthat_2.3.2 reticulate_1.16
[5] tidync_0.2.4 patchwork_1.0.1 forcats_0.5.0 stringr_1.4.0
[9] dplyr_1.0.0 purrr_0.3.4 readr_1.3.1 tidyr_1.1.0
[13] tibble_3.0.3 ggplot2_3.3.2 tidyverse_1.3.0 workflowr_1.6.2
loaded via a namespace (and not attached):
[1] httr_1.4.2 jsonlite_1.7.0 viridisLite_0.3.0 here_0.1
[5] modelr_0.1.8 assertthat_0.2.1 blob_1.2.1 cellranger_1.1.0
[9] yaml_2.2.1 pillar_1.4.6 backports_1.1.8 lattice_0.20-41
[13] glue_1.4.1 digest_0.6.25 RColorBrewer_1.1-2 promises_1.1.1
[17] rvest_0.3.6 colorspace_1.4-1 htmltools_0.5.0 httpuv_1.5.4
[21] Matrix_1.2-18 pkgconfig_2.0.3 broom_0.7.0 haven_2.3.1
[25] scales_1.1.1 whisker_0.4 later_1.1.0.1 git2r_0.27.1
[29] generics_0.0.2 farver_2.0.3 ellipsis_0.3.1 withr_2.2.0
[33] cli_2.0.2 magrittr_1.5 crayon_1.3.4 readxl_1.3.1
[37] evaluate_0.14 fs_1.4.2 ncdf4_1.17 fansi_0.4.1
[41] xml2_1.3.2 tools_4.0.2 hms_0.5.3 lifecycle_0.2.0
[45] munsell_0.5.0 reprex_0.3.0 isoband_0.2.2 compiler_4.0.2
[49] RNetCDF_2.3-1 rlang_0.4.7 grid_4.0.2 rstudioapi_0.11
[53] labeling_0.3 rmarkdown_2.3 gtable_0.3.0 DBI_1.1.0
[57] R6_2.4.1 ncmeta_0.2.5 lubridate_1.7.9 knitr_1.29
[61] rprojroot_1.3-2 stringi_1.4.6 Rcpp_1.0.5 vctrs_0.3.2
[65] dbplyr_1.4.4 tidyselect_1.1.0 xfun_0.16