Anthropogenic CO2 from 1994 to 2007
Jens Daniel Müller
14 December, 2020
Last updated: 2020-12-14
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Knit directory: emlr_obs_preprocessing/
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| Rmd | 85ab243 | jens-daniel-mueller | 2020-12-11 | including gamma in section |
| html | 5c773fa | jens-daniel-mueller | 2020-12-11 | Build site. |
| Rmd | 7aaabdf | jens-daniel-mueller | 2020-12-11 | include gamma with G19, rebuild all |
| html | ca93c87 | jens-daniel-mueller | 2020-12-03 | Build site. |
| Rmd | 7befaf7 | jens-daniel-mueller | 2020-12-03 | rebuild with layered cant inventory function |
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| Rmd | 2f37595 | jens-daniel-mueller | 2020-11-27 | first rebuild after splitting the preprocessing part |
| Rmd | 92e10aa | Jens Müller | 2020-11-27 | Initial commit |
| html | 92e10aa | Jens Müller | 2020-11-27 | Initial commit |
1 Data source
- Anthropogenic CO2 estimates (1994-2007) by Gruber et al. (2019) downloaded in August 2020 from NOAA/NCEI Ocean Carbon Data System (OCADS)
2 Read ncdfs
2.1 Public data sets
The publicly available data sets contain only positive Cant estimates.
dcant <- tidync(paste(
path_gruber_2019,
"dcant_emlr_cstar_gruber_94-07_vs1.nc",
sep = ""
))
#dcant$grid$variables
# read gamma field
dcant <- dcant %>% activate(GAMMA_DENS)
dcant_gamma <- dcant %>% hyper_tibble()
# read delta cant field
dcant <- dcant %>% activate(DCANT_01)
dcant <- dcant %>% hyper_tibble()
# join fields
dcant <- left_join(dcant, dcant_gamma)
# harmonize column names and coordinates
dcant <- dcant %>%
rename(lon = LONGITUDE,
lat = LATITUDE,
depth = DEPTH,
gamma = GAMMA_DENS,
cant_pos = DCANT_01) %>%
mutate(lon = if_else(lon < 20, lon + 360, lon))
rm(dcant_gamma)dcant_inv <- tidync(paste(
path_gruber_2019,
"inv_dcant_emlr_cstar_gruber_94-07_vs1.nc",
sep = ""
))
dcant_inv <- dcant_inv %>% activate(DCANT_INV01)
dcant_inv <- dcant_inv %>% hyper_tibble()
# harmonize column names and coordinates
dcant_inv <- dcant_inv %>%
rename(lon = LONGITUDE,
lat = LATITUDE,
cant_pos_inv = DCANT_INV01) %>%
mutate(lon = if_else(lon < 20, lon + 360, lon)) %>%
mutate(eras = "JGOFS_GO")2.2 Raw data
Internally available data sets also contain negative Cant estimates, as they are contained in the “raw” output of the eMLR mapping step.
V101 <- tidync(paste(path_gruber_2019,
"Cant_V101new.nc",
sep = ""))
V101 <- V101 %>% activate(Cant)
V101 <- V101 %>% hyper_tibble()
# harmonize column names and coordinates
V101 <- V101 %>%
rename(lon = longitude,
lat = latitude,
cant = Cant) %>%
filter(cant != -999) %>%
mutate(lon = if_else(lon < 20, lon + 360, lon))3 Apply basin mask
# use only three basin to assign general basin mask
# ie this is not specific to the MLR fitting
basinmask <- basinmask %>%
filter(MLR_basins == "2") %>%
select(lat, lon, basin_AIP)
dcant <- inner_join(dcant, basinmask)
dcant_inv <- inner_join(dcant_inv, basinmask)
V101 <- inner_join(V101, basinmask)4 Join pos and all Cant
cant_3d <- inner_join(dcant, V101)
cant_3d <- cant_3d %>%
mutate(eras = "JGOFS_GO")
rm(dcant, V101)5 Zonal mean section
cant_zonal <- m_zonal_mean_section(cant_3d)6 Column inventory
6.1 From 3d fields
cant_inv_layers <- m_cant_inv(cant_3d)
cant_inv <- cant_inv_layers %>%
filter(inv_depth == params_global$inventory_depth_standard)6.1.1 Cant - all
p_map_cant_inv(
df = cant_inv,
var = "cant_inv",
col = "divergent")
6.2 From pubished inventory data
p_map_cant_inv(
df = dcant_inv,
var = "cant_pos_inv")
6.3 Published - 3d
cant_offset <- inner_join(
cant_inv %>% rename(cant_re = cant_pos_inv),
dcant_inv %>% rename(cant_pub = cant_pos_inv)
)
cant_offset <- cant_offset %>%
mutate(delta_cant = cant_re - cant_pub)
p_map_cant_inv_offset(df = cant_offset,
var = "delta_cant",
breaks = seq(-3,3,0.25))
rm(cant_offset, dcant_inv)7 Cant 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.
7.1 Horizontal plane maps
7.1.1 All values
p_map_climatology(
df = cant_3d,
var = "cant",
col = "divergent")
7.1.2 Positive values
p_map_climatology(
df = cant_3d,
var = "cant_pos")
7.1.3 Neutral density
p_map_climatology(
df = cant_3d,
var = "gamma")
| Version | Author | Date |
|---|---|---|
| 5c773fa | jens-daniel-mueller | 2020-12-11 |
7.2 Sections basin
7.2.1 All values
p_section_global(
df = cant_3d,
var = "cant",
col = "divergent")
7.3 Sections at regular longitudes
7.3.1 All values
p_section_climatology_regular(
df = cant_3d,
var = "cant",
col = "divergent")
7.3.2 Positive values
p_section_climatology_regular(
df = cant_3d,
var = "cant_pos")
7.3.3 Neutral density
p_section_climatology_regular(
df = cant_3d,
var = "gamma")
| Version | Author | Date |
|---|---|---|
| 5c773fa | jens-daniel-mueller | 2020-12-11 |
8 Write files
cant_3d %>%
write_csv(paste(path_preprocessing,
"G19_cant_3d.csv",
sep = ""))
cant_inv %>%
write_csv(paste(path_preprocessing,
"G19_cant_inv.csv",
sep = ""))
cant_zonal %>%
write_csv(paste(path_preprocessing,
"G19_cant_zonal.csv",
sep = ""))
sessionInfo()R version 4.0.3 (2020-10-10)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: openSUSE Leap 15.1
Matrix products: default
BLAS: /usr/local/R-4.0.3/lib64/R/lib/libRblas.so
LAPACK: /usr/local/R-4.0.3/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] tidync_0.2.4 metR_0.9.0 scico_1.2.0 patchwork_1.1.0
[5] collapse_1.4.2 forcats_0.5.0 stringr_1.4.0 dplyr_1.0.2
[9] purrr_0.3.4 readr_1.4.0 tidyr_1.1.2 tibble_3.0.4
[13] ggplot2_3.3.2 tidyverse_1.3.0 workflowr_1.6.2
loaded via a namespace (and not attached):
[1] httr_1.4.2 viridisLite_0.3.0 jsonlite_1.7.1
[4] modelr_0.1.8 assertthat_0.2.1 blob_1.2.1
[7] cellranger_1.1.0 yaml_2.2.1 pillar_1.4.7
[10] backports_1.1.10 lattice_0.20-41 glue_1.4.2
[13] RcppEigen_0.3.3.7.0 digest_0.6.27 promises_1.1.1
[16] checkmate_2.0.0 rvest_0.3.6 colorspace_2.0-0
[19] htmltools_0.5.0 httpuv_1.5.4 Matrix_1.2-18
[22] pkgconfig_2.0.3 broom_0.7.2 haven_2.3.1
[25] scales_1.1.1 whisker_0.4 later_1.1.0.1
[28] git2r_0.27.1 generics_0.0.2 farver_2.0.3
[31] ellipsis_0.3.1 withr_2.3.0 cli_2.2.0
[34] magrittr_2.0.1 crayon_1.3.4 readxl_1.3.1
[37] evaluate_0.14 fs_1.5.0 ncdf4_1.17
[40] fansi_0.4.1 xml2_1.3.2 RcppArmadillo_0.10.1.2.0
[43] tools_4.0.3 data.table_1.13.2 hms_0.5.3
[46] lifecycle_0.2.0 munsell_0.5.0 reprex_0.3.0
[49] isoband_0.2.2 compiler_4.0.3 RNetCDF_2.4-2
[52] rlang_0.4.9 grid_4.0.3 rstudioapi_0.13
[55] labeling_0.4.2 rmarkdown_2.5 gtable_0.3.0
[58] DBI_1.1.0 R6_2.5.0 ncmeta_0.3.0
[61] lubridate_1.7.9 knitr_1.30 rprojroot_2.0.2
[64] stringi_1.5.3 parallel_4.0.3 Rcpp_1.0.5
[67] vctrs_0.3.5 dbplyr_1.4.4 tidyselect_1.1.0
[70] xfun_0.18