Update Zenodo DOI link

NOAA-PMEL · Jun 1, 2022 · 9f1a48f · 9f1a48f
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diff --git a/README.md b/README.md
@@ -1,5 +1,5 @@
 # Argo Toolbox for R (OneArgo-R)
-[![DOI](XXXXX)](XXXXX)
+[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.6604650.svg)](https://doi.org/10.5281/zenodo.6604650)
 
 ## NOTE
 
@@ -11,7 +11,9 @@ This toolbox contains a variety of functions for accessing, processing, and visu
 ## CITATION
 
 Please cite this toolbox as:
-XXXXX
+
+M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. OneArgo-R: An R toolbox for accessing and visualizing Argo data. Zenodo. https://doi.org/10.5281/zenodo.6604650
+
 
 Note: This toolbox is adapted from the [OneArgo-Mat](https://github.com/NOAA-PMEL/OneArgo-Mat) MATLAB Toolbox (H. Frenzel, J. Sharp, A. Fassbender, N. Buzby, 2022. OneArgo-Mat: A MATLAB toolbox for accessing and visualizing Argo data. Zenodo. https://doi.org/10.5281/zenodo.6588041)
 

diff --git a/Tutorial.R b/Tutorial.R
@@ -13,8 +13,8 @@
 #
 # CITATION:
 #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-#   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-#   Zenodo. XXXXX
+#   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+#   Zenodo. https://doi.org/10.5281/zenodo.6604650
 #
 # LICENSE: oneargo_r_license.m
 #

diff --git a/auxil/calc_auxil.R b/auxil/calc_auxil.R
@@ -44,8 +44,8 @@ calc_auxil <- function(Data, calc_dens=0, calc_mld_temp=0, temp_thresh=0.2, calc
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/check_dir.R b/auxil/check_dir.R
@@ -19,8 +19,8 @@ check_dir<-function(ddir) {
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/combine_variables.R b/auxil/combine_variables.R
@@ -24,8 +24,8 @@ combine_variables=function(base_vars, new_vars){
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/depth_interp.R b/auxil/depth_interp.R
@@ -37,8 +37,8 @@ depth_interp <- function(Data, qc_flags,
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/do_download.R b/auxil/do_download.R
@@ -22,8 +22,8 @@ do_download<-function(dest_path) {
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/do_pause.R b/auxil/do_pause.R
@@ -12,8 +12,8 @@ do_pause <-function() {
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/download_float.R b/auxil/download_float.R
@@ -20,8 +20,8 @@ download_float<-function(floatid) {
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/download_multi_floats.R b/auxil/download_multi_floats.R
@@ -20,8 +20,8 @@ download_multi_floats<- function(float_ids) {
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/get_dims.R b/auxil/get_dims.R
@@ -20,12 +20,12 @@ get_dims<- function(filename) {
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #
-  # DATE: JUNE 1, 2022  (Version 1.0.1)  
+  # DATE: JUNE 1, 2022  (Version 1.0.1)
 
 
 

diff --git a/auxil/get_lon_lat_lims.R b/auxil/get_lon_lat_lims.R
@@ -31,12 +31,12 @@ get_lon_lat_lims <- function(Data) {
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #
-  # DATE: JUNE 1, 2022  (Version 1.0.1) 
+  # DATE: JUNE 1, 2022  (Version 1.0.1)
 
 
 

diff --git a/auxil/get_multi_profile_mean.R b/auxil/get_multi_profile_mean.R
@@ -23,8 +23,8 @@ get_multi_profile_mean <- function (Datai, variable) {
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/get_var_name_units.R b/auxil/get_var_name_units.R
@@ -20,8 +20,8 @@ get_var_name_units <- function(short_name){
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/plot_profiles.R b/auxil/plot_profiles.R
@@ -64,8 +64,8 @@ plot_profiles <- function(Data,
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/plot_sections.R b/auxil/plot_sections.R
@@ -61,8 +61,8 @@ plot_sections <- function(Data,
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/plot_time_series.R b/auxil/plot_time_series.R
@@ -50,12 +50,12 @@ plot_time_series <- function(Data,
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #
-  # DATE: JUNE 1, 2022  (Version 1.0.1) 
+  # DATE: JUNE 1, 2022  (Version 1.0.1)
 
   # Remove the floats that show empty variables
   index_non_empty<-NULL

diff --git a/auxil/plot_trajectories.R b/auxil/plot_trajectories.R
@@ -21,8 +21,8 @@ plot_trajectories <- function(Data,
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/select_profiles_per_type.R b/auxil/select_profiles_per_type.R
@@ -56,8 +56,8 @@ select_profiles_per_type <- function(Profiles,
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/auxil/try_download.R b/auxil/try_download.R
@@ -20,8 +20,8 @@ try_download<-function (filename, dest_path) {
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/get_lon_lat_time.R b/get_lon_lat_time.R
@@ -26,8 +26,8 @@ get_lon_lat_time=function(float_ids, float_profs=NULL){
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/initialize_argo.R b/initialize_argo.R
@@ -16,8 +16,8 @@ initialize_argo <- function() {
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/load_float_data.R b/load_float_data.R
@@ -42,8 +42,8 @@ load_float_data <- function (float_ids, variables=NULL, float_profs=NULL,format=
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/select_profiles.R b/select_profiles.R
@@ -77,8 +77,8 @@ select_profiles <- function(lon_lim=c(-180,180),
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/show_profiles.R b/show_profiles.R
@@ -71,8 +71,8 @@ show_profiles=function( float_ids,
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/show_sections.R b/show_sections.R
@@ -55,10 +55,10 @@ show_sections <- function(float_ids=Setting$demo_float,
   #   Quentin Jutard (OSU ECCE TERRA), Raphaelle Sauzede (IMEV) and 
   #   Catherine Schmechtig (OSU ECCE TERRA).
   #
-  # CITATION:
+  ## CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/show_time_series.R b/show_time_series.R
@@ -51,8 +51,8 @@ show_time_series<- function(float_ids=Setting$demo_float,
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #

diff --git a/show_trajectories.R b/show_trajectories.R
@@ -45,8 +45,8 @@ show_trajectories <- function(float_ids=Setting$demo_float,
   #
   # CITATION:
   #   M. Cornec, Y. Huang, Q. Jutard, R. Sauzede, and C. Schmechtig, 2022. 
-  #   OneArgo-R: A R toolbox for accessing and visualizing Argo data.
-  #   Zenodo. XXXXX
+  #   OneArgo-R: An R toolbox for accessing and visualizing Argo data.
+  #   Zenodo. https://doi.org/10.5281/zenodo.6604650
   #
   # LICENSE: oneargo_r_license.m
   #