.

paper.Rmd

@@ -39,7 +39,7 @@ affiliations:
 
 date: 25 February 2025
 year: 2025
-# bibliography: paper.bib
+bibliography: paper.bib
 csl: apa.csl
 
 # output: github_document
@@ -51,9 +51,6 @@ citation_author: Piñeiro-Juncal et. al.
 ---
 
 
-date: 13 August 2017
-bibliography: paper.bib
-
 
 Correspondence:
 
@@ -112,7 +109,7 @@ Core compaction derived from field extraction can be mathematically correct to e
 
 #### ***estimate_oc*** **- Organic carbon content estimation from organic carbon data**
 
-There is linear correlation between organic carbon and organic matter content. This correlation can change between ecosystems and sampling sites due to changes in organic matter composition among other factors. This function model a linear correlation between organic matter and organic carbon content in your samples and predict the content of organic carbon for those samples were there is no organic carbon values. Estimation of organic carbon is done by means of linear regressions on log(organic carbon) \~ log(organic matter). It gives back a organic carbon value for each organic matter value provided. If there is a organic carbon value for that sample it return the same value, else, generates a model for that site, else, model for specie, else, model for that ecosystem. If a model can not be created due to the low number of samples (\<10) it uses the equations in `Fourqurean:2012` for seagrasses, `Maxwell:2023` for salt marshes and Piñeiro-Juncal in prepp for mangroves to estimate the organic carbon. It is unlikely, but possible, that a model will predict a higher organic carbon than organic matter content. This is not possible in nature. If this is the case the function will give a warning and it is recommended to discard that model.
+There is linear correlation between organic carbon and organic matter content. This correlation can change between ecosystems and sampling sites due to changes in organic matter composition among other factors. This function model a linear correlation between organic matter and organic carbon content in your samples and predict the content of organic carbon for those samples were there is no organic carbon values. Estimation of organic carbon is done by means of linear regressions on log(organic carbon) \~ log(organic matter). It gives back a organic carbon value for each organic matter value provided. If there is a organic carbon value for that sample it return the same value, else, generates a model for that site, else, model for specie, else, model for that ecosystem. If a model can not be created due to the low number of samples (\<10) it uses the equations in `Fourqurean:2012` for seagrasses, @Maxwell_2023 for salt marshes and Piñeiro-Juncal in prepp for mangroves to estimate the organic carbon. It is unlikely, but possible, that a model will predict a higher organic carbon than organic matter content. This is not possible in nature. If this is the case the function will give a warning and it is recommended to discard that model.
 
 #### ***estimate_h*** **- Sample thickness estimation**
 

bluecarbon_ms.bib → paper.bib

@@ -16,7 +16,7 @@ @article{Fourqurean::2012
 	pages = {505--509},
 }
 
-@article{Maxwell::2023,
+@article{Maxwell_2023,
 	title = {Global dataset of soil organic carbon in tidal marshes},
 	volume = {10},
 	issn = {20524463},

paper.log

@@ -0,0 +1,10 @@
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+! warning: kpathsea: configuration file texmf.cnf not found in these directories: C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/share/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/share/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/share/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/share/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/share/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/share/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/texmf/web2c;C:/Users/npjun/AppData/Roaming/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX;C:/Users/npjun/AppData/Roaming/TinyTeX/share/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/share/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/share/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/texmf/web2c.
+
+! kpathsea: Running mktexfmt xelatex.fmt
+
+! The command name is C:\Users\npjun\AppData\Roaming\TinyTeX\bin\windows\mktexfmt
+! warning: kpathsea: configuration file texmf.cnf not found in these directories: C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/share/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/share/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/share/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/share/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/share/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/share/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/texmf/web2c;C:/Users/npjun/AppData/Roaming/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX;C:/Users/npjun/AppData/Roaming/TinyTeX/share/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/share/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/share/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/texmf/web2c.
+! warning: kpathsea: configuration file texmf.cnf not found in these directories: C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/share/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/share/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/share/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/windows/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/share/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/share/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/share/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/bin/texmf/web2c;C:/Users/npjun/AppData/Roaming/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX;C:/Users/npjun/AppData/Roaming/TinyTeX/share/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/share/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/share/texmf/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/texmf-local/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/texmf-dist/web2c;C:/Users/npjun/AppData/Roaming/TinyTeX/texmf/web2c.
+! ...\npjun\AppData\Roaming\TinyTeX\bin\windows\runscript.tlu:942: ...\npjun\AppData\Roaming\TinyTeX\bin\windows\runscript.tlu:865: no appropriate script or program found: fmtutil
+! Running the command C:\Users\npjun\AppData\Roaming\TinyTeX\bin\windows\fmtutil-user.exe