Oyster_run_sec5

String of full name (including extension!) of the CSV
 file that contains information about the phases in the map

phases_name

String of full name of the BMP that needs to be imported,
 excluding extension

image_name

Extention of phase map file ("BMP" or "TIF")

image_ext

Function that combines all functions in Step 5 of the bivalve
 trace element model and runs them consecutively given the right input.
 de Winter, N. J. (2017) &lt;doi:10.5194/gmd-2017-137&gt;

Contains all the formulae of the growth and trace element uptake model described in the equally-named
Geoscientific Model Development paper (de Winter, 2017, <doi:10.5194/gmd-2017-137>). The model takes as input a file with X- and Y-coordinates of digitized
growth increments recognized on a longitudinal cross section through the bivalve shell, as well as a BMP file of an elemental map of the
cross section surface with chemically distinct phases separated by phase analysis. It proceeds by a step-by-step process described in
the paper, by which digitized growth increments are used to calculate changes in shell height, shell thickness, shell volume, shell mass
and shell growth rate through the bivalve's life time. Then, results of this growth modelling are combined with the trace element mapping
results to trace the incorporation of trace elements into the bivalve shell. Results of various modelling parameters can be exported in
the form of XLSX files.

Oyster_run_sec5: Runs complete Step 5 of the trace element model

Description

Usage

Arguments

Value

Details

References