ROCA Files

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\f0\fs24 \cf0 The ROCA biology code is run from within the Hybrid Coordinate Ocean Model. http://hycom.org/\
It is open source, and can be freely downloaded from the above directory. \
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You must download and install a working version of HYCOM prior to inserting the ROCA code within it. \
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Once you have a working ocean model, you must adapt the dimensions.h, initialization and boundary relaxation tracer scripts to initialize the number of organisms desired. You must additionally add enough tracer dimensions to output the transcription array as part of the tracer array (7substrates + number of organisms +number of genes).\
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The thermf.f, and mod_archiv.F codes provide a template for this. \
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You must then initialize the model from scratch using the negative tracer flag in blkdat.input and then for each succeeding year, restart from the saved restart file. \
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To run the GENOME model,\
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you must compile initbiostandalone, \
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This depends on files:\
procrange: which sets some basic ranges for each parameter ensemble. The only ranges used are size and light, the others are set purely allometrically\
geneinput.csv: sets the gene costs and benefits. \
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This will generate a file with thousands of model organisms for input to the model \
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Then run the HYCOM code. \
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