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557 4916d 16h werner /src/ added initialization of snags and some new resource unit variables.
Example: model.initialization node:
<snags>
<swdC>12000</swdC>
<swdCN>120</swdCN>
<swdCount>50</swdCount>
<otherC>4000</otherC>
<otherCN>30</otherCN>
<swdDecompRate>0.05</swdDecompRate>
<woodDecompRate>0.05</woodDecompRate>
<swdHalfLife>30</swdHalfLife>
</snags>		  
553 4917d 21h werner /src/core/ another variant to calculate 're', following Adair et al 2008. Based on monthly sums of precipitation and PET. PET is calculated during the water cycle, monthly precipitation is summed in the climate object itself.  
552 4917d 23h werner /src/ fixed bug when calculating 're' with the day / dayOfMonth confusion. Changed name of the data field to avoid future problems.  
547 4919d 22h werner /src/core/ restructured the topLayerWaterContent setting; it is now RU-specific (and not a global parameter)  
546 4920d 00h werner /src/core/ modified calculation of 're' (decay rate for snags), and added new model setting ('topLayerWaterContent') for that purpose. New variable 'waterDeficit' per day in WaterCycle.  
541 4944d 20h werner /src/ included new setting "model.settings.decayReferencePsi"  
540 4944d 21h werner /src/ removed the storage of rel. water content in water cycle module; changed the way the climate modifier (re) for snag/soil decay is calculated.
Added the coarse wood of died trees to the 5-year decay pattern of branches (and renamed therefore to otherWood).		  
534 4953d 20h werner /src/ large(r) update of the soil model. Now, the 'kyl' and 'kyr' parameters (i.e. decomposition rates for the litter/wood-soil pool) are now species parameters and calculated dynamically from the litter inputs.  
532 4957d 11h werner /src/ force calculation of 're' in Snag even if no snags are present (Soil needs that value later)  
528 4957d 13h werner /src/ more enabling of C/N cycling in iLand. little GUI-feature: click on a RU in resource-unit visualization now properly shows RU-related debug outputs.  
526 4957d 17h werner /src/ embedding the soil model into iLand. renamed the snag decay debug output.  
525 4957d 18h werner /src/ implemented ICBM/2N soil model (class Soil) and some testing code. So far, the results look promising.  
524 4957d 23h werner /src/ some polishing of the snag dynamics and extending the debug output for that.  
523 4958d 12h werner /src/ some updates to the snag-book-keeping and debug outputs  
522 4958d 16h werner /src/core/ updating the snag-concept (to version 5 from RS)  
490 5007d 00h werner /src/core/ added calculation of the climate indicator "re" used for snag dynamics (decay rate).  
477 5009d 21h werner /src/ testing and refining snag dynamics (esp. debug outputs)  
476 5009d 21h werner /src/ added snag debug output to the gui
corrected calculation of branch biomass in Tree		  
475 5009d 22h werner /src/ * Snag dynamics
debug output "SnagDynamics"
life cycle of Snag objects
include Snag Dynamics in newYear / year end routines

* threadrunner.cpp: parallel execution of species related tasks, e.g. the seed dispersal. In the current form, the ThreadRunner is much nicer:
ThreadRunner runner(mActiveSpecies);
runner.run(func_ptr);		  
468 5014d 20h werner /src/ starting the implementation of the snag dynamics submodule.
New class: Snag
added Snag to ResourceUnitSpecies
added links to Snag in Tree