Fixes to carbon accounting and lr2 machine files#174

Merged

bandre-ucar merged 10 commits intoNGEET:masterfrom rgknox:rgknox-leafnpp-diag-fix

Feb 6, 2017

+83-62

Commits on Jan 4, 2017

Potential fix to the negative leaf npp accounting problem. Still working on some diagnostics. Diagnostics are generating a floating point error.
rgknox
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CHanged the carbon accounting to when bleaf(cohort)<=0 to a failure. Added some print statements (temporarily).
rgknox
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Commits on Jan 6, 2017

Bug fix: in copy cohort, npp_acc was not being copied! Now it is. This was leading to NaNs later on in runs and causing lots of problems. I added some numerical inquiry intrinsics to catch bad valu…
rgknox
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Fixed machine file bug for lawrencium-lr2 serial.
rgknox
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Commits on Jan 13, 2017

Trival merge conflict resolution. Both head and master had the bugfix in the copying of npp accumulation during cohort copying.
rgknox
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Commits on Jan 17, 2017

Removal of ieee_ nan and inf checks. There was concern that many compilers have not adopted ieee_ checking functions and we would lose compiler compatibility.
rgknox
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Commits on Jan 19, 2017

A fix was added to properly account for the npp flux to roots and sapwood in cases where there were no leaves. This case was not being triggered in typical testing, as there were no deciduous trees…
rgknox
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Commits on Jan 20, 2017

Commits on Feb 2, 2017

Merge conflicts resolved. Nastiest conflicts were insdie allocate_live_biomass() where the day frequency was updated in master and the head had some pretty drastic overhaul on order of operations.
rgknox
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