From 24332f443ce1a307c08c90ee26eaf2b418d33cab Mon Sep 17 00:00:00 2001 From: kongdd Date: Wed, 1 Jan 2025 11:36:54 +0000 Subject: [PATCH] =?UTF-8?q?Deploying=20to=20gh-pages=20from=20@=20rpkgs/RE?= =?UTF-8?q?ddyProc@eb2a4c83e2ae1e546243bea8639ae0c268234327=20=F0=9F=9A=80?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit --- pkgdown.yml | 2 +- ...ctangularLRCFitter_computeLRCGradient.html | 10 +- ...tangularLRCFitterCVersion_computeCost.html | 171 ++++++++++++++++++ ...ctangularLRCFitter_computeGPPGradient.html | 129 +++++++++++++ reference/fWriteDataframeToFile.html | 4 +- reference/index.html | 8 + sitemap.xml | 2 + 7 files changed, 318 insertions(+), 8 deletions(-) create mode 100644 reference/RectangularLRCFitterCVersion_computeCost.html create mode 100644 reference/RectangularLRCFitter_computeGPPGradient.html diff --git a/pkgdown.yml b/pkgdown.yml index 394a991..f92b242 100644 --- a/pkgdown.yml +++ b/pkgdown.yml @@ -8,4 +8,4 @@ articles: gapFilling: gapFilling.html useCase: useCase.html uStarCases: uStarCases.html -last_built: 2025-01-01T09:19Z +last_built: 2025-01-01T11:31Z diff --git a/reference/NonrectangularLRCFitter_computeLRCGradient.html b/reference/NonrectangularLRCFitter_computeLRCGradient.html index 664636c..e7ebcfd 100644 --- a/reference/NonrectangularLRCFitter_computeLRCGradient.html +++ b/reference/NonrectangularLRCFitter_computeLRCGradient.html @@ -83,7 +83,7 @@

Gradient of [NonrectangularLRCFitter_predictLRC()]

Rg, VPD, Temp, - VPD0, + VPD0 = 10, fixVPD = (k == 0), TRef = 15 ) @@ -110,6 +110,10 @@

Arguments

Vapor Pressure Deficit [hPa]

+
Temp
+

Temperature [degC]

+ +
VPD0

[hPa] -> Parameters VPD0 fixed to 10 hPa according to Lasslop et al 2010

@@ -125,10 +129,6 @@

Arguments

numeric scalar of Temperature (degree Celsius) for reference respiration `RRef`

- -
Temp
-

Temperature [degC]

-

Details

diff --git a/reference/RectangularLRCFitterCVersion_computeCost.html b/reference/RectangularLRCFitterCVersion_computeCost.html new file mode 100644 index 0000000..4a0b3b6 --- /dev/null +++ b/reference/RectangularLRCFitterCVersion_computeCost.html @@ -0,0 +1,171 @@ + +Computing residual sum of squares for predictions vs. data of NEE — RectangularLRCFitterCVersion_computeCost • REddyProc + + +
+
+ + + +
+
+
+

Computing residual sum of squares for predictions vs. data of NEE

+ Source: R/LRC_rectangular.R + +
+ +
+

Computing residual sum of squares for predictions vs. data of NEE

+
+ +
+ 
RectangularLRCFitterCVersion_computeCost(
+  thetaOpt,
+  theta,
+  iOpt,
+  flux,
+  sdFlux,
+  parameterPrior,
+  sdParameterPrior,
+  ...,
+  VPD0 = 10,
+  fixVPD = (k == 0)
+)
+
+ +
+

Arguments

+ + +
thetaOpt
+

parameter vector with components of theta0 that are optimized

+ + +
theta
+

parameter vector with positions as in argument of +[LightResponseCurveFitter_getParameterNames()]

+ + +
iOpt
+

position in theta that are optimized

+ + +
flux
+

numeric: NEP (-NEE) or GPP time series [umolCO2 / m2 / s], +should not contain NA

+ + +
sdFlux
+

numeric: standard deviation of Flux [umolCO2 / m2 / s], +should not contain NA

+ + +
parameterPrior
+

numeric vector along theta: prior estimate of +parameter (range of values)

+ + +
sdParameterPrior
+

standard deviation of parameterPrior

+ + +
...
+

other arguments to +[LightResponseCurveFitter_predictLRC], such as VPD0, fixVPD

+ + +
VPD0
+

VPD0 [hPa] -> Parameters VPD0 fixed to 10 hPa according +to Lasslop et al 2010

+ + +
fixVPD
+

boolean scalar or vector of nrow theta:fixVPD +if TRUE the VPD effect is not considered and VPD is not +part of the computation

+ +
+ +
+ +
+ + +
+

Developed by Thomas Wutzler, Markus Reichstein, Antje Maria Moffat, Mirco Migliavacca.

+
+ +
+

Site built with pkgdown 2.1.1.

+
+ +
+ + + + + + + + diff --git a/reference/RectangularLRCFitter_computeGPPGradient.html b/reference/RectangularLRCFitter_computeGPPGradient.html new file mode 100644 index 0000000..2146646 --- /dev/null +++ b/reference/RectangularLRCFitter_computeGPPGradient.html @@ -0,0 +1,129 @@ + +RectangularLRCFitter_computeGPPGradient — RectangularLRCFitter_computeGPPGradient • REddyProc + + +
+
+ + + +
+
+
+

RectangularLRCFitter_computeGPPGradient

+ Source: R/LRC_rectangular.R + +
+ +
+

RectangularLRCFitter_computeGPPGradient

+
+ +
+ 
RectangularLRCFitter_computeGPPGradient(Rg, Amax, alpha)
+
+ +
+

Arguments

+ + +
Rg
+

[numeric] ppfd -> photosynthetic flux density [mumol / m2 / s] or Global Radiation

+ + +
Amax
+

[numeric] saturation (beta parameter) adjusted for effect of VPD

+ + +
alpha
+

[numeric] slope at Rg = 0

+ +
+
+

Value

+

numeric matrix (length(Rg), 2) of gradients of predicted GPP +to Amax and alpha

+
+ +
+ +
+ + +
+

Developed by Thomas Wutzler, Markus Reichstein, Antje Maria Moffat, Mirco Migliavacca.

+
+ +
+

Site built with pkgdown 2.1.1.

+
+ +
+ + + + + + + + diff --git a/reference/fWriteDataframeToFile.html b/reference/fWriteDataframeToFile.html index 5d5ac44..d9b7917 100644 --- a/reference/fWriteDataframeToFile.html +++ b/reference/fWriteDataframeToFile.html @@ -135,10 +135,10 @@

See also

Examples

(Dir <- tempdir())   # directory where output is written to
-#> [1] "/tmp/RtmpVUPscj"
+#> [1] "/tmp/Rtmp4aCLzs"
 fWriteDataframeToFile(Example_DETha98, 'OutputTest.txt', Dir = Dir)
 #> Number of NA convertered to '-9999': 11657
-#> Wrote tab separated textfile: /tmp/RtmpVUPscj/OutputTest.txt
+#> Wrote tab separated textfile: /tmp/Rtmp4aCLzs/OutputTest.txt
diff --git a/reference/index.html b/reference/index.html index ba04d55..280767d 100644 --- a/reference/index.html +++ b/reference/index.html @@ -227,6 +227,14 @@

All functions RectangularLRCFitterCVersion()

RectangularLRCFitterCVersion

+ +

RectangularLRCFitterCVersion_computeCost()

+ +

Computing residual sum of squares for predictions vs. data of NEE

+ +

RectangularLRCFitter_computeGPPGradient()

+ +

RectangularLRCFitter_computeGPPGradient

RectangularLRCFitter_predictGPP()

diff --git a/sitemap.xml b/sitemap.xml index d7ee413..b941edf 100644 --- a/sitemap.xml +++ b/sitemap.xml @@ -48,6 +48,8 @@ /reference/RectangularLRCFitter.html /reference/RectangularLRCFitterCVersion-class.html /reference/RectangularLRCFitterCVersion.html +/reference/RectangularLRCFitterCVersion_computeCost.html +/reference/RectangularLRCFitter_computeGPPGradient.html /reference/RectangularLRCFitter_predictGPP.html /reference/estimate_vpd_from_dew.html /reference/extract_FN15.html