@VincyaneBadouard,
I am looking into TwoValDiameterCor.
Shouldn't the example fill in the NA's in DBHCor?
> library(data.table)
> data(TestData)
>
> DataTree <- TestData[IdTree %in% "100771"]
> DataTree <- DataTree[order(Year)] # order de dt
>
> DataTree$Diameter <- c(NA, 13, NA, 8, NA)
>
> DBHCor <- DataTree$Diameter
> Time <- DataTree$Year
>
> TwoValDiameterCor(DataTree,
+ Data = TestData,
+ DBHCor, Time,
+ CorrectionType = "phylogenetic hierarchical",
+ DBHRange = 10,
+ MinIndividualNbr = 1, OtherCrit = NULL, DetectOnly = F)
$DBHCor
[1] NA 13.00000 NA 13.05938 NA
$DataTree
MinDBH IdCensus Year Month Day Date Site Cluster Plot PlotViewID Subplot PlotArea PlotElevation SubplotArea PlotLat PlotLon
1: 10.03 2016 2016 9 14 2016-09-14 Paracou <NA> 6 <NA> 1 6.25 NA 0 NA NA
2: 10.03 2017 2017 7 19 2017-07-19 Paracou <NA> 6 <NA> 1 6.25 NA 0 NA NA
3: 10.03 2018 2018 7 8 2018-07-08 Paracou <NA> 6 <NA> 1 6.25 NA 0 NA NA
4: 10.03 2019 2019 6 7 2019-06-07 Paracou <NA> 6 <NA> 1 6.25 NA 0 NA NA
5: 10.03 2020 2020 6 4 2020-06-04 Paracou <NA> 6 <NA> 1 6.25 NA 0 NA NA
XPlotUTM YPlotUTM SubplotLat SubplotLon XSubplotUTM YSubplotUTM ScientificName VernName Family Genus Species
1: NA NA NA NA NA NA Eschweilera decolorans maho noir Lecythidaceae Eschweilera decolorans
2: NA NA NA NA NA NA Eschweilera decolorans maho noir Lecythidaceae Eschweilera decolorans
3: NA NA NA NA NA NA Eschweilera decolorans maho noir Lecythidaceae Eschweilera decolorans
4: NA NA NA NA NA NA Eschweilera decolorans maho noir Lecythidaceae Eschweilera decolorans
5: NA NA NA NA NA NA Eschweilera decolorans maho noir Lecythidaceae Eschweilera decolorans
Subspecies Variety Voucher IdLevel Authority CommercialSp LifeForm TreeFieldNum IdTree StemFieldNum IdStem TreeLat TreeLon XTreeUTM
1: <NA> <NA> <NA> <NA> <NA> FALSE tree 154 100771 <NA> 100771_1_auto NA NA NA
2: <NA> <NA> <NA> <NA> <NA> FALSE tree 154 100771 <NA> 100771_1_auto NA NA NA
3: <NA> <NA> <NA> <NA> <NA> FALSE tree 154 100771 <NA> 100771_1_auto NA NA NA
4: <NA> <NA> <NA> <NA> <NA> FALSE tree 154 100771 <NA> 100771_1_auto NA NA NA
5: <NA> <NA> <NA> <NA> <NA> FALSE tree 154 100771 <NA> 100771_1_auto NA NA NA
YTreeUTM XTreePlot YTreePlot XTreeSubplot YTreeSubplot LifeStatus Diameter BD Circ BCirc HOM POM BHOM BPOM TreeHeight TreeFieldNumOriginal
1: NA NA NA NA NA TRUE NA NA 94.5 NA 1.3 <NA> NA <NA> NA 154
2: NA NA NA NA NA TRUE 13 NA 94.5 NA 1.3 <NA> NA <NA> NA 154
3: NA NA NA NA NA TRUE NA NA 94.5 NA 1.3 <NA> NA <NA> NA 154
4: NA NA NA NA NA TRUE 8 NA 94.5 NA 1.3 <NA> NA <NA> NA 154
5: NA NA NA NA NA TRUE NA NA 94.5 NA 1.3 <NA> NA <NA> NA 154
IdTreeOriginal CommercialSpOriginal DateOriginal LifeStatusOriginal Comment DiameterCorrectionMeth DBHCor
1: 100771 FALSE 2016-09-14 TRUE NA
2: 100771 FALSE 2017-07-19 TRUE 13.00000
3: 100771 FALSE 2018-07-08 TRUE NA
4: 100771 FALSE 2019-06-07 TRUE Abnormal diameter value species 13.05938
5: 100771 FALSE 2020-06-04 TRUE NA
Warning message:
In `[.data.table`(DataTree, , `:=`(DBHCor, DBHCor)) :
Invalid .internal.selfref detected and fixed by taking a (shallow) copy of the data.table so that := can add this new column by
reference. At an earlier point, this data.table has been copied by R (or was created manually using structure() or similar). Avoid
names<- and attr<- which in R currently (and oddly) may copy the whole data.table. Use set* syntax instead to avoid copying: ?set, ?
setnames and ?setattr. If this message doesn't help, please report your use case to the data.table issue tracker so the root cause can
be fixed or this message improved.
@VincyaneBadouard, I am looking into
TwoValDiameterCor. Shouldn't the example fill in the NA's in DBHCor?