andrewzm / strbook Goto Github PK

When I tried to install the package I got the warning and error message below. When I did sessionInfo() no STRbook package was listed. I pasted my sessionInfo output below the warning.
How can I install the STRbook package?
Thanks,
Mike

install_github("andrewzm/STRbook")
Downloading GitHub repo andrewzm/STRbook@master
1 [main] tar 12456 find_fast_cwd: WARNING: Couldn't compute FAST_CWD pointer. Please report this problem to
the public mailing list [email protected]
cygwin warning:
MS-DOS style path detected: C:\Users\mmcmanus\AppData\Local\Temp\Rtmp0Q8ou4\file3de02cf17642.tar.gz
Preferred POSIX equivalent is: /cygdrive/c/Users/mmcmanus/AppData/Local/Temp/Rtmp0Q8ou4/file3de02cf17642.tar.gz
CYGWIN environment variable option "nodosfilewarning" turns off this warning.
Consult the user's guide for more details about POSIX paths:
http://cygwin.com/cygwin-ug-net/using.html#using-pathnames
Error: Does not appear to be an R package (no DESCRIPTION)

sessionInfo()
R version 3.4.3 (2017-11-30)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows >= 8 x64 (build 9200)

Matrix products: default

locale:
[1] LC_COLLATE=English_United States.1252
[2] LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C
[5] LC_TIME=English_United States.1252

attached base packages:
[1] stats graphics grDevices utils datasets methods base

other attached packages:
[1] usethis_1.4.0 devtools_2.0.1

loaded via a namespace (and not attached):
[1] Rcpp_1.0.0 rstudioapi_0.9.0 knitr_1.21
[4] magrittr_1.5 pkgload_1.0.2 R6_2.2.2
[7] rlang_0.3.1 tools_3.4.3 pkgbuild_1.0.2
[10] xfun_0.3 sessioninfo_1.1.1 cli_1.0.1
[13] withr_2.1.2 remotes_2.0.2 yaml_2.2.0
[16] assertthat_0.2.0 digest_0.6.16 rprojroot_1.3-2
[19] crayon_1.3.4 processx_3.2.0 callr_2.0.4
[22] fs_1.2.6 ps_1.1.0 curl_3.2
[25] testthat_2.0.0 glue_1.3.0 memoise_1.1.0
[28] compiler_3.4.3 desc_1.2.0 backports_1.1.2
[31] prettyunits_1.0.2

Excuse me, sorry to bother you. I have met a question when coding.as the code follows.
<loc<-read.csv("F:/1Guichi1991-2015/schdata.SU/location.csv")
<date<-read.csv("F:/1Guichi1991-2015/schdata.SU/date.csv")
<data<-read.csv("F:/1Guichi1991-2015/schdata.SU/data.csv")
 
<library("dplyr")
<library("tidyr")
<library("STRbook")
<library("sp")
<library("spacetime")
 
#STFDF
<spat_part <- SpatialPoints(coords = loc[,c("lon", "lat")])
 
<date$time<-as.character(date$time) 
<temp_part<-date$time   
<temp_part <- as.Date(temp_part)
<class(date$time)
 
<data$VillageID<-as.integer(data$VillageID)
<all(unique(data$VillageID) == loc$VillageID)
<STOBJ1<- STFDF(sp = spat_part,
               time = temp_part,
               data = data)
 
<proj4string(STOBJ1) <- CRS("+proj=longlat +ellps=WGS84")
<library(gstat)
<vv<-variogram(object=p~1,  
              data=STOBJ1,
              width=2,  
              cutoff=28,
              tlags=0.01:6.1,tunit="days")
 
<plot(vv)
#separable model
<sepVgm <- vgmST(stModel = "separable",    
                space = vgm(10, "Exp", 400, nugget = 0.1),
                time = vgm(10, "Exp", 1, nugget = 0.1),
                sill = 20)  
<sepVgm <- fit.StVariogram(vv, sepVgm)
 ##Error in vgmST("separable", space = vgm(1 - par[2], as.character(model$space$model[2]), :
"sill" must be positive.
I can find the problem with my exercise data, could you please help me?
<spat_pred_grid<- expand.grid(
< lon = seq(117, 118, length = 20),
< lat = seq(30, 31, length = 20)) %>%
< SpatialPoints(proj4string = CRS(proj4string(STOBJ1)))
<gridded(spat_pred_grid) <- TRUE
 
<temp_pred_grid <- as.Date("1991-06-01") + seq(1, 6, length = 6)
 
 
<DE_pred<- STF(sp = spat_pred_grid,
                time = temp_pred_grid)
 
<STOBJ1 <- as(STOBJ1[,"1991-06-01::1991-06-25"], "STIDF")
 
<STOBJ1 <- subset(STOBJ1, !is.na(STOBJ1$p))
 
<pred_kriged <- krigeST(p ~ #1,
                       data = STOBJ1,
                       newdata = DE_pred, # prediction grid
                       modelList = sepVgm, # semivariogram
                       computeVar = TRUE)
 ##Error in chol.default(A) : the leading minor of order 88 is not positive definite

Hi,
I tried installing the STRbook but the following error repeats.
Can you please help me with this error?

Thanks in advance

Nitheshnirmal

devtools::install_github("andrewzm/STRbook")

Downloading GitHub repo andrewzm/STRbook@HEAD
andrewzm-STRbook-347d7e0/data/IDE_Sim2_results.rda: truncated gzip input
tar.exe: Error exit delayed from previous errors.
Error: Failed to install 'unknown package' from GitHub:
Does not appear to be an R package (no DESCRIPTION)
In addition: Warning messages:
1: In utils::untar(tarfile, ...) :
‘tar.exe -xf "C:\Users\Nivi\AppData\Local\Temp\RtmpgTKue0\file3b9ca2e18d7.tar.gz" -C "C:/Users/Nivi/AppData/Local/Temp/RtmpgTKue0/remotes3b9cce259c3"’ returned error code 1
2: In system(cmd, intern = TRUE) :
running command 'tar.exe -tf "C:\Users\Nivi\AppData\Local\Temp\RtmpgTKue0\file3b9ca2e18d7.tar.gz"' had status 1

The package is no longer available on the CRAN repository and I couldn't get the content available here (github) to work as a valid package. Any recommendations? are updates available elsewhere?
Thank you.