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b/instat/static/InstatObject/R/RPackages/ggfortify_0.1.0.tar.gz new file mode 100644 index 00000000000..94ddd6de384 Binary files /dev/null and b/instat/static/InstatObject/R/RPackages/ggfortify_0.1.0.tar.gz differ diff --git a/instat/static/InstatObject/R/Rsetup.R b/instat/static/InstatObject/R/Rsetup.R index 80a50b11491..16ac47dd463 100644 --- a/instat/static/InstatObject/R/Rsetup.R +++ b/instat/static/InstatObject/R/Rsetup.R @@ -1,4 +1,11 @@ -# Necessary libraries for the data object +# Necessary packages for the Instat Object +packs <- c("openxlsx", "reshape2", "lubridate","plyr", "rtf", "ggplot2", "extRemes", "GGally", "CCA", "plotrix", "agridat", "DAAG", "FactoMineR", "plotrix", "agridat", "candisc", "R6", "openair", "circular", "survival", "Evapotranspiration", "clifro", "devtools", "factoextra", "circlize", "CircStats", "proto", "tidyr", "gridExtra", "tidyr", "gridExtra", "scales", "proto") +# Packages including dependencies (generated from miniCRAN package, excluding ggfortify which is not on CRAN) +packs <- c("abind", "agridat", "assertthat", "BH", "bitops", "boot", "candisc", "car", "CCA", "chron", "circlize", "CircStats", "circular", "clifro", "cluster", "colorspace", "curl", "DAAG", "data.table", "DBI", "dendextend", "devtools", "dichromat", "digest", "distillery", "dplyr", "ellipse", "evaluate", "Evapotranspiration", "extRemes", "factoextra", "FactoMineR", "fda", "fields", "flashClust", "formatR", "GGally", "ggplot2", "ggrepel", "git2r", "GlobalOptions", "gridExtra", "gtable", "heplots", "hexbin", "highr", "httr", "jsonlite", "knitr", "labeling", "lattice", "latticeExtra", "lazyeval", "leaps", "lme4", "Lmoments", "lubridate", "magrittr", "mapdata", "mapproj", "maps", "markdown", "MASS", "Matrix", "MatrixModels", "memoise", "mgcv", "mime", "minqa", "munsell", "nlme", "nloptr", "nnet", "openair", "openssl", "openxlsx", "pbkrtest", "plotrix", "plyr", "png", "proto", "quantreg", "R.methodsS3", "R.oo", "R6", "RColorBrewer", "Rcpp", "RcppEigen", "RCurl", "reshape", "reshape2", "RgoogleMaps", "RJSONIO", "rstudioapi", "rtf", "scales", "scatterplot3d", "selectr", "shape", "spam", "SparseM", "stringi", "stringr", "survival", "tidyr", "whisker", "withr", "XML", "yaml", "zoo") +success <- suppressWarnings(sapply(packs, require, character.only = TRUE)) +if(!all(success)) install.packages(names(success)[!success], repos = paste0("file:///", getwd(), "/RPackages"), type = "win.binary") +sapply(names(success)[!success], require, character.only = TRUE) +if(!suppressWarnings(require(ggfortify))) install.packages(paste0(getwd(), "/RPackages", "/ggfortify_0.1.0.tar.gz"), repos = NULL, type="source") library(openxlsx) library(reshape2) library(lubridate) @@ -7,8 +14,6 @@ library(rtf) library(ggplot2) library(extRemes) library(DAAG) -# TODO do we need reshape? It causes conflicts with reshape2 but this can be avoided if reshape is really needed -#library(reshape) library(ggfortify) library(GGally) library(FactoMineR) @@ -27,6 +32,7 @@ library(circlize) library(CircStats) setwd(dirname(parent.frame(2)$ofile)) + source("instat_object_R6.R") source("data_object_R6.R") source("labels_and_defaults.R") diff --git a/instat/static/InstatObject/R/install_packages.R b/instat/static/InstatObject/R/install_packages.R new file mode 100644 index 00000000000..839fa07c128 --- /dev/null +++ b/instat/static/InstatObject/R/install_packages.R @@ -0,0 +1,26 @@ +#install.packages("miniCRAN") +library("miniCRAN") + +# Specify list of packages to download +pkgs <- c("openxlsx", "reshape2", "lubridate","plyr", "rtf", "ggplot2", "extRemes", "GGally", "CCA", "plotrix", "agridat", "DAAG", "FactoMineR", "plotrix", "agridat", "candisc", "R6", "openair", "circular", "survival", "Evapotranspiration", "clifro", "devtools", "factoextra", "circlize", "CircStats", "proto", "tidyr", "gridExtra", "tidyr", "gridExtra", "scales", "proto") +#pkgs <- c("tidyr", "gridExtra", "scales", "proto", "ggplot2") +pkgList <- pkgDep(pkgs, type="win.binary", suggests = FALSE, includeBasePkgs = FALSE, Rversion = "3.3") +#pkgList +pth = "C:/Users/Danny/Documents/GitHubVisualStudio/Instat/instat/static/InstatObject/R/RPackages" +revolution <- c(CRAN="http://cran.microsoft.com") +makeRepo(pkgList, path = pth, type = "win.binary", Rversion = "3.3") + +#add extra packages to location +#then update +updateRepoIndex(pth, type = "win.binary") + +install.packages("reshape2", repos = paste0("file:///", getwd(), "/CRANCopy"), type = "win.binary") +install.packages("maps", repos = paste0("file:///", pth), type = "win.binary") + +install.packages(paste0("C:/Users/Danny/Downloads", "/ggfortify_0.1.0.tar.gz"), repos = NULL, type="source") +pthbin = paste0(pth, "/bin/windows/contrib/3.3") +#list.files(pth, recursive=TRUE, full.names=FALSE) +View(pkgAvail(repos=pth, type="win.binary")[, c(1:3, 5)]) + +#get list of packages in repo +enquote(as.vector(pkgAvail(repos=pth, type="win.binary")[, c(1)])) \ No newline at end of file