source("common.R")

Sys.unsetenv("R_HOME")

options(warn = 1)

rlib <- "/home/ripley/R/Lib32"
Rver <- "R"
Rgcc <- "Rgcc"

list_tars <- function(dir='.')
{
    files <- list.files(dir, pattern="\\.tar\\.gz", full.names=TRUE)
    nm <- sub("_.*", "", basename(files))
    data.frame(name = nm, path=files, mtime = file.info(files)$mtime,
               row.names = nm, stringsAsFactors = FALSE)
}


tars <- foo <- foo1 <- list_tars('../contrib')
foo <- list_tars('../contrib/3.4.0/Recommended')
foo0 <- list_tars('../contrib/3.4.0/Other')
foo <- rbind(foo, foo0, foo1)
tars <- foo[!duplicated(foo$name), ]


logs <- list.files('.', pattern = "\\.log$")
logs <- logs[logs != "script.log"]
fi <- file.info(logs)
nm <- sub("\\.log$", "", logs)
logs <- data.frame(name = nm, mtime = fi$mtime, stringsAsFactors = FALSE)
old <- nm[! nm %in% tars$name]
for(f in old) {
    cat('removing ', f, '\n', sep='')
    unlink(c(f, Sys.glob(paste(f, ".*", sep=""))), recursive = TRUE)
    unlink(file.path(rlib, f),  recursive = TRUE)
}

inst <- basename(dirname(Sys.glob(file.path(rlib, "*", "DESCRIPTION"))))

foo <- merge(logs, tars, by='name', all.y = TRUE)
row.names(foo) <- foo$name
keep <- with(foo, mtime.x < mtime.y)
old <- foo[keep %in% TRUE, ]

new <- foo[is.na(foo$mtime.x), ]
nm <- c(row.names(old), row.names(new))
nm <- nm[! nm %in% stoplist]
available <-
    available.packages(contriburl="file:///home/ripley/R/packages/contrib",
                       filters = list())
nm <- nm[nm %in% rownames(available)]
nmr <- nm[nm %in% recommended]
nm <- nm[!nm %in% recommended]
if(length(nm)) {
DL <- utils:::.make_dependency_list(nm, available)
nm <- utils:::.find_install_order(nm, DL)
}

Sys.setenv(R_LIBS = rlib,
           DISPLAY=':5',
           CPPFLAGS='-I/usr/local/include',
           "_R_CHECK_INSTALL_DEPENDS_" = "TRUE",
           "_R_CHECK_NO_RECOMMENDED_" = "TRUE",
           "_R_SHLIB_BUILD_OBJECTS_SYMBOL_TABLES_" = "TRUE",
           RMPI_TYPE="OPENMPI",
           RMPI_INCLUDE="/opt/SUNWhpc/HPC8.2.1c/sun/include",
           RMPI_LIB_PATH="/opt/SUNWhpc/HPC8.2.1c/sun/lib")

for(f in nm) {
    unlink(f, recursive = TRUE)
    unlink(file.path("~/R/Lib32", f), recursive = TRUE)
    unlink(file.path("~/R/Lib32", paste0("00LOCK-", f)), recursive = TRUE)
    try(system2("gtar", c("xf", tars[f, "path"]))) # in case it changes in //
    cat(sprintf('installing %s', f))
    opt <- ""; env <- ""
    if(f == "Rserve") opt <- '--configure-args=--without-server'
    if(f == "pcaL1") opt <- '--configure-args=--enable-lapack=no'
    if(f == "stringi") opt <- '--configure-args=--disable-cxx11'
    desc <- read.dcf(file.path(f, "DESCRIPTION"), "SystemRequirements")[1L, ]
    if(grepl("GNU make", desc, ignore.case = TRUE)) env <- "MAKE=gmake"
    if(f %in% fakes) opt <- "--fake"
    opt <- c("--pkglock", opt)
    desc <- read.dcf(file.path(f, "DESCRIPTION"), "LinkingTo")[1L, ]
    cmd <- ifelse(grepl("Rcpp", desc) || f %in% gcc, Rgcc, Rver)
    args <- c(cmd, "CMD", "INSTALL", opt, tars[f, "path"])
    logfile <- paste(f, ".log", sep = "")
    res <- system2("time", args, logfile, logfile, env = env)
    if(res) cat("  failed\n") else cat("\n")
}

Sys.setenv(LC_CTYPE="en_GB.UTF-8")

## used for recommended packages
do_one_r <- function(f, tars)
{
    unlink(f, recursive = TRUE)
    logfile <- paste(f, ".log", sep = "")
    system2("touch", logfile)
    system2("gtar", c("xf", tars[f, "path"]))
    args <- c(Rver, "CMD", "check", tars[f, "path"])
    outfile <- paste(f, ".out", sep = "")
    system2("time", args, outfile, outfile, wait = FALSE)
}

for(f in nmr) do_one_r(f, tars)