debug(utils:::print.help_files_with_topic)
help("help")
debugging in: print.help_files_with_topic(x)
debug: {
browser <- getOption("browser")
topic <- attr(x, "topic")
type <- attr(x, "type")
if (.Platform$GUI == "AQUA" && type == "html")
browser <- get("aqua.browser", envir = as.environment("tools:RGUI"))
paths <- as.character(x)
if (!length(paths)) {
writeLines(c(gettextf("No documentation for %s in specified packages and
libraries:",
sQuote(topic)), gettextf("you could try %s", sQuote(paste0("??",
topic)))))
return(invisible(x))
}
port <- if (type == "html")
tools::startDynamicHelp(NA)
else NULL
if (attr(x, "tried_all_packages")) {
paths <- unique(dirname(dirname(paths)))
msg <- gettextf("Help for topic %s is not in any loaded package but can be
found in the following packages:",
sQuote(topic))
if (type == "html" && port > 0L) {
path <- file.path(tempdir(), ".R/doc/html")
dir.create(path, recursive = TRUE, showWarnings = FALSE)
out <- paste0("<!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.01
Transitional//EN\">\n",
"<html><head><title>R: help</title>\n", "<meta http-equiv=\"Content-Type\"
content=\"text/html; charset=\"UTF-8\">\n",
"<link rel=\"stylesheet\" type=\"text/css\"
href=\"/doc/html/R.css\">\n",
"</head><body>\n\n<hr>\n")
out <- c(out, "<p>", msg, "</p><br>")
out <- c(out, "<table width=\"100%\" summary=\"R Package
list\">\n",
"<tr align=\"left\" valign=\"top\">\n", "<td
width=\"25%\">Package</td><td>Library</td></tr>\n")
pkgs <- basename(paths)
links <- paste0("<a href=\"http://127.0.0.1:";, port,
"/library/", pkgs, "/help/", topic, "\">", pkgs,
"</a>")
out <- c(out, paste0("<tr align=\"left\" valign=\"top\">\n",
"<td>", links, "</td><td>", dirname(paths), "</td></tr>\n"))
out <- c(out, "</table>\n</p>\n<hr>\n</body></html>")
writeLines(out, file.path(path, "all.available.html"))
browseURL(paste0("http://127.0.0.1:";, port,
"/doc/html/all.available.html"),
browser)
}
else {
writeLines(c(strwrap(msg), "", paste0(" ",
formatDL(c(gettext("Package"),
basename(paths)), c(gettext("Library"), dirname(paths)),
indent = 22))))
}
}
else {
if (length(paths) > 1L) {
if (type == "html" && port > 0L) {
browseURL(paste0("http://127.0.0.1:";, port,
"/library/NULL/help/",
URLencode(topic, reserved = TRUE)), browser)
return(invisible(x))
}
file <- paths[1L]
p <- paths
msg <- gettextf("Help on topic %s was found in the following
packages:",
sQuote(topic))
paths <- dirname(dirname(paths))
txt <- formatDL(c("Package", basename(paths)), c("Library",
dirname(paths)), indent = 22L)
writeLines(c(strwrap(msg), "", paste0(" ", txt),
""))
if (interactive()) {
fp <- file.path(paths, "Meta", "Rd.rds")
tp <- basename(p)
titles <- tp
if (type == "html" || type == "latex")
tp <- tools::file_path_sans_ext(tp)
for (i in seq_along(fp)) {
tmp <- try(readRDS(fp[i]))
titles[i] <- if (inherits(tmp, "try-error"))
"unknown title"
else tmp[tools::file_path_sans_ext(tmp$File) ==
tp[i], "Title"]
}
txt <- paste0(titles, " {", basename(paths),
"}")
res <- menu(txt, title = gettext("Choose one"),
graphics = getOption("menu.graphics"))
if (res > 0)
file <- p[res]
}
else {
writeLines(gettext("\nUsing the first match ..."))
}
}
else file <- paths
if (type == "html") {
if (port > 0L) {
path <- dirname(file)
dirpath <- dirname(path)
pkgname <- basename(dirpath)
browseURL(paste0("http://127.0.0.1:";, port, "/library/",
pkgname, "/html/", basename(file), ".html"),
browser)
}
else {
warning("HTML help is unavailable", call. = FALSE)
att <- attributes(x)
xx <- sub("/html/([^/]*)\\.html$", "/help/\\1",
x)
attributes(xx) <- att
attr(xx, "type") <- "text"
print(xx)
}
}
else if (type == "text") {
pkgname <- basename(dirname(dirname(file)))
temp <- tools::Rd2txt(.getHelpFile(file), out = tempfile("Rtxt"),
package = pkgname)
file.show(temp, title = gettextf("R Help on %s",
sQuote(topic)), delete.file = TRUE)
}
else if (type %in% "pdf") {
path <- dirname(file)
dirpath <- dirname(path)
texinputs <- file.path(dirpath, "help", "figures")
tf2 <- tempfile("Rlatex")
tools::Rd2latex(.getHelpFile(file), out = tf2)
.show_help_on_topic_offline(tf2, topic, type, texinputs)
unlink(tf2)
}
}
invisible(x)
}
Browse[2]> c
... at which point the blank help window pops.
On Oct 18, 2018, at 6:29 AM, zListserv <zlists...@gmail.com> wrote:
On 2018-10-17, at 22:29, Marc Schwartz <marc_schwa...@me.com> wrote:
Ok, strange. I figured that there was some conflict/corruption in place with
R.app that was not immediately clear.
Peter raised the possibility of a firewall issue, but I am curious as to why
that would affect the use of help in R.app, but not via other environments,
like the Mac Terminal app. Theoretically, it should be via similar protocols
and ports in each setting, unless there is something specific that R.app does
to the OS environment when running, that would inhibit the dynamic generation
of the HTML pages. But if so, why just for the two of you?
It seems like the server is starting up ok, but the help pages are not being
generated by Rd2HTML() in R.app.
However, it sparked a thought in my head, which is always risky, and that is,
do you guys have any anti-virus/malware software running? I may be grasping at
straws here, but such applications have been known to cause all kinds of flaky
behaviors, that are not immediately evident nor associated with them.
No firewall; no anti-virus or other malware software
One other thought. When you get the blank HTML page, presumably white
background, drag the cursor around the page to try to highlight text, as if the
text was also white, thus not showing against the white background. Another
straw....
Nope. Blank is blank. No invisible text detected.
Regards,
Marc
<snip>
Ben Tupper
Bigelow Laboratory for Ocean Sciences
60 Bigelow Drive, P.O. Box 380
East Boothbay, Maine 04544
http://www.bigelow.org
Ecological Forecasting: https://eco.bigelow.org/
[[alternative HTML version deleted]]
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