similar to: is gzcon w/ urls not implemented or used differently on linux?

Hi all, I used `gzfile` and `gzcon` to read a compressed file but I found that `gzcon` gave me a different result than `gzfile`. It seems like the `gzcon` does not handle the data correctly. I have posted an example below. In the example, a portion of a compressed file is downloaded from Google Cloud as a raw vector, and the data is saved into a temp file. If I use ` gzfile` to read the file, it

The `gzcon` function both modifies and copies a connection object: # compressed text con1 <- url("http://www.stats.ox.ac.uk/pub/datasets/csb/ch12.dat.gz") con2 <- gzcon(con1) # almost indistinguishable con1==con2 identical(summary(con2), summary(con1)) # both support gzip readLines(con1, n = 3) readLines(con2, n = 3) # opening one opens both isOpen(con2)

Hi, I am trying to use a CGI service (Pubchem PUG) via RCurl and am running into a problem where the data must be supplied via POST - but I don't know the keyword for the argument. The data to be sent is an XML fragment. I can do this via the command line using curl: I save the XML string to a file called query.xml and then do curl -d @query.xml

Hello, If repeated calls are made to save() using the same pre-opened gzfile connection to a file, and then the connection is closed, the objects saved by the second and subsequent calls are not correctly restored by repeated calls to load() with a new gzfile connection to the same file. What follows are a session exposing the bugs, analysis (see ANALYSIS), patches (see PATCHES), and a session

>>>>> Martin Maechler <maechler at stat.math.ethz.ch> >>>>> on Tue, 1 May 2018 16:14:43 +0200 writes: >>>>> G?bor Cs?rdi <csardi.gabor at gmail.com> >>>>> on Tue, 1 May 2018 12:05:32 +0000 writes: >> This is a not too old R-devel on Linux, it already fails >> in R 3.4.4, and on macOS as well.

Hi all, I am trying to download, decompress and read a csv file. My code: myurl <- "ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/series/GSE24729/GSE24729_MitoNuclear_suppl_male_stats.csv.gz" # myfile <- "GSE24729_MitoNuclear_suppl_male_stats.csv.gz" # download.file(myurl, destfile=myfile, mode="w") # mycon <- gzcon(gzfile(myfile,

Hi, I'm using version 0.99.10.8 on debian 2.4.26 and am getting this problem, can someone please shed some light over this? Aug 31 13:58:58 xxx imap(someone): file_wait_lock() failed with modify log file /var/mail/someone_new/Maildir/.INBOX/.imap.index.log: Resource temporarily unavailable and then: Aug 31 14:00:58 xxx imap(someone): Couldn't lock modify log file

(Sorry for not linking to your message; I accidentally deleted the original copy of your message.) Your code > zz = textConnection('tempConnection', 'wb') > saveRDS(c("a", "b", "c"), zz, ascii = TRUE) > serialized_obj = paste(textConnectionValue(zz), collapse='\n') > readRDS(textConnection(serialized_obj)) Error in

Hi All, I think there is a memory error in the libcurl connection code that typically happens when libcurl reads big chunks of data. This potentially affects all code that use url() with the libcurl download method, which is the default in most builds. In practice it tends to happen more with HTTP/2 and if the connection is wrapped into a gzcon(). macOS Catalina has a libcurl build with HTTP/2

library(sos) (mp <- findFn('{molecular properties}')) ????? ** found 7 matches in 4 packages and opened two web pages in my default browser with (a) the 7 matches and (b) the 4 packages. The first function was something for amino acids, like you suggested.? Two others returned compound and substance information from PubChem. ????? Does this help? ????? Spencer On

I need to decompress an array of bytes that were compressed using zlib. The bytes are stored within a binary file. I can seek to the location, read the length of the compressed byte array, and read the bytes into R. What I need to do then is decompress the byte array to an array of doubles. The code looks something like this: compresslength = readBin(infile, integer(), 1, 4) data =

... In addition, you may wish to also post on the Bioconductor list for this sort of thing. -- Bert Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Thu, May 3, 2018 at 12:58 AM, Spencer Graves <spencer.graves at effectivedefense.org>

The shell that executes on the remote server takes input in the form of shell commands before it issues a prompt. When you redirect commands from ssh client to a shell on the remote server there is usually a trailing EOF to tell the shell to exit. If the shell gets an EOF it should not respond with a prompt. Also, some shells decide whether or not to issue a prompt by TTY detection.

Hi Thomas, Le mercredi 02 juillet 2008 ? 18:52 +0200, Thomas Backman a ?crit : > Hey! I just bought my first UPS, a Cyberpower Value 600E, and set it > up using NUT 2.2.x (on Gentoo x86_64). Everything is working great, > using the usbhid-ups driver, and the UPS isn't on the compatibility > lists, so I figured I'd post a little heads-up that it works. The > battery

Hello, I am trying to access several netCDF files that are also zipped (via gzip I guess) (and stored in a directory that I only have reading permit) I tried to unzip them using gzfile, gzcon, etc, and then open them with open.ncdf (from ncdf package). Everything was unsuccesful. I had no problem using the ncdf package with "normal" netCDF files I would really appreciate any

Hi Sorry, I am clearly missing something here. I want to read this file directly: ftp://ftp.sanger.ac.uk/pub/mirbase/targets/v5/arch.v5.txt.gallus_gallus. zip I tried using read.table(gzfile("ftp://ftp.sanger.ac.uk/pub/mirbase/targets/v5/arch.v5 .txt.gallus_gallus.zip")) But I got an error: Error in open.connection(file, "r") : cannot open the connection In addition:

Dear All, I'd like to be able to have R store (in a list component) a compressed data set, and then write it out uncompressed. gzcon and gzfile work in exactly the opposite direction. What would be a good way to handle this? Details: ---------- We have a package that uses C; part of the C output is a large sparse matrix. This is never manipulated directly by R, but always by the C code.

I find that if start R-2.6.0 in a workspace with no .RData file, load one of my workspaces from R-2.5.1 or earlier into R-2.6.0, and then before doing anything else type postscript(file="z.ps"), I get:: > ls() character(0) > load(url("http://www.maths.anu.edu.au/~johnm/r/test5.RData")) > postscript(file="z.ps") Error in postscript(file = "z.ps")

Hi All ! I have a little question about the shell that is run when establishing a connection towards an SSH server. The client(OpenSSH) displays a prompt(as usual) when a command is executed, but my question is, where does the prompt come from. Is it sent by the remote shell or is it handled in the client ?? The reason I ask is that we have developed a product that redirects stdin/stdout/stderr

Hi All, I had working code under R v3.2 that serialized an object, stored the serialized object in a database, and then successfully retrieved and hydrated that object. I recently updated to R v3.4.1 and the same code now fails. Here is the code in question (simplified), and the resulting error: > zz = textConnection('tempConnection', 'wb') > saveRDS(c("a",