similar to: HDF5 as a module

Dear all, I'm trying to fix a subtle bug in the hdf5 package. This package provides an interfaces to the HDF5 library and hence allows one to load data into R from files in the HDF5 format. The bug appeared during a period in which R changed but the package did not. I include below both the R and C code, stripped of everything except what is needed to show the bug. What is supposed to

I found it useful to have contour be able to do line widths ... hope that the guts haven't changed an enormous amount in the current development version ... the patches are relatively trivial, mostly going by analogy with lty and col (although in my ignorance it took me a while to figure out what UNPROTECT(2) was and why it should be changed to UNPROTECT(3) ... hope this is useful. Ben

The other day I was working on an example which used tempfile() to create file for use by the graphics device. And while I love tempfile()---as it is portable and clever and the files get cleaned by R and all that---I noticed one missing feature I would like to see: beside a starting name pattern, and an optional directory, an 'file extension' argument would be nice to have. As e.g. in

Summary: patch to add environment parameter to load() to allow -------- specification of destination environment. --> Patch against R 0.63.2 appended at end of this message. <-- Story: ------ I've been running some rather long MCMC chains, which occasionally crash, either due to an "Invalid tag in name extraction" error, or due to the machine going down. (I'm playing

I've just implemented a generalization of R's text connections, to also support reading/writing raw binary data. There is very little new code to speak of. For input connections, I wrote code to populate the old text connection buffer from a raw vector, and provided a new raw_read() method. For output connections, I wrote a raw_write() to append to a raw vector. On input, the mode

This patch makes it possible do module installs in this way: $ R INSTALL --with-hdf5=/packages . Is there a better/conventional way to do this kind of thing that I'm not seeing? diff -c -r1.29 INSTALL.in *** src/scripts/INSTALL.in 2000/01/24 19:48:48 1.29 --- src/scripts/INSTALL.in 2000/01/26 01:26:11 *************** *** 107,112 **** --- 107,116 ---- lib=${2}; shift ;;

Here's an update of my rawConnection() implementation. In addition to providing a raw version of textConnection(), this fixes two existing issues with textConnection(): one is that the current textConnection() implementation carries around unprotected SEXP pointers, the other is a performance problem due to prolific copying of the output buffer as output is accumulated line by line. This new

The patch below adds support for custom HTTP headers in download.file() and url(). My main motivation for this is performing basic http authentication. Some web sites do not support embedding the credentials into the URI itself, they only work if the username and password are sent in the HTTP headers. In fact specifying the username and password in the URI has been

The Rprofmem facility is currently enabled only if the configuration option --enable-memory-profiling is used. However, the overhead of having it enabled is negligible when profiling is not actually being done, and can easily be made even smaller. So I think it ought to be enabled all the time. I've attached a patch doing this, which also makes a number of other improvements to Rprofmem,

This message is in MIME format. Since your mail reader does not understand this format, some or all of this message may not be legible. ------_=_NextPart_000_01C344B0.28BC0750 Content-Type: text/plain; charset="windows-1252" Summary: Currently R provides > dev.control(displaylist='inhbit') to turn *off* the recording of graphics operations in a device, but there is no

Hi there, I am currently working on something that uses hdf5 library. I think hdf5 is a great data format, I've used it somewhat extensively in python via PyTables. I was looking for something similar to that in R. The closest I can get is this library: hdf5. While it does not work the same way as PyTables did, but it's good enough to let them exchange data via hdf5 file. There is just 1

Hi, I was looking for a Windows-specific R function to focus the console window and couldn't find one. The motivation is that after loading the tcltk package, the "main" Tk window "." is presumably focused but then immediately withdrawn (hidden) so the RConsole loses its focus and you have to click on it to continue typing. Would there be any interest in including a

I am trying to build hdf5 for ms-windows. I downloaded the hdf5_1.4.7.tar.gz, gunzipped it and got a tar file. I extracted everything into a directory tree called hdf5. I also found a Makevars.win and libhdf5.def in the R help archives from March 2002. I put those two in hdf5 as well. I issued the command Rcmd build --binary hdf5 but got this message complaining it can''t find

Dear all I'm trying to install the hdf5 library into R. The HDF5 package is installed in a special directory, distributed accross my cluster: /share/apps/HDF5 So i put the args option to the configure command as i read in previous post in the list: jerome]# R CMD INSTALL --configure-vars='LDFLAGS=-L/share/apps/HDF5/lib' --configure-args='--with-hdf5=/share/apps/HDF5'

*Hi everyone, I am a new subscriber, so I hope I'm posting in the right way. I need to load a hdf5 file, so I installed the hdf5 libraries ad the hdf5 R package; in downloaded a small sample file from the hdf5 website and I could correctly load it. But when I try to load my file: * require(hdf5) rm(list=ls()) ls() hdf5load("my_file.h5", verbosity=3) *I get this error message: *

I am writing an R package to interface to hdf5 files (yes I know one exists, the issue will be demonstrated using that package). I tend to like to build/install things locally so that aspects of the system I am working on don't cause problems later when attempting to install elsewhere. To this end, I build and install the hdf5 libraries w/out incident: tar xzf hdf5-1.8.4.tar.bz2 cd hdf5-1.8.4

Hi there, I have a Java process that writes HDF5 files with the following approximate structure: group "xxx" { group "yyy" { dataset {} dataset {} } group "zzz" { dataset {} dataset {} } } where dataset is a rank one dataspace having a compound datatype defined as: H5T_UNIX_TIME, float, float, float, float I

HDF5 is a high quality data storage format from NCSA (http://hdf.ncsa.uiuc.edu/index.html) Marcus Daniels of the Swarm Development Group has made available an R library called hdf5 which allows loading and saving of data in hdf5 format. The source for his library is here: ftp://ftp.swarm.org/pub/swarm/src/testing/hdf5_1.4.7.tar.gz I prefer to use RPMs to maintain software across many linux

Dear everybody: HDF5, a dataset formatting library, and R that is built with it, have been uploaded to ftp://ftp-fis.iarc.fr/pub/incoming. The R RPM uses the spec file created by Martyn Plummer as a starting point, and makes only a few trivial changes. -rw-rw-r-- 1 ftp 100 3416612 Oct 6 17:45 R-base-with-hdf5-0.65.1-1.i386.rpm -rw-rw-r-- 1 ftp 100 2300453 Oct 6 17:48

Hello, I want to install hdf5 libraries for R and I get the same error as posted below whether I try install.packages("hdf5") from R command prompt or the command line installation below. I would appreciate if any one could help me on this. [alamj@thor hdf5]$ ./configure --with-hdf5=/bluejay/apps/HDF5-1.6.6/x86_64 checking for gcc... gcc checking for C compiler default output... a.out