hySpc.hpc

High-Performance Computing tools for r-hyperspec.

hySpc.hpc provides advanced spatial algorithms for hyperspectral images using high-performance Rust FFI (extendr) and sparse linear algebra (faer).

Usage 

library(hyperSpec)
library(hySpc.hpc)

# Suppose `spc_noisy` is a hyperspectral image
# Apply spatial smoothing with a Rust-powered sparse Cholesky solver:
spc_smoothed <- graphSmooth(spc_noisy, width = 100, height = 100, alpha = 2.0, neighbors = 8)

R Package hySpc.hpc


This package is still under construction.
So this website is not fully updated yet.


R package hySpc.hpc is a member of the r-hyperspec packages family, which …
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Documentation

There are two versions of hySpc.hpc online documentation:

  1. for the released version of package,
  2. for the development version of package.

The documentation of the other r-hyperspec family packages can be found at r-hyperspec.github.io.

Issues, Bug Reports and Feature Requests

Issues, bug reports and feature requests should go to an appopriate package’s repository:

  • if related to this package, use this link;
  • if related to hyperSpec package, use this link.

Installation

Install from CRAN-like Repository

The recommended way to install the in-development version:

repos <- c("https://r-hyperspec.github.io/pkg-repo/", getOption("repos"))
install.packages("hySpc.hpc", repos = repos)

Install from GitHub

Install from GitHub (details)

You can install the in-development version of the package from GitHub too:

if (!require(remotes)) {install.packages("remotes")}
remotes::install_github("r-hyperspec/hySpc.hpc")

NOTE 1: Usually, “Windows” users need to download, install and properly configure Rtools (see these instructions) to make the code above work.

NOTE 2: This method will not install package’s documentation (help pages and vignettes) into your computer. So you can either use the online documentation or build the package from source (see the next section).

Install from Source

Install from Source (details)
  1. From the hySpc.hpc’s GitHub repository:
    • If you use Git, git clone the branch of interest. You may need to fork it before cloning.
    • Or just chose the branch of interest (1 in Figure below), download a ZIP archive with the code (2, 3) and unzip it on your computer.
      image
  2. Open the downloaded directory in RStudio (preferably, as an RStudio project).
    • The code below works correctly only if your current working directory coincides with the root of the repository, i.e., if it is in the directory that contains file README.md.
    • If you open RStudio project correctly (e.g., by clicking project.Rproj icon image in the directory), then the working directory is set correctly by default.
  3. In RStudio ‘Console’ window, run the code (provided below) to:
    1. Install packages remotes and devtools.
    2. Install hySpc.hpc’s dependencies.
    3. Create hySpc.hpc’s documentation.
    4. Install package hySpc.hpc.
# Do not abort installation even if some packages are not available
Sys.setenv(R_REMOTES_NO_ERRORS_FROM_WARNINGS = "true")

# Install packages remotes and devtools
install.packages(c("remotes", "devtools"))

# Install hySpc.hpc's dependencies
remotes::install_deps(dependencies = TRUE)

# Create hySpc.hpc's documentation
devtools::document()

# Install package hySpc.hpc
devtools::install(build_vignettes = TRUE)

NOTE 1: Usually, “Windows” users need to download, install and properly configure Rtools (see these instructions) to make the code above work.

For Developers

Developers can find information about automatic deployment from this repo to pkg-repo here in CONTRIBUTING.md.