excursions is an R package that contains functions that compute probabilistic excursion sets, contour credibility regions, and simultaneous confidence bands for latent Gaussian random processes and fields.
See the package homepage for details and tutorials.
The theory of the methods used in the package are described in the papers Bolin and Lindgren (2015), Bolin and Lindgren (2016) , and Bolin et al (2015).
The development version of the package contains new features and fixes that are not on CRAN, see NEWS.md. To install this version, see the instructions below.
The latest CRAN release of the package can be installed directly from CRAN with install.packages("excursions").
The latest stable version (which is sometimes slightly more recent than the CRAN version), can be installed by using the command
remotes::install_github("davidbolin/excursions", ref = "stable")in R. The development version can be installed using the command
remotes::install_github("davidbolin/excursions", ref = "devel")If you want to install the package using the remotes::install_github-method on Windows, you first need to install Rtools and add the paths to Rtools and gcc to the Windows PATH environment variable. This can be done for the current R session only using the commands
rtools = "C:\\Rtools\\bin"
gcc = "C:\\Rtools\\gcc-4.6.3\\bin"
Sys.setenv(PATH = paste(c(gcc, rtools, Sys.getenv("PATH")), collapse = ";"))where the variables rtools and gcc need to be changed if Rtools is not installed directly on C:.
You also need to install the gsl library.
The package version format for released versions is major.minor.bugfix. All regular development should be performed on the devel branch or in a feature branch, managed with git flow feature. On the devel branch, the version number is major.minor.bugfix.9000, where the first three components reflect the latest released version with changes present in the default branch. Bugfixes should be applied via the git flow bugfix and git flow hotfix methods, as indicated below. For git flow configuration, use stable as the stable release branch, devel as the develop branch, and v as the version tag prefix. See the git flow tutorial for more information.
For non stable and devel branches that collaborators need access to (e.g. release branches, feature branches, etc, use the git flow publish mechanism).
- Prepare a new stable release with CRAN submission:
git flow release start major.(minor+1).0
# Update the version number (handles DESCRIPTION and NEWS)
usethis::use_version("minor") # In R
## Commit the changes
## At this point, see the CRAN submission section below.
git flow release finish 'VERSION'
# Update the dev version number (handles DESCRIPTION and NEWS)
usethis::use_dev_version() # In R
- Do a hotfix (branch from stable branch; use bugfix for release branch bugfixes):
git flow hotfix start hotfix_branch_name
## Do the bugfix, update the verison number major.minor.(bugfix+1), and commit
## Optionally, do CRAN submission
git flow hotfix finish hotfix_branch_name
## Resolve merge conflicts, if any
- CRAN submission
## Perform CRAN checks (usually on the release branch version)
## If unsuccessful then do bugfixes with increasing bugfix version, until ok
## Submit to CRAN
## If not accepted then do more bugfixes and repeat
For the build system, if any edits are made to configure.ac, run autoconf configure.ac > configure.