NEWS

---

tRophicPosition 2024-09-05

• extractIsotopeData(), generateTPData(), loadIsotopeData(), simulateTDF(), and TDF(), all have the argument seed with a default set to 3. CRAN does not allow set.seed() to be pre set. Found out about this issue with the initial releases of {nichetools}. The default of this being set to 3 has been changed to being a random number which is what CRAN wants.

• Updated example in fromParallelTP() as it was missing a ). seed has been added to this example with it set to 3.

• Updated example in multiSpeciesTP() to have seed argument in generateTPData() with seed set to 3.

• all examples have ben updated for those functions above with seed set to 3. All documentation for these functions has been updated.

• The file generataIsotopeData.R is blank in this repo and Benjamin Hlina's forked version. Is this suppose to be the case?

• In the Roach.R documentation has the wrong URL. It has changed to the following https://fishbase.mnhn.fr/summary/SpeciesSummary.php?ID=272&AT=roach and is currently up-to-date in the R and Rd file.

• Removed codecov.yml file as this is no longer standard practice for code coverage. test-coverage.yaml has been added. This yaml, however, will fail as it will not be able find the secret token considering the token is invalid. The token can be added to the repo with the token name being CODECOV_TOKEN. To add the token go to the repo's setting -> secrets and variables -> actions -> new repository secret, then copy and paste the token from codecov's page for the repo under configuration -> general, and copy the token over, without the CODECOV_TOKEN=.

• R-CMD-check.yaml has been updated. This yaml will pull and build jags for each OS and install {rjags} properly to check the package.

• pr-commands.yaml has been added to make pull request checks easier.

• The DESCRIPTION file has been updated with the correct version of {Roxygen} and {SIBER} has been added into suggested pkgs as one of the vignettes uses it, the version number has been updated to 0.8.2.

• Vignettes have been updated to use seed argument properly so they are consistent with seed set to 3.

• Package (this specific branch) has been added to Benjamin Hlina's r-universe as another way to build and access this package.

tRophicPosition 2022-12-11

• Updating CRAN version (archived recently due to email error). Small fixes.

tRophicPosition 2019-04-05

• Updating CRAN version (archived recently). Small fix regarding examples.

tRophicPosition 2018-06-27

• Fixed issue 69 (parametricTP() when using only one baseline). This small fix changes current version of tRophicPosition to 0.7.6 only in GitHub. CRAN version will be updated soon.

tRophicPosition 2018-01-29

• Added the function extractPredictiveData() to perform a posterior predictive model-checking procedure.
• Implemented code coverage and unit test.
• Improved the code (to make it clearer, considering width and the assignment operator).
• Changed some arguments (consumer instead of species, group instead of community and others) in loadIsotopeData(), extractIsotopeData() and other functions (while maintaining old arguments as compatibility)
• Added a a procedure for checking errors on priors arguments in jagsBayesianModel and related functions
• Removed MCMCvis from the Short guide to tRophicPosition vignette, as that package is no longer in CRAN.

tRophicPosition 2017-10-12

• Minor details to fulfil CRAN checks

• Fixed loadIsotopeData() when loading species without a community to iterate from.
• Added stable isotope data examples (Finnish Lakes and Roach)
• Improved credibilityIntervals(). Now it accepts legend position (for TP and alpha plots), a grouping variable (to plot groups with different colours), manual colours (scale_colour_manual) when using group_by, and labels for the x axis.

tRophicPosition 2017-06-11

First release version submitted to CRAN.

• List of capabilities