R Observatory: Metrics for trps version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

trps

0.1.0Package record

Bayesian Trophic Position Models using 'stan'

0packages depend

2.2Kdownloads / year

100.0%test coverage

10/13flavors OK

Overview

About

Maintained by Benjamin L. HlinaCRAN page ↗GitHub ↗Website ↗Issues ↗

Bayesian trophic position models using 'stan' by leveraging 'brms' for stable isotope data. Trophic position models are derived by using equations from Post (2002) doi:10.1890/0012-9658(2002)083[0703:USITET]2.0.CO;2, Vander Zanden and Vadeboncoeur (2002) doi:10.1890/0012-9658(2002)083[2152:FAIOBA]2.0.CO;2, and Heuvel et al. (2024) doi:10.1139/cjfas-2024-0028.

Changes in 0.1.0

18-Mar-2025

[x] a one-source model
[x] priors for a one-source model
[x] parameters for priors for a one-source model
[x] a two-source model without different lambda
[x] priors for a two-source model without different lambda
[x] parameters for priors for a two-source model without different lambda
[x] a two-source model with different lambda
[x] priors for two-source model w/ different lambda (priors are the same as

a two-source)

[x] parameters for priors for a two-source model w/ different lambda (priors are the same as a two-source)
[x] a two-source carbon mixing model

Show all changes in 0.1.0Hide the rest of the changes in 0.1.0

[x] priors and parameters for priors
[x] a two-source model with different lambdas and alpha corrected using Heuvel et al. 2024.
[x] priors
[x] parameters for priors
[x] vignettes for one source
[x] vignettes for two source
[x] vignettes for twp source ar

17-Mar-2025

[x] a one-source model
[x] priors for a one-source model
[x] parameters for priors for a one-source model
[x] a two-source model without different lambda
[x] priors for a two-source model without different lambda
[x] parameters for priors for a two-source model without different lambda
[x] a two-source model with different lambda
[x] priors for two-source model w/ different lambda (priors are the same as

a two-source)

[x] parameters for priors for a two-source model w/ different lambda (priors are the same as a two-source)
[x] a two-source carbon mixing model
[x] priors and parameters for priors
[x] a two-source model with different lambdas and alpha corrected using Heuvel et al. 2024.
[x] priors
[x] parameters for priors
[x] vignettes for one source
[x] vignettes for two source
[] vignettes for twp source ar

14-Mar-2025

[x] a one-source model
[x] priors for a one-source model
[x] parameters for priors for a one-source model
[x] a two-source model without different lambda
[x] priors for a two-source model without different lambda
[x] parameters for priors for a two-source model without different lambda
[x] a two-source model with different lambda
[x] priors for two-source model w/ different lambda (priors are the same as

a two-source)

[x] parameters for priors for a two-source model w/ different lambda (priors are the same as a two-source)
[x] a two-source carbon mixing model
[x] priors and parameters for priors
[x] a two-source model with different lambdas and alpha corrected using Heuvel et al. 2024.
[x] priors
[x] parameters for priors
[x] vignettes for one source
[] vignettes for two source
[] vignettes for twp source ar

Fixed two source model as it wasn't accurately

estimating $\alpha$ as the formula for $\alpha$

was not part of the model structure, priors,

and parameters.

28-Feb-2025

[x] a one-source model
[x] priors for a one-source model
[x] parameters for priors for a one-source model
[x] a two-source model without different lambda
[x] priors for a two-source model without different lambda
[x] parameters for priors for a two-source model without different lambda
[x] a two-source model with different lambda
[x] priors for two-source model w/ different lambda (priors are the same as

a two-source)

[x] parameters for priors for a two-source model w/ different lambda (priors are the same as a two-source)
[] a two-source carbon mixing model
[] priors and parameters for priors
[x] a two-source model with different lambdas and alpha corrected using Heuvel et al. 2024.
[x] priors
[] parameters for priors
[x] vignettes for one source
[] vignettes for two source
[] vignettes for twp source ar

16-Feb-2025

[x] a one-source model
[x] priors for a one-source model
[x] parameters for priors for a one-source model
[x] a two-source model without different lambda
[x] priors for a two-source model without different lambda
[x] parameters for priors for a two-source model without different lambda
[] a two-source model with different lambda
[] priors for two-source model w/ different lambda (priors are the same as

a two-source)

[] parameters for priors for a two-source model w/ different lambda (priors are the same as a two-source)
[] a two-source carbon mixing model
[] priors and parameters for priors
[] a two-source model with different lambdas and alpha corrected using Heuvel et al. 2024.
[] priors
[] parameters for priors
[] vignettes for one source
[] vignettes for two source
[] vignettes for twp source ar

11-Feb-2025

[x] a one-source model
[x] priors for a one-source model
[x] parameters for priors for a one-source model
[] a two-source model without different lambda
[] priors for a two-source model without different lambda
[] parameters for priors for a two-source model without different lambda
[] a two-source model with different lambda
[] priors for two-source model w/ different lambda (priors are the same as

a two-source)

[] parameters for priors for a two-source model w/ different lambda (priors are the same as a two-source)
[] a two-source carbon mixing model
[] priors and parameters for priors
[] a two-source model with different lambdas and alpha corrected using Heuvel et al. 2024.
[] priors
[] parameters for priors
[] vignettes for one source
[] vignettes for two source
[] vignettes for twp source at

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("trps", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("benjaminhlina/trps")

Development version from benjaminhlina/trps. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-trps

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-trps

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-trps

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

3ERROR10OK

Check messages

ERRORre-building of vignette outputsr-devel-windows-x86_64, r-oldrel-windows-x86_64, r-release-windows-x86_64

r-devel-windows-x86_64

Error(s) in re-building vignettes:
--- re-building 'trps.Rmd' using rmarkdown
specified C++17
make cmd is
  make -f "D:/RCompile/recent/R/etc/x64/Makeconf" -f "D:/RCompile/recent/R/share/make/winshlib.mk" CXX='$(CXX17) $(CXX17STD)' CXXFLAGS='$(CXX17FLAGS)' CXXPICFLAGS='$(CXX17PICFLAGS)' SHLIB_LDFLAGS='$(SHLIB_CXX17LDFLAGS)' SHLIB_LD='$(SHLIB_CXX17LD)' SHLIB="file295607fe056bf.dll" WIN=64 TCLBIN= OBJECTS="file295607fe056bf.o"

make would use
if test "zfile295607fe056bf.o" != "z"; then \
  if test -e "file295607fe056bf-win.def"; then \
    echo g++   -shared  -s -static-libgcc -o file295607fe056bf.dll file295607fe056bf-win.def file295607fe056bf.o  "D:/RCompile/CRANpkg/lib/4.7/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.7/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.7/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.7/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.7/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-
...[truncated]...
(expr, envir, ...)
  6.           └─brms (local) .fun(...)
  7.             └─brms (local) .compile_model(model, ...)
  8.               ├─brms:::eval_silent(...)
  9.               │ └─base::eval(expr, envir)
 10.               │   └─base::eval(expr, envir)
 11.               └─brms::do_call(rstan::stan_model, args)
 12.                 └─brms:::eval2(call, envir = args, enclos = envir)
 13.                   └─base::eval(expr, envir, ...)
 14.                     └─base::eval(expr, envir, ...)
 15.                       └─rstan (local) .fun(model_code = .x1)
 16.                         └─rstan:::cxxfunctionplus(...)
 17.                           └─base::sink(type = "output")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'trps.Rmd' failed with diagnostics:
invalid connection
--- failed re-building 'trps.Rmd'

SUMMARY: processing the following file failed:
  'trps.Rmd'

Error: Vignette re-building failed.
Execution halted

r-oldrel-windows-x86_64

Error(s) in re-building vignettes:
--- re-building 'trps.Rmd' using rmarkdown
make cmd is
  make -f "D:/RCompile/recent/R-4.5.3/etc/x64/Makeconf" -f "D:/RCompile/recent/R-4.5.3/share/make/winshlib.mk" CXX='$(CXX17) $(CXX17STD)' CXXFLAGS='$(CXX17FLAGS)' CXXPICFLAGS='$(CXX17PICFLAGS)' SHLIB_LDFLAGS='$(SHLIB_CXX17LDFLAGS)' SHLIB_LD='$(SHLIB_CXX17LD)' SHLIB="file563f4267d5d6.dll" WIN=64 TCLBIN= OBJECTS="file563f4267d5d6.o"

make would use
if test "zfile563f4267d5d6.o" != "z"; then \
  if test -e "file563f4267d5d6-win.def"; then \
    echo g++  -shared -s -static-libgcc -o file563f4267d5d6.dll file563f4267d5d6-win.def file563f4267d5d6.o  "D:/RCompile/CRANpkg/lib/4.5/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.5/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.s
...[truncated]...
(expr, envir, ...)
  6.           └─brms (local) .fun(...)
  7.             └─brms (local) .compile_model(model, ...)
  8.               ├─brms:::eval_silent(...)
  9.               │ └─base::eval(expr, envir)
 10.               │   └─base::eval(expr, envir)
 11.               └─brms::do_call(rstan::stan_model, args)
 12.                 └─brms:::eval2(call, envir = args, enclos = envir)
 13.                   └─base::eval(expr, envir, ...)
 14.                     └─base::eval(expr, envir, ...)
 15.                       └─rstan (local) .fun(model_code = .x1)
 16.                         └─rstan:::cxxfunctionplus(...)
 17.                           └─base::sink(type = "output")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'trps.Rmd' failed with diagnostics:
invalid connection
--- failed re-building 'trps.Rmd'

SUMMARY: processing the following file failed:
  'trps.Rmd'

Error: Vignette re-building failed.
Execution halted

r-release-windows-x86_64

Error(s) in re-building vignettes:
--- re-building 'trps.Rmd' using rmarkdown
specified C++17
make cmd is
  make -f "D:/RCompile/recent/R-4.6.1/etc/x64/Makeconf" -f "D:/RCompile/recent/R-4.6.1/share/make/winshlib.mk" CXX='$(CXX17) $(CXX17STD)' CXXFLAGS='$(CXX17FLAGS)' CXXPICFLAGS='$(CXX17PICFLAGS)' SHLIB_LDFLAGS='$(SHLIB_CXX17LDFLAGS)' SHLIB_LD='$(SHLIB_CXX17LD)' SHLIB="file1a36046f48e0.dll" WIN=64 TCLBIN= OBJECTS="file1a36046f48e0.o"

make would use
if test "zfile1a36046f48e0.o" != "z"; then \
  if test -e "file1a36046f48e0-win.def"; then \
    echo g++   -shared  -s -static-libgcc -o file1a36046f48e0.dll file1a36046f48e0-win.def file1a36046f48e0.o  "D:/RCompile/CRANpkg/lib/4.6/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x8
...[truncated]...
(expr, envir, ...)
  6.           └─brms (local) .fun(...)
  7.             └─brms (local) .compile_model(model, ...)
  8.               ├─brms:::eval_silent(...)
  9.               │ └─base::eval(expr, envir)
 10.               │   └─base::eval(expr, envir)
 11.               └─brms::do_call(rstan::stan_model, args)
 12.                 └─brms:::eval2(call, envir = args, enclos = envir)
 13.                   └─base::eval(expr, envir, ...)
 14.                     └─base::eval(expr, envir, ...)
 15.                       └─rstan (local) .fun(model_code = .x1)
 16.                         └─rstan:::cxxfunctionplus(...)
 17.                           └─base::sink(type = "output")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'trps.Rmd' failed with diagnostics:
invalid connection
--- failed re-building 'trps.Rmd'

SUMMARY: processing the following file failed:
  'trps.Rmd'

Error: Vignette re-building failed.
Execution halted

CRAN check page ↗

Slowest check: 5.9 min · r-release-macos-x86_64

Status changes

ERROR10 OK, 3 ERRORNow
ERROR12 OK, 1 ERROR2026-09-04
OK13 OK2026-08-04
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08

Show 4 earlier changesHide 4 earlier changes

NOTE12 OK, 1 NOTE2026-06-07
OK14 OK2026-04-22
ERROR13 OK, 1 ERROR2026-04-18
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.0

READMEYes · 457 wordsVignettesYes · 1 · dynamicNEWSYes · 67% structured · mentions 0.1.0Citation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 18 (1 internal)includes a package overview page
Examples that run: 100%13 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

Getting started with trps HTML

How these are measured

Downloads

2.2K

CRAN downloads in the past year

Rank #23,374 · ~6/day · ~179/mo

Releases R versions

Daily download trend is not available in this view yet.

18330 days

56090 days

2.2K1 year

Compare downloads with other packages →

Also on68 r2u7 autocran

How downloads are counted

Repository

benjaminhlina/trps ↗Account: benjaminhlina

0Stars

0Forks

1Open issues

0Open PRs

1Releases

673Commits

2Commit identities

License file reads as CC0-1.0 · 673 commits · Last activity 2025-12-17 · Default branch at 0.1.1, ahead of CRAN 0.1.0 (checked 2026-10-21)

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 2

Releases over time

2025-03-20 · 12026-07-07 · 1

How these are measured

PracticesBeta

11 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/benjaminhlina/trps on 2026-10-21.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2025-12-17 · The repository has a site deploy workflow

pkgdown site last built 2025-12-17

Coverage (1)

Coverage reporting

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Show all practicesHide 1 practice

Lint, format, editor (2)

lintrRStudio project

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

14 external dependencies (excludes base and recommended)

Installing trps adds 72 packages (35 with compiled code, 75 MB of source tarballs). Heaviest: BH 14 MB, stringi 11 MB, ggplot2 6.0 MB.

Depends (1)

R >= 4.1.0

Imports (4)

brms cli dplyr lifecycle

LinkingTo (0)

none

Suggests (11)

bayesplot ggdist ggplot2gridknitr purrr rmarkdown testthat tidybayes tidyr viridis

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (1)

Benjamin L. Hlina

Author, Maintainer since 0.1.0 (2025)

Releases (1)

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
0.1.0Latest
record
2025-03-21 · current release
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2025-03-21
Total releases: 1 / 1 yrs
License: CC0
Minimum R: ≥ 4.1.0
Bundled data: 5.6 KB / 4 files
Download size: 723 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("trps")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.1890/0012-9658(2002)083[0703:usitet]2.0.co;2, 10.1890/0012-9658(2002)083[2152:faioba]2.0.co;2, 10.1139/cjfas-2024-0028.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for trps version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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