R Observatory: Metrics for soilKey version 0.9.259

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

soilKey

0.9.259Package record

Automated Soil Profile Classification per WRB 2022, 'SiBCS' 5 and USDA Soil Taxonomy 13

0packages depend

2.2Kdownloads / year

80.8%test coverage

13/13flavors OK

Overview

About

Maintained by Hugo RodriguesCRAN page ↗GitHub ↗Website ↗Issues ↗

Implements deterministic classification keys for the World Reference Base for Soil Resources 2022 (4th edition) and the Brazilian System of Soil Classification ('SiBCS', 5th edition). Provides a unified profile representation with explicit per-attribute provenance, multimodal extraction from field reports and photos via vision-language models, spatial priors from 'SoilGrids' and national soil maps, and gap-filling of soil attributes from Vis-NIR or MIR spectra via the Open Soil Spectral Library ('OSSL'). The taxonomic key itself is never delegated to a language model; LLMs are restricted to schema-validated extraction. Each classification result reports a key trace, a provenance-aware evidence grade, and ambiguities that further measurement would resolve.

Changes in 0.9.259

Tests: the slow ones run off CRAN

The CRAN pre-test of 0.9.258 (2026-10-14) did not pass automatically on

r-devel-windows-x86_64: "Overall checktime 14 min > 10 min", mainly from the

tests, 461 s on Windows (158 s on Debian). The CRAN team asked to reduce the

test timings, among other ways by running less important tests only off CRAN.

Every test that took more than 0.03 s on CRAN's terms (NOT_CRAN unset, the

installed package) on a fast machine now starts with skip_on_cran(): 457

tests in 137 files. They run as before with devtools::test() and wherever

NOT_CRAN=true. The core of the three keys stays on CRAN, slow as it is:

the tests that the canonical profiles classify to their WRB Reference Soil

Group, to their SiBCS order, and to their USDA order.

| | before | now |

Show all changes in 0.9.259Hide the rest of the changes in 0.9.259

|---|---|---|

| tests run on CRAN | 1,821 | 1,354 |

| time of the tests on CRAN's terms, this machine | 87 s | 21 s |

| the same, the whole test process | 98 s | 28 s |

Windows ran the tests of 0.9.258 about five times slower than this machine;

by that ratio they take about 150 s there now.

The links to Embrapa's AgroAPI are text

The check of this version found the three addresses of Embrapa's AgroAPI

(www.agroapi.cnptia.embrapa.br) out of reach: the server did not answer in

60 s, and the incoming check waited for it. The addresses stay, written as

text and no longer as links: in the NEWS entry of 0.9.237, in the README, and

in inst/CITATION, where the entry of the SmartSolos Expert article loses its

url and keeps its DOI. As for the data servers in 0.9.155.

No code changes; the classification of every profile is the same.

From NEWS.md in the release

Install

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

install.packages("soilKey", 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("HugoMachadoRodrigues/soilKey")

Development version from HugoMachadoRodrigues/soilKey. 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-soilkey

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-soilKey

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-soilKey

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

13OK

CRAN check page ↗

Slowest check: 9.0 min · r-patched-linux-x86_64

Status changes

OK13 OK2026-10-17
WARNING12 OK, 1 WARNING2026-10-01
OK13 OK2026-08-04
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-19

Show 4 earlier changesHide 4 earlier changes

WARNING12 OK, 1 WARNING2026-06-17
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK6 OK2026-05-20

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.9.259

READMEYes · 5,828 wordsVignettesYes · 13 · evaluation depends on the environmentNEWSYes · 67% structured · mentions 0.9.259Citation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 350 (18 internal)includes a package overview page
Examples that run: 37%24 run in a plain check · 3 only when donttest examples are enabled (R CMD check --as-cran) · 38 never run
Exported functions with examples: 19%
Documented parameters: 99%
Return-value docs: 98%
Help pages citing references: 18%

Also includes 1 demo script (run with demo())

Vignettes (13)

Show 3 moreHide 3 vignettes

How these are measured

Downloads

2.2K

CRAN downloads in the past year

Rank #8,661 · ~6/day · ~180/mo

Releases R versions

Daily download trend is not available in this view yet.

42230 days

1.1K90 days

2.2K1 year

Compare downloads with other packages →

Also on31 r2u7 autocran

How downloads are counted

Repository

hugomachadorodrigues/soilkey ↗Account: HugoMachadoRodrigues

3Stars

0Forks

0Open issues

0Open PRs

1Releases

64Commits

1Commit identities

64 commits · Last activity 2026-10-16 · -57.1% stars, 30d

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: 0

Stars over time

2026-04-28 · 12026-09-30 · 3

How these are measured

PracticesBeta

15 development-tooling and community-health practices detected across 7 families in the upstream repository

Checks run against github.com/hugomachadorodrigues/soilkey on 2026-10-11.

Continuous integration (2)

GitHub ActionsR CMD check workflow

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

Governance and community (4)

Code of conductContributing guideIssue templatesPR template

Docs source (3)

pkgdown

GitHub Pages site last deployed 2026-10-11 · The repository has a site deploy workflow

pkgdown site last built 2026-10-11, before release 0.9.259 (2026-10-14)

Coverage (1)

Coverage reporting (Codecov)

Show all practicesHide 3 practices

Reproducibility and dev environment (2)

data-raw/Dockerfile

CRAN release process (1)

cran-comments.md

Research and citation (2)

CITATION.cffZenodo

How this is detected·Detection ruleset v3 (2026-09-26)

AI coding toolsBeta

This repository shows signs of AI coding tools.

Claude Codefirst seen 2026-04-25
Named in .Rbuildignore: .claude
Named in .gitignore: .claude
Commits: some crediting it in the message, count not recorded

How this is detected·Detection ruleset v4 (updated 2026-09-27)

Dependencies

Declared dependencies

39 external dependencies (excludes base and recommended)

Installing soilKey adds 5 packages (4 with compiled code, 7.2 MB of source tarballs). Heaviest: data.table 5.7 MB, rlang 766 KB, cli 629 KB.

Depends (1)

R >= 4.1

Imports (5)

R6 data.table yaml cli rlang

LinkingTo (0)

none

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)

Hugo Rodrigues

Releases (5)

Pick two releases to compare their code metrics.

0.9.259Latest
record
2026-10-14 · current release · diff ↗ ·
added 8 exports
cohesic, cryic_horizon, folic, nitisol, read_wosis_layers_graphql, read_wosis_profiles_graphql, wosis_citation, wosis_profile_to_pedon
0.9.184
record
2026-07-07 · diff ↗ ·
added 4 exports
apply_spectral_preprocessing, classify_csv, key_trace_table, read_pedon_csv
0.9.157
record
2026-06-30 · diff ↗
0.9.155
record
2026-06-22 · diff ↗ ·
removed 592 exports
acric_andisol_usda, acric_oxisol_usda, aeric_oxisol_usda, aeric_subgroup_usda, al_rich_spodic_usda, albaquult_qualifying_usda, albic_horizon_usda, albic_subgroup_usda, alboll_qualifying_usda, alfic_subgroup_usda, alfisol_qualifying_usda, alfisol_usda, alic_andisol_usda, andic_soil_properties_usda, andic_subgroup_usda, andisol_qualifying_usda, andisol_usda, anhydrous_conditions_usda, anionic_subgroup_usda, aqualf_qualifying_usda, aquand_qualifying_usda, aquandic_subgroup_usda, aquent_qualifying_usda, aquept_qualifying_usda, aquert_qualifying_usda, aquic_conditions_usda, aquic_subgroup_usda, aquoll_qualifying_usda, aquult_qualifying_usda, arenic_subgroup_usda and 562 more

added 18 exports
apply_soilgrids_depth_prior, benchmark_spectral_fill, build_taxon_profiles, classify_from_photos, classify_usda_family, classify_with_uncertainty, compute_per_attribute_evidence_grade, coverage_report, ensure_horizon_schema, gapfill_by_predicted_taxon, gapfill_derive_horizon, gapfill_within_pedon, get_perturbation_scale, horizon_column_spec, pedons_from_spectral_table, read_spectral_library, run_all_benchmarks, validate_horizon_geometry
0.9.97
record
2026-05-19
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-05-19
Total releases: 5 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1
Bundled data: 1.1 MB / 1 file
Download size: 5.9 MB

Appears in task views

Agricultural Science

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("soilKey")

The package provides a citation file that builds its entry when R runs it. Run citation() to see it.

The repository also keeps a CITATION.cff.

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 soilKey version 0.9.259 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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