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The test.assessr package checks package structure and
test drivers to detect and classify testing configurations.
If it detects a non-standard testing framework (NSTF)
(i.e. RUnit‑based, BiocGenerics,
data.table, tinytest, and
custom test layouts), it runs non-standard testing
workflows depending on the framework type:
The following example is the workflow for BiocGenerics
which involves Bioconductor RUnit framework
BiocGeneric workflow
Builds a source-to-test mapping.
Removes any run_unitTests.R wrapper from the
mapping.
Prepares a test environment before running RUnit tests:
Detaches commonly attached BioC infrastructure packages
(IRanges, S4Vectors,
BiocGenerics) to avoid namespace/shim conflicts.
Calls pkgload::load_all() to load the package under
test.
Clears R_TESTS to avoid R CMD check harness
interference when running RUnit programmatically.
Identifies problem/skip-able tests (which should use
RUnit::runTestFile() + RUnit::getErrors() per
file).
Builds a list of test files under
inst/unitTests excluding any that should be
skipped.
Exposes namespace objects + datasets to a dedicated environment
and runs coverage with
covr::environment_coverage().
If BiocGeneric workflow is successful, then a unit
test data coverage object like this is produced:
BiocGeneric workflow unit test data coverage object
| R object | field | element 1 | element 2 | value |
|---|---|---|---|---|
| test_package | pkg_name | “BiocGenerics” | ||
| pkg_ver | “0.56.0” | |||
| date_time | “2026-03-09 14:27:36.673915” | |||
| executor | “xxxxxxx” | |||
| sysname | “Linux” | |||
| version | “#1 SMP PREEMPT_DYNAMIC Mon Dec 1 05:36:50 UTC 2025” | |||
| release | “6.1.158-180.294.amzn2023.x86_64” | |||
| machine | “x86_64” | |||
| r_version | “4.4.1” | |||
| test_framework_type | non-standard testing framework - Bioconductor | |||
| total_cov | 15.5 | |||
| res_cov | name | “BiocGenerics” | ||
| coverage | filecoverage | num [1:57(1d)] 0 0 0 0 0 0 0 0 0 0 … | ||
| attr(*, “dimnames”)=List of 1 [1:57] “/tmp/RtmpB1gcqI/R.INSTALL8ff8254343d/S4Vectors/R/DataFrame-class.R” “/tmp/RtmpB1gcqI/R.INSTALL8ff8254343d/S4Vectors/R/DataFrame-combine.R” “/tmp/RtmpB1gcqI/R.INSTALL8ff8254343d/S4Vectors/R/DataFrame-comparison.R” “/tmp/RtmpB1gcqI/R.INSTALL8ff8254343d/S4Vectors/R/DataFrame-utils.R” … | ||||
| totalcoverage | 15.5 | |||
| errors | NA | |||
| notes | NA | |||
| functions_no_tests | source_file | [1:67] “annotation.R” “aperm.R” “append.R” “as.data.frame.R” … | ||
| test_file | [1:67] NA NA NA NA … | |||
| evidence | [1:67] NA NA NA NA … | |||
| has_tests | [1:67] FALSE FALSE FALSE FALSE FALSE FALSE … | |||
| comment | [1:67] “No tests found” “No tests found” “No tests found” “No tests found” … | |||
| tests_skipped | chr(0) | |||
| tests_passing | chr [1:7] “/tmp/RtmpneA8hi/temp_file_53d27b76020b/BiocGenerics/inst/unitTests/test_combine.R” “/tmp/RtmpneA8hi/temp_file_53d27b76020b/BiocGenerics/inst/unitTests/test_Extremes.R” “/tmp/RtmpneA8hi/temp_file_53d27b76020b/BiocGenerics/inst/unitTests/test_format.R” “/tmp/RtmpneA8hi/temp_file_53d27b76020b/BiocGenerics/inst/unitTests/test_mapply.R” … | |||
| n_functions_tests_passing | int 7 | |||
| n_functions_no_tests | int 67 | |||
| n_functions_tests_skipped | int 0 |
The NSTF unit test data coverage objects are not able to
give details about test block start and end lines and the expectation
types.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.