This is used in tests/testthat/test-run_pipeline.R tests where some modifications of default
config files are needed. The patches are located in tests/testthat/run_pipeline_config_patches.
Before the patches are applied, their local versions are updated from the default ones, similar to standard behaviour
(update_config()).
Usage
.apply_config_patches(
patches_dir,
analysis_config_dir,
pipeline_config_dir = getOption("scdrake_pipeline_config_dir")
)Arguments
- patches_dir
A character scalar: path to directory with config patches. The files there must be named the same as the bundled ones, e.g.
02_norm_clustering.yaml.- analysis_config_dir
A character scalar: path to directory with analysis config files.
- pipeline_config_dir
A character scalar: path to directory with pipeline config file (
pipeline.yaml).