Package index • nemo

Base Classes

Config: Config Object
Tool: Tool Object
Workflow: Workflow Object

Config

config_sort_versions(): Sort version strings with "latest" always last
config_prep_raw(): Prepare config from raw file
config_prep_raw_schema(): Prepare config schema from raw file
config_prep_multi(): Prepare config for multiple raw files
config_prep_write(): Write config to YAML file

Parsing

parse_file(): Parse file
parse_file_keyvalue(): Parse Key-Value file
parse_file_nohead(): Parse headless file
file_hdr(): Get file header
schema_guess(): Guess Schema

Example Classes

Tool1: Tool1 Object
Workflow1: Workflow1 Object

CLI

cli_tidy_add_args(): Add 'tidy' subparser arguments
cli_tidy_parse_args(): Parse and dispatch the 'tidy' subcommand
cli_nemo_tidy(): Tidy workflow output files
cli_list_add_args(): Add 'list' subparser arguments
cli_list_parse_args(): Parse and dispatch the 'list' subcommand
cli_nemo_list(): List parsable workflow output files

Schema Visualisation

nemo_schemavis_data(): Build schema data for reactable_schema
nemo_schema_reactable(): Render an interactive schema explorer
reactable_schema(): Render a reactable schema table
nemo_uml(): Generate UML diagram for nemo R6 classes

Assertions

nemo_assert_chr(): Assert character vector
nemo_assert_not_null(): Assert not NULL
nemo_assert_scalar_chr(): Assert scalar character
nemo_assert_out_fmt(): Assert output format
nemo_stop(): Stop with call suppressed

DVC

dvc_download_file(): Download DVC-tracked File
dvc_download_all(): Download All DVC-tracked Data

Other

empty_tbl(): Create Empty Tibble
get_tbl_version_attr(): Get Table Version Attribute
list_files_dir(): List Files
nemo_metadata(): Assemble run metadata
nemo_osfx(): Construct Output File Paths with Format Suffix
nemo_out_formats(): Output Formats Supported
nemo_write(): Write data
nemo_enframe(): Enframe Data
set_tbl_version_attr(): Set Table Version Attribute
get_python(): Get Python Binary
nemo_gha_mermaid(): Generate a Mermaid GitHub Actions flowchart
nemo_cli(): Command line interface for nemo
nemo_log(): Log a message with a specified level
nemo_log_date(): Print current timestamp for logging
nemoverse_wf_dispatch(): Nemoverse Workflow Dispatcher
pkg_found(): Check if Package is Installed