The format is based on Keep a Changelog and this project adheres to Semantic Versioning.
scripts/source_me.sh: Includes various helper functions for all other scripts.scripts/create_eager_input.sh: Script to create a preliminary nf-core/eager input TSV from a SSF file.scripts/download_ena_data.py: Python script to read SSF file, download FastQs from the ENA, and create a file of expected md5sums.scripts/run_download.sh: Wrapper script to submit the FastQ download job to the local MPI-EVA cluster.scripts/validate_downloaded_data.sh: Script to validate the downloaded data, and create the intended symlinks for running nf-core/eager.- Added a Changelog:
CHANGELOG.md scripts/run_eager.sh: Script to run nf-core/eager for all packages that need (re-)running.scripts/submit_as_array.sh: Helper script for submitting eager jobs as an SGE array on the MPI_EVA cluster.- Github Issue templates
- Github pull request template
- @delphis-bot makes the template tsv_patch for a package executable.
- @delphis-bot now only triggered on new PR comment, not edits.
- Propagate versions of all config files used in nf-core/eager runs to
config_profile_description. scripts/download_and_localise_package_files.shis a wrapper script that does all the steps of getting a package backbone ready for eagering. Quality of life script for testing, but will be superceded soon.- Added
scripts/ssf_validator.py.