Changelog

This project adheres to Semantic Versioning and Keep a Changelog format.

[0.4.5] -- 2020-06-XX

Added

support for external asset sources via remote_url_base key in the config

Changed

path specified in genome_archive_config is considered relative to the refgenie genome config file, unless absolute.

Removed

support for old genome_archive key; use genome_archive_folder and genome_archive_config from now on.

[0.4.4] -- 2020-03-17

Changed

refgenieserver archive requires all assets to be complete prior to archiving

[0.4.3] -- 2020-01-16

Added

a possibility to decouple genome archive directory and genome archive config file. refgenieserver archive uses new key (genome_archive_config) from refgenconf
a genome archive config file writability check

Changed

key genome_archive to genome_archive_folder. Backwards compatiblity is preserved (both are currently supported)

[0.4.2] -- 2020-01-08

Fixed

undefined variable referencing issue; #73

[0.4.1] -- 2019-12-13

Fixed

relationship info not being updated during specific asset archivization; #70

Changed

order of the assets adn tags in the table in the index page: sorted alphabetically instead of oldest to newest

[0.4.0] -- 2019-12-06

Added

asset splash pages presenting all the asset attributes and related API endpoint links. Available at: /asset/{genome}/{asset}/splash
archive digest API endpoint. Available at /asset/{genome}/{asset}/{tag}/archive_digest

Changed

recipes are served as JSON objects, not files
refgenieserver archive enhancements; related to config file locking

[0.3.4] -- 2019-11-06

Added

distribute the license file with the package
test script
API endpoints for serving asset build logs and asset build recipes. Available at /asset/{genome}/{asset}/log and /asset/{genome}/{asset}/recipe, respectively

Fixed

fastapi - starlette dependency issue

[0.3.3] -- 2019-10-24

Fixed

PyPi installation problem; #59

[0.3.2] -- 2019-10-23

Added

dynamic website URL rendering in the page banner

Fixed

TypeError in refgenieserver archive; #55
AttributeError which was raised when no subcommand was specified; #54

[0.3.1] -- 2019-10-21

Fixed

refgenconf not being installed

[0.3.0] -- 2019-10-21

Added

possibility to use $REFGENIE environment variable to provide config path in refgenieserver archive
new API endpoints:
- /genome/{genome} -- returns a dictionary with genome attributes (contents, checksum, genome_description)
- /genome/{genome}/genome_digest -- returns just the genome digest
- /asset/{genome}/{asset}/{tag}/asset_digest -- returns just the asset digest
- /asset/{genome}/{asset}/default_tag -- returns the default tag of an asset
tag query parameter to the endpoints: /asset/{genome}/{asset}/archive, /asset/{genome}/{asset} to retrieve the archive/metadata associated with tagged asset
API versioning support
API versions: v1 (accessible with a v1/ prefix and without any) and v2 (accessible with v2/ prefix)
pigz support. If the command is callable, it will be used for archiving
incomplete assets skipping in refgenieserver archive
config manipulation support in multi-process contexts, it's racefree, uses file locks
archive removal support (added -r option in refgenieserver archive)
asset registry path support in refgenieserver archive

Changed

command order from refgenieserver -c CONFIG -d archive/serve to refgenieserver archive/serve -c CONFIG -d
the genome tarballs are not produced
config v0.3 is required
-g and -a flags to asset registry path

Fixed

AttributeError in refgenieserver archive; #35
issue with asset attributes serving in API v1 after config format change

[0.2.0] -- 2019-07-11

Added

Add an option to archive a specific genome:asset(s) bundle
Update to use genome config version 0.2
Added genome descriptions to web interface
Some visual improvements to links and layout of web interface

[0.1.0] -- 2019-06-21

Initial project release