data.table::rbindlist()when possible to increase the data frame binding performance.
stringsAsFactorsis changed to
FALSE. Updated the affected
data.frame()calls which rely on the default automatic vector expansion behavior with explicit
stringsAsFactors = TRUE.
api()to allow specifying the
tokenas the access token from Seven Bridges single sign-on (SSO).
Projectclass following the recent API improvements. This enables better project filtering when querying projects. See the vignette for details.
Filesclass following the recent API improvements.
task_add(). This will allow users to enable/disable the spot instance feature on both the project level and individual task level. See the new section "Run tasks using spot instances" in the API vignette for details.
BiocManagerfor installation instructions.
rabix-cli(Bunny) to 1.0.2 for the Docker container.
baseCommandconversion issue (#59).
use_interruptible_instanceswhich supports the latest spot instance feature (ea14d5c).
advance_accessfor enabling the access to Advance Access features.
With this update, users are able to download the Seven Bridges command line uploader (Java-based) for the corresponding platform, and control the command line uploader within R directly. This offers another option for uploading (large) files in addition to API file uploading. Related changes are:
get_uploader()for downloading Seven Bridges command line uploader for specific platforms. The old function
cli_list_tags()as the R interface for Seven Bridges command line uploader. The old function
For detailed usage of these functions, please check this section in the vignette.
get_token()for getting the authentication token for different Seven Bridges platforms. The old function
misc_make_metadata()is deprecated, use
Metadata()for metadata constructor instead.
Fixed task creation issues introduced by the recently added field
created_time in the API (#51).
Fixed the user configuration file path (from
~/.sevenbridges/credentials), following the authentication specification. Thanks: Fabian Zimmer
fields as query default in API calls, the same with
offset; now requests on file details will use
fields = "_all" directly so that only one request is issued. The same applies to updating a upload logic for folder/multiple files (54488bc). Thanks: Raunaq Malhotra.
output_matrix() (2ec7c84) to extract input/output matrix from CWL JSON files directly, without converting CWL JSON to
Flow objects. This is a faster implementation compared to the old method, and more stable to custom fields.
vignette("api", package = "sevenbridges")for the current authentication methods.
Auth()to avoid using API base URLs explicitly.
task_add()added: when users push a Tool object with no
sbg:jobinformation, can still use
keep_test = TRUEto keep previous test information. (#31)
docker pull sevenbridges/sevenbridges-r
convert_app()when a CWL JSON has more fields than defined (#44)
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