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Changelog

0.9.3 (2024-03-13)

Build

Bug fixes

  • status: display correct duration of stopped workflows (#701) (b53def8), closes #699

Code refactoring

Code style

Test suite

  • snakemake: allow running Snakemake 7 tests on Python 3.11+ (#700) (8ad7ff1), closes #655

Continuous integration

  • commitlint: addition of commit message linter (#695) (2de7d61)
  • commitlint: allow release commit style (#708) (f552752)
  • commitlint: check for the presence of concrete PR number (#698) (fa5b7c7)
  • pytest: install tests package variant instead of all (#703) (fe0b00a)
  • release-please: initial configuration (#695) (5b278f1)
  • shellcheck: fix exit code propagation (#698) (fe696ea)

Documentation

  • authors: complete list of contributors (#705) (875997c)

0.9.2 (2023-12-19)

  • Changes validate command to show detailed errors when the specification file is not a valid YAML file.
  • Changes the validation of specification files to show improved validation warnings, which also indicate where unexpected properties are located in the file.
  • Fixes create_workflow_from_json API function to always load and send the workflow specification to the server.
  • Fixes list command to accept case-insensitive column names when sorting the returned workflow runs via the --sort option.
  • Fixes run wrapper command for workflows that do not contain inputs clause in their specification.

0.9.1 (2023-09-27)

  • Adds support for Python 3.12.
  • Adds prune command to delete all intermediate files of a given workflow. Use with care.
  • Changes open command to inform user about the auto-closure of interactive sessions after a certain inactivity timeout.
  • Changes validate command to display non-critical validation warnings when checking the REANA specification file.
  • Fixes list command to correctly list workflows when sorting them by their run number or by the size of their workspace.
  • Fixes du command help message typo.
  • Fixes validation --environments command to correctly handle fully-qualified image names.

0.9.0 (2023-01-26)

  • Adds support for Python 3.11.
  • Adds support for .gitignore and .reanaignore to specify files that should not be uploaded to REANA.
  • Adds retention-rules-list command to list the retention rules of a workflow.
  • Changes REANA specification loading and validation functionalities by porting some of the logic to reana-commons.
  • Changes create and restart commands to always upload the REANA specification file.
  • Changes delete command to always delete the workflow's workspace.
  • Changes delete_workflow Python API function to always delete the workflow's workspace.
  • Changes download command to add the possibility to write files to the standard output via -o - option.
  • Changes list command to hide deleted workflows by default.
  • Changes list command to allow displaying deleted workflows via --all and --show-deleted-runs options.
  • Changes list and status commands to allow displaying the duration of workflows with the --include-duration option.
  • Changes mv command to allow moving files while a workflow is running.
  • Changes upload command to prevent uploading symlinks.
  • Changes validation --environment command to use Docker registry v2 APIs to check that a Docker image exists in DockerHub.
  • Fixes list command to highlight the workflow specified in REANA_WORKON correctly.
  • Fixes secrets-delete command error message when deleting non existing secrets.
  • Fixes start command to report failed workflows as errors.
  • Fixes start and run commands to correctly follow the execution of the workflow until termination.
  • Fixes status command to respect output format provided by the --format option.
  • Fixes upload command to report when input directories are listed under the files section in the REANA specification file and vice versa.
  • Fixes validate --environment command to detect illegal whitespace characters in Docker image names.

0.8.1 (2022-02-15)

  • Adds support for creating reana-client standalone AppImage executables.
  • Adds support for Python 3.10.
  • Adds workflow name validation for create_workflow_from_json() Python API function.
  • Fixes formatting of error messages and sets appropriate exit status codes.

0.8.0 (2021-11-24)

  • Adds support for running and validating Snakemake workflows.
  • Adds support for outputs.directories in reana.yaml allowing to easily download output directories.
  • Adds new command quota-show to retrieve information about total CPU and Disk usage and quota limits.
  • Adds new command info that retrieves general information about the cluster, such as available workspace path settings.
  • Changes validate command to add the possibility to check the workflow against server capabilities such as desired workspace path via --server-capabilities option.
  • Changes list command to add the possibility to filter by workflow status and search by workflow name via --filter option.
  • Changes list command to add the possibility to filter and display all the runs of a given workflow via -w option.
  • Changes list command to stop including workflow progress and workspace size by default. Please use new options --include-progress and --include-workspace-size to show this information.
  • Changes list --sessions command to display the status of interactive sessions.
  • Changes logs command to display also the start and finish times of individual jobs.
  • Changes ls command to add the possibility to filter by file name, size and last-modified values via --filter option.
  • Changes du command to add the possibility filter by file name and size via --filter option.
  • Changes delete command to prevent hard-deletion of workflows.
  • Changes Yadage workflow specification loading to be done in reana-commons.
  • Changes CWL workflow engine to cwltool version 3.1.20210628163208.
  • Removes support for Python 2.7. Please use Python 3.6 or higher from now on.

0.7.5 (2021-07-05)

  • Changes workflow validation to display more granular output.
  • Changes workflow parameters validation to warn about misused parameters for each step.
  • Changes dependencies to unpin six so that client may be installed in more contexts.
  • Fixes environment image validation not to test repetitively the same image.
  • Fixes upload_to_server() Python API function to silently skip uploading in case of none-like inputs.

0.7.4 (2021-04-28)

  • Adds support of wildcard patterns to ls command.
  • Adds support of directory download and wildcard patterns to download command.
  • Changes list command to include deleted workflows by default.
  • Fixes environment image validation info message where UIDs were switched.

0.7.3 (2021-03-24)

  • Adds validation of workflow input parameters to the validate command.
  • Adds optional validation of workflow environment images (--environments) to the validate command.

0.7.2 (2021-01-15)

  • Adds support for Python 3.9.
  • Fixes exception handling when uploading files.
  • Fixes minor code warnings.
  • Fixes traling slash issue from user exported REANA_SERVER_URL.

0.7.1 (2020-11-10)

  • Changes ping command output to include REANA client and server version information.
  • Fixes upload command to properly display errors.

0.7.0 (2020-10-20)

  • Adds option to logs command to filter job logs according to compute backend, docker image, status and step name.
  • Adds new restart command to restart previously run or failed workflows.
  • Adds possibility to specify operational options in the reana.yaml of the workflow.
  • Fixes user experience by preventing dots as part of the workflow name to avoid confusion with restart runs.
  • Changes du command output format.
  • Changes file loading to optimise CLI performance.
  • Changes logs command to enhance formatting using marks and colours.
  • Changes from Bravado to requests to improve download performance.
  • Changes ping command to perform user access token validation.
  • Changes defaults to accept both reana.yaml and reana.yml filenames.
  • Changes diff command to improve output formatting.
  • Changes code formatting to respect black coding style.
  • Changes documentation to single-page layout.

0.6.1 (2020-06-09)

  • Fixes installation troubles for REANA 0.6.x release series by pinning several dependencies.

0.6.0 (2019-12-27)

  • Introduces user secrets management commands secrets-add, secrets-list and secrets-delete.
  • Enhances run and create commands to allow specifying workfow via the --workflow flag.
  • Introduces new command version to report client version.
  • Fixes upload command behaviour for uploading very large files.
  • Simplifies run command by removing free upload parameters.
  • Upgrades cwltool to 1.0.20191022103248.
  • Disables SSL verification warnings when talking to self-signed server certificates.

0.5.0 (2019-04-24)

  • Introduces new resources field in reana.yaml specification file allowing to declare computing resources needed for workflow runs, such as the CVMFS repositories via cvmfs subfield.
  • Improves reana-client embedded command-line documentation (-help) by grouping commands and providing concrete usage examples for all commands.
  • Enhances workflow start command allowing to override input parameters (--parameter) and to specify additional operational options (--option).
  • Introduces new workflow run wrapper command that creates workflow, uploads its input data and code and starts its execution.
  • Introduces new workflow stop command for stopping a running workflow.
  • Enhances workflow logs command output capabilities via new --json option.
  • Introduces new workflow diff command for comparing two workflow runs.
  • Introduces new workflow delete command for deleting one or more workflow runs.
  • Introduces new session open command allowing to run interactive sessions such as Jupyter notebook upon workflow workspace.
  • Introduces new session close command for closing interactive sessions.
  • Renames past workflows command to list allowing to list both workflow runs and interactive sessions.
  • Introduces new workspace du command for checking workspace disk usage.
  • Introduces new workspace mv command for moving files within workspace.
  • Introduces new workspace rm command for removing files within workspace.
  • Renames past workspace list command to ls allowing to list workspace files. Enhances its output capabilities via new --format option.
  • Introduces new API function create_workflow_from_json() which allows developers and third-party systems to create workflows directly from JSON specification.

0.4.0 (2018-11-07)

  • Enhances test suite and increases code coverage.
  • Changes license to MIT.

0.3.1 (2018-09-25)

  • Amends upload and download commands that will now upload/download all the files specified in reana.yaml in case no arguments are provided.
  • Fixes status command's JSON output mode.
  • Upgrades CWL reference implementation to version 1.0.20180912090223.
  • Renames Serial workflow operational parameter from CACHING``to ``CACHE.
  • Adds support for Python 3.7.

0.3.0 (2018-08-10)

  • Adds support for Serial workflows.

  • CLI refactored to a flat design:

    • inputs/outputs/code removed, everything is a file managed : with upload/download/list commands.
    • Removes workflow command, workflows are managed with : create/start/status.

  • Removes analyes command, now validate is first level command.

  • status now shows the selected workflow progress and current command on verbose mode.

  • Requires the usage of an access token to talk to REANA Server.

  • Fixes bug when uploading binary files.

  • Supports addition of workflow engine parameters when using start for serial workflows.

  • Improves error messages.

0.2.0 (2018-04-20)

  • Adds support for Common Workflow Language workflows.
  • Adds support for persistent user-selected workflow names.
  • Enables file and directory input uploading using absolute paths.
  • Adds new status command to display the current status of the client.
  • Reduces verbosity level for commands and improves error messages.

0.1.0 (2018-01-30)

  • Initial public release.