CHANGELOG.md

Changelog

9.3.3 (2024-12-21)

Bug Fixes

• problem with spaces in path (by quoting CLI args) (#79) (404cd30)

9.3.2 (2024-10-06)

Bug Fixes

• iteration over env vars (#77) (07135e5)

9.3.1 (2024-10-04)

Bug Fixes

• use correct names when collecting builtin plugins (#75) (359e8ed)

9.3.0 (2024-10-04)

Features

• load builtin snakemake executor plugins (#73) (03ee96b)

9.2.0 (2024-07-04)

Features

• add a default for the can_transfer_local_files interface (#67) (793df28)
• support for commas in wildcards (#56) (0e8ed82)

9.1.1 (2024-04-12)

Bug Fixes

• pass cores to remote jobs if they are set (395af5e)

9.1.0 (2024-03-26)

Features

• add utils for encoding CLI args as base64 (#64) (38a53ec)

9.0.2 (2024-03-22)

Bug Fixes

• quote list of args (#62) (656ba0a)

9.0.1 (2024-03-21)

Bug Fixes

• fix quoting of string arguments that are passed to spawned jobs (#60) (d3d55a3)

9.0.0 (2024-03-11)

⚠ BREAKING CHANGES

• pass common settings to SpawedJobArgsFactory; shell command arg quoting fixes (#58)

Features

• pass common settings to SpawedJobArgsFactory; shell command arg quoting fixes (#58) (867a027)

8.2.0 (2024-01-16)

Features

• add ability to pass group args to remote jobs (bcfd819)

8.1.3 (2023-12-19)

Bug Fixes

• break circular import (aed33aa)

8.1.2 (2023-12-12)

Documentation

• CommonSettings (#50) (85b995d)

8.1.1 (2023-12-08)

Bug Fixes

• allow value of none for shared fs usage setting (d334869)

8.1.0 (2023-11-30)

Features

• add method for checking whether there is a common workdir assumed in storage settings (29dc8dd)

Bug Fixes

• adapt to API changes (21cae32)

8.0.2 (2023-11-20)

Bug Fixes

• fix arg passing (caee462)

8.0.1 (2023-11-20)

Bug Fixes

• cleanup ci (061ff4c)
• fix method name (16138ad)

8.0.0 (2023-11-20)

⚠ BREAKING CHANGES

• added common setting for defining whether workflow sources shall be deployed.

Features

• added common setting for defining whether workflow sources shall be deployed. (04319bb)

7.0.3 (2023-10-26)

Bug Fixes

• fix envvar declarations code (fc31775)
• improved precommand handling (af1f010)

7.0.2 (2023-10-20)

Bug Fixes

• ignore errors when trying to delete tmpdir upon shutdown (#39) (406422c)

7.0.1 (2023-10-17)

Miscellaneous Chores

• release 7.0.1 (c51e47b)

7.0.0 (2023-10-17)

⚠ BREAKING CHANGES

• move behavior args into common settings and use post_init method for additional initialization

Features

• move behavior args into common settings and use post_init method for additional initialization (c6cb3c9)
• support precommand (32da209)

6.0.0 (2023-10-12)

⚠ BREAKING CHANGES

• adapt to API changes

Features

• adapt to API changes (f74151b)

Bug Fixes

• adapt to changes in snakemake (e572f02)
• cleanup interfaces (88c6554)
• udpate deps (99b5b1e)

5.0.2 (2023-09-22)

Documentation

• mention poetry plugin (733f2f9)

5.0.1 (2023-09-22)

Bug Fixes

• adapt to changes in snakemake-interface-common (faa05a4)
• adapt to fixes in snakemake-interface-common (2a92560)

5.0.0 (2023-09-21)

⚠ BREAKING CHANGES

• maintain Python 3.7 compatibility by moving settings base classes to the settings module

Bug Fixes

• maintain Python 3.7 compatibility by moving settings base classes to the settings module (71c976e)
• use bugfix release of snakemake-interface-common (2441fc3)

4.0.1 (2023-09-20)

Bug Fixes

• return correct value for next_seconds_between_status_checks (0606922)

4.0.0 (2023-09-19)

⚠ BREAKING CHANGES

• rename ExecutorJobInterface into JobExecutorInterface

Code Refactoring

• rename ExecutorJobInterface into JobExecutorInterface (9f61b6a)

3.0.2 (2023-09-12)

Bug Fixes

• add error details in case of improper join_cli_args usage (cb0245f)

3.0.1 (2023-09-11)

Bug Fixes

• avoid dependeing on argparse_dataclass fork (0a1f02d)
• fix NoneType definition (1654a41)

3.0.0 (2023-09-11)

⚠ BREAKING CHANGES

• unify self.report_job_error and self.print_job_error.

Features

• add further metadata to ExecutorSettings (30f0977)
• add get_items_by_category method to ExecutorSettings (7f62bb9)
• add support for env_var specification in ExecutorSettings (a1e3123)
• unify self.report_job_error and self.print_job_error. (2f24fb9)

Documentation

• update readme (100bdc0)
• update readme (836b893)

2.0.0 (2023-09-08)

⚠ BREAKING CHANGES

• rename ExecutorPluginRegistry.get to get_plugin.
• naming
• improved API

Features

• add touch_exec (0ac8b16)
• allow to set the next sleep time (f8fde6c)
• allow to specify the initial amount of seconds to sleep before checking job status (0e88e6f)
• improved API (0226c9d)
• naming (978f74c)
• rename ExecutorPluginRegistry.get to get_plugin. (c1b50d9)
• simplify API (3e4be2a)

Bug Fixes

• API typing (c9180fa)

1.2.0 (2023-09-05)

Features

• simplify executor API (7479c1c)
• various API improvements (a2808ad)

1.1.2 (2023-09-01)

Bug Fixes

• convert enum to cli choice (a2f287c)
• various adaptations to changes in Snakemake 8.0 (58ff504)

1.1.1 (2023-08-30)

Bug Fixes

• practical improvements (f91133a)

1.1.0 (2023-08-28)

Features

• refactor and clean up interfaces (#14) (fc28032)

1.0.1 (2023-08-02)

Bug Fixes

• release process fix (b539c1b)

1.0.0 (2023-08-02)

Features

• migrate interfaces from snakemake to this package (#7) (cc3327c)
• migrate snakemake.common.Mode into this package (b0aa928)
• object oriented plugin interface implementation (a6923d2)
• start of work to integrate functions (#5) (56f16d8)

Bug Fixes

• fix jobname checking logic (1358f5f)
• jobname checking (f7a67d4)
• remove superfluous attribute (7d283f8)

Performance Improvements

• improve plugin lookup (514514f)

Miscellaneous Chores

• release 1.0 (59415f4)