Gwf

===========

Fixed
-----

* Very slow scheduling when using dry run with unsubmitted targets (184, 93e71a).
* Fixed cancellation with the Slurm backend (183, 29445f).
* Fixed wildcard filtering of targets (185, 036e3d).

Changed
-------

* Move file cache construction out of ``Graph`` (186, 93e71a). This change is
invisible to end-users, but speeds up the ``logs``, ``cancel``, ``info``,
``logs`` and ``workers`` commands.
* Replaced ``--not-endpoints`` flag in ``clean`` command with ``--all`` flag.
* Made filtering more intuitive in all commands.
* The ``info`` command now outputs JSON instead of invalid YAML.
* The ``info`` command outputs information for all targets in the workflow by
default.
* Backends must now specify a ``log_manager`` class attribute specifying which
log manager to use for accessing target log files.
* Backends should now be used as context managers to make sure that
``Backend.close()`` is called when the backend is no longer needed, as it is
no longer called automatically on exit.

Added
------

* Added filtering of targets by name in the ``info`` command.
* Added API documentation for the ``gwf.filtering`` module.
* Added ``gwf.core.graph_from_path()`` and ``gwf.core.graph_from_config()``.
* Added ``gwf.backends.list_backends()``, ``gwf.backends.backend_from_name()``
and ``gwf.backends.backend_from_config()``.
* Added ``SlurmBackend.get_job_id()`` and ``SlurmBackend.forget_job()`` to
``SlurmBackend`` to make it easier for plugins to integrate with Slurm.
* Documentation for log managers.
* Documentation on how to handle large workflows.

===========

First stable release of *gwf*! We strongly encourage users of pre-1.0 users to
read the tutorial, since quite a lot of things have changed. We also recommend
reading the guide for converting pre-1.0 workflows to version 1.0. However,
users attempting to do this should be aware that the the template mechanism in
1.0 is slightly different and thus requires rewriting template functions.

Fixed
-----

* Fixed a bug which caused *gwf* to fail when cancelling jobs when using the
Slurm backend (8c1717).

Changed
-------

* Documentation in various places, especially the core API.
* Documentation for maintainers.

Added
-----

* Topic guide covering templates (b175fe).
* Added ``info`` command (6dbdbb).

==============

Fixed
-----

* Fixed a subtle bug in scheduling which caused problems when resubmitting a
workflow where some targets were already running (a5d884).
* Fixed a bug in the ``SlurmBackend`` which caused *gwf* to crash if the Slurm
queue contained a job with many dependencies (eb4446).
* Added back the `-e` flag in the ``logs`` command.

=============

Fixed
-----

* Fixed a bug in the ``SlurmBackend`` which caused running targets as unknown
(33a6bd).

Changed
-------

* The Slurm backend's database of tracked jobs is now cleaned on initialization
to keep it from growing indefinitely (bd3f95).

=============

Fixed
-----

* Fixed a bug which caused the *gwf logs* command to always show stderr
(01b267).

* Fixed a bug which caused dependencies to be set incorrectly when two targets
depended on the same target (4d9e07).

Changed
-------

* Improved error message when trying to create a target from an invalid template
(d27d1f).

* Improved error message when assigning a non-string spec to a target (2aca0a).

* `gwf logs` command now outputs logs via a pager when the system supports it,
unless `--no-pager` is used (01b267).

Added
-----

* Added more tests to cover scenarios with included workflows when building the
workflow graph (86a68d0).

* Added a bunch of documentation (69e136, 51a0e7, 942b05).

=============

Fixed
-----

* Fixed bug in scheduling which was actually the cause of the incorrect
scheduling that was "fixed" in 1.0b6. Also added documentation for
``gwf.core.schedule`` (7c47cb).

Changed
-------

* Updated documentation in a bunch of places, mostly styling.