Branch: refs/heads/master
Home: https://github.com/uzh/gc3pie
Commit: 9382ab6cbdb31ecdf7ab7afacd3225c86da30ebe
https://github.com/uzh/gc3pie/commit/9382ab6cbdb31ecdf7ab7afacd3225c86da30ebe
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/utils.py
Log Message:
-----------
gc3libs.utils: New function `get_scheduler_and_lock_factory`.
This was born to support the new `BgEngine`, but it might be of more
general applicability, therefore it's packaged into `gc3libs.utils`.
Commit: 8cc216954b25a7fce79d23ac44861f40bbebf096
https://github.com/uzh/gc3pie/commit/8cc216954b25a7fce79d23ac44861f40bbebf096
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
New `BgEngine` class to run `Engine.progress()` in a separate background
thread.
All thread management is offloaded to the `APScheduler` package, which
provides support for several different threading/event loop backends.
However, we do not make GC3Pie depend on the `apscheduler`
package (yet?), since the `BgEngine` is quite likely not to be in
widespread usage for now.
Commit: 74f4b82db999947cbbbcfe64b15ce3ee8453f9dc
https://github.com/uzh/gc3pie/commit/74f4b82db999947cbbbcfe64b15ce3ee8453f9dc
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
M setup.py
Log Message:
-----------
maintain statistics through all Engine operations, instead of computing them
on-demand
Commit: c67b51409a6884743d31b7bedf5c8881b52aea13
https://github.com/uzh/gc3pie/commit/c67b51409a6884743d31b7bedf5c8881b52aea13
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
Update `Engine`'s docstring.
Commit: fb6c7038d8185062794e930688f3c93925f25f23
https://github.com/uzh/gc3pie/commit/fb6c7038d8185062794e930688f3c93925f25f23
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
Factor common code in `Engine.add()` and `Engine.remove()`.
Commit: f456383cb5ea40edc63e2cd4da07f0c9eb8b8127
https://github.com/uzh/gc3pie/commit/f456383cb5ea40edc63e2cd4da07f0c9eb8b8127
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
Cosmetic changes.
Commit: c1cc65bfa266dc0d6c60435a672ad486cad8f82a
https://github.com/uzh/gc3pie/commit/c1cc65bfa266dc0d6c60435a672ad486cad8f82a
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
New method `BgEngine.find_task_by_id()`.
It proxies the corresponding method of the `Engine` class
introduced in commit ecd9021.
Commit: 0507ddf5e4bf978bdd4a6e234d407a3853393e85
https://github.com/uzh/gc3pie/commit/0507ddf5e4bf978bdd4a6e234d407a3853393e85
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
Fix imports in `gc3libs/core.py`
Commit: 1f13c5b271d0186a39239ee3687646f3f307ec3b
https://github.com/uzh/gc3pie/commit/1f13c5b271d0186a39239ee3687646f3f307ec3b
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
Try to please pylint running on `gc3libs/core.py`
It actually *did* catch a couple of bugs that had gone unnoticed so far...
Commit: c2e5fd3180a0635908c9a5369496430511a1bdc6
https://github.com/uzh/gc3pie/commit/c2e5fd3180a0635908c9a5369496430511a1bdc6
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
Fix "ImportError: cannot import name DeprecationWarning"
Indeed, it is a built-in!
Commit: 5eeb72a02869e176c162dce5b8d25f4f42759afd
https://github.com/uzh/gc3pie/commit/5eeb72a02869e176c162dce5b8d25f4f42759afd
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
Fix default arg mismatch between th new implementation of `Engine.stats()`
and `Engine.counts()`
Commit: 0357d21a25b643c741adde71fe01730fa7140bd1
https://github.com/uzh/gc3pie/commit/0357d21a25b643c741adde71fe01730fa7140bd1
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/tests/test_engine.py
Log Message:
-----------
Make tests run correctly again.
Commit: 5eba4dd1e3c3d5096ebb8a0daf76cf0116b1a812
https://github.com/uzh/gc3pie/commit/5eba4dd1e3c3d5096ebb8a0daf76cf0116b1a812
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/workflow.py
Log Message:
-----------
Demote message about `TaskCollection._get_download_dir()` to WARNING level.
Done in reference to issue #615, to at least mitigate the alarm
caused by a misplaced error message.
Commit: 342bc8c9e59a8a78acb401b552c911444a09d52b
https://github.com/uzh/gc3pie/commit/342bc8c9e59a8a78acb401b552c911444a09d52b
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/tests/test_engine.py
Log Message:
-----------
New method `Engine.find_task_by_id()` to retrieve a task object given its
persistent ID.
Commit: 4a280c8995b50060e8ef4d59a7eb8422948109dc
https://github.com/uzh/gc3pie/commit/4a280c8995b50060e8ef4d59a7eb8422948109dc
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/tests/test_engine.py
Log Message:
-----------
Make tests run correctly again.
Commit: d539e46399f9a1ceba61e62cbd9c72663066a750
https://github.com/uzh/gc3pie/commit/d539e46399f9a1ceba61e62cbd9c72663066a750
Author: HACKERMD <markusdherrm...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
Catch and log errors related to removal of TERMINATED tasks.
Commit: e194ab023cd99f735ccd7900c4fdaf0cb0ef682c
https://github.com/uzh/gc3pie/commit/e194ab023cd99f735ccd7900c4fdaf0cb0ef682c
Author: HACKERMD <markusdherrm...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/core.py
Log Message:
-----------
Engine.progress(): Don't log messages as ERROR when no Exception is raised
Commit: a3e084d188b2da1e0c7b32d2953bc06eb03f4d89
https://github.com/uzh/gc3pie/commit/a3e084d188b2da1e0c7b32d2953bc06eb03f4d89
Author: HACKERMD <markusdherrm...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/persistence/sql.py
Log Message:
-----------
Delay creation of SQLAlchemy engine in `SqlStore` objects.
When running under uWSGI, initialization of GC3Pie's `SqlStore` may happen
before the process is forked so different workers may end up using the same
connection without knowing, which leads to all sort of concurrency problems.
Delaying SQLAlchemy engine creation until first actual use of `SqlStore.save()`
or `SqlStore.load()` seems to solve the problem.
Commit: 9395558ec5ca3e39b288c9bf2ff569be3758b6c3
https://github.com/uzh/gc3pie/commit/9395558ec5ca3e39b288c9bf2ff569be3758b6c3
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/persistence/sql.py
Log Message:
-----------
Update docstring for `gc3libs.persistence.sql.SqlStore`
Commit: 4e8733e3b2a95bb5f3f08004a2f34ab995faa450
https://github.com/uzh/gc3pie/commit/4e8733e3b2a95bb5f3f08004a2f34ab995faa450
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/persistence/sql.py
Log Message:
-----------
SqlStore: Avoid initializing `extra_fields` from a mutable default argument.
Commit: 29dce0ce4ae24fa613edfa4a6965c9cf7766b9ac
https://github.com/uzh/gc3pie/commit/29dce0ce4ae24fa613edfa4a6965c9cf7766b9ac
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/persistence/sql.py
Log Message:
-----------
Perform complete delayed initialization of `SqlStore` upon access of any of 3
critical attributes.
The three critical attributes are `._engine`, `.extra_fields` and
`.t_store`; accessing any one of these will trigger initialization of
the full object -hence- of the other ones as well.
Also restores passing tests in `test_persistence.py`.
Commit: c80470e7e094c56b6aac27145fd76eed94987375
https://github.com/uzh/gc3pie/commit/c80470e7e094c56b6aac27145fd76eed94987375
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/persistence/sql.py
Log Message:
-----------
Use `with closing(...)` blocks around SqlAlchemy DB connections.
Commit: b4a0665a1c62d4104ca115c5832c83876deebf83
https://github.com/uzh/gc3pie/commit/b4a0665a1c62d4104ca115c5832c83876deebf83
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/persistence/sql.py
M gc3libs/persistence/tests/test_persistence.py
Log Message:
-----------
Rename `SqlStore.t_store` to `SqlStore._tables`.
Commit: 2bf9a8980670ad7d4af0e29c21c6fe49566a80e0
https://github.com/uzh/gc3pie/commit/2bf9a8980670ad7d4af0e29c21c6fe49566a80e0
Author: Riccardo Murri <riccardo.mu...@gmail.com>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M gc3libs/persistence/sql.py
Log Message:
-----------
Compatibility alias `SqlStore.t_store` for `SqlStore._tables`
This is a temporary measure until TissueMAPS code is updated;
commit should be reverted when this happens.
Compare: https://github.com/uzh/gc3pie/compare/ac192a5ab433...2bf9a8980670
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