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# Date Author Comment
3c1ba26b 15 Dec 2020 15:51 Mark Watts

Updating the owmeta bundle remote URL in README
bb457961 19 Nov 2020 06:59 Mark Watts

Bumping owmeta-core requirement minimum version
13ce30c6 19 Nov 2020 06:58 Mark Watts

Updating owmeta link
2a80903e 06 Oct 2020 18:56 Mark Watts

Using pip for c302 install

  • Hopefully, avoids the bizarre error with the more complicated CLI script generated via setuptools
126f1e1e 06 Oct 2020 09:16 Mark Watts

Fixing bundle remote URL in setup
b61820ff 05 Oct 2020 06:59 Mark Watts

Removing the "sudo" key in .travis.yml

  • Travis-CI reports it is now ignored
2565121c 05 Oct 2020 06:33 Mark Watts

Removing 2.7 from setup.py metadata
84c8b1f7 05 Oct 2020 06:30 Mark Watts

Removing Python 2.7 from Travis-CI
86e15b3b 05 Oct 2020 05:55 Mark Watts

Renaming bundle remote and adding the command to the README
633ca818 04 Oct 2020 22:19 Mark Watts

Fixing cell queries
447da990 04 Oct 2020 21:43 Mark Watts

Tweaking for OpenWormReader
92c19672 04 Oct 2020 21:41 Mark Watts

Using absolute import for Python 3
3b012d27 04 Oct 2020 06:12 Mark Watts

Using OpenWormReader rather than SpreadsheetDataReader for c302_* scripts
16df718d 04 Oct 2020 06:10 Mark Watts

Limiting muscles from OWR to body wall muscles
55111928 04 Oct 2020 06:10 Mark Watts

Using c302 command for test.sh executions of the module
3219b99c 02 Oct 2020 18:57 Mark Watts

Merge branch 'ow-0.9.1' into pow-refactor
682459a6 02 Oct 2020 18:56 Mark Watts

Making test.sh runnable with Python relative imports

  • Running as a script (e.g., python c302/c302_IClamp.py) does not allow to resolve relative imports made in c302_IClamp.py
05493736 02 Oct 2020 18:48 Mark Watts

Adjusting Muscles from owmeta into the format expected by c302
a7bb6e48 02 Oct 2020 10:29 Mark Watts

Starting to make OWR muscles work with c302.generate

  • Still a gap for dealing with inputs
  • Using a somewhat less obscure regex for parsing muscle names into body locations
40cd4b38 02 Oct 2020 10:24 Mark Watts

Making OWR main script work for py3

  • Also changing back to only returning neuron-neuron conns for read_data. Was confused about what to return
c72668fd 02 Oct 2020 08:57 Mark Watts

Fixing c302_utils bundle usage

  • Also correcting misuse of \ in natsort regular expression
2f16f9d3 02 Oct 2020 08:56 Mark Watts

Fixing UpdatedSpreadsheetDataReader for Python 3

  • Relative imports need a dot
c97f0c3b 02 Oct 2020 08:19 Mark Watts

Adding the "hack" for synclass in OWR
88f6ff7f 02 Oct 2020 07:17 Mark Watts

Merge remote-tracking branch 'origin/master' into pow-refactor
949f25d2 02 Oct 2020 07:16 Mark Watts

Returning all connections from OpenWormReader

  • Was just returning neuron-neuron connections
  • Also rewriting _get_cell_info to make better use of owmeta
015be3f8 30 Sep 2020 19:18 Mark Watts

Adding owmeta version to info print-out
ead0e837 30 Sep 2020 19:13 Mark Watts

Making owmeta-provided neuron info optional again
09c5f47e 30 Sep 2020 19:08 Mark Watts

Closing bundle connection earlier

  • Avoids the need for a nullcontext
8e2d9e5a 30 Sep 2020 08:50 Mark Watts

Removing debug print statement
4b498714 30 Sep 2020 08:45 Mark Watts

Reverting unneeded changes to SpreadsheetDataReader.py
40bee6ee 24 Sep 2020 19:44 Padraig Gleeson (admin)

Further py3 improvements
3e3f6694 22 Sep 2020 21:09 Padraig Gleeson (admin)

Increment version; py3 fixes
5294ad67 13 Sep 2020 03:25 Mark Watts

Adding to "total cells" count in OWR from reading connections
4f2980ab 13 Sep 2020 03:25 Mark Watts

Using the query form for Worm query in OpenWormReader

  • Provides resilience to changes in the identifier generation logic
d28d0ad8 13 Sep 2020 03:25 Mark Watts

Removing some duplicate property queries
e09a736d 13 Sep 2020 03:25 Mark Watts

Updating for owmeta-core changes
e86c87a4 13 Sep 2020 03:25 Mark Watts

Using owmeta-core property expression to_objects

  • Makes the query and getting at results cleaner visually
aa92ec58 13 Sep 2020 03:25 Mark Watts

Reusing connections query for muscle data
63e94938 13 Sep 2020 03:25 Mark Watts

Rewriting connections queries with new expression syntax
0aafa545 13 Sep 2020 03:25 Mark Watts

Rewriting OpenWormReader connections query

  • Takes advantage of triples_choices optimization
f80cb3ec 13 Sep 2020 03:25 Mark Watts

Removing "muscle" info in get_cellinfo

  • Never invoked
  • Also, pulling _get_cell_info above population construction loop (~1s)
22148e35 13 Sep 2020 03:25 Mark Watts

Switching to the "stored" context for retrieving from the owmeta-data bundle
eed647bf 13 Sep 2020 03:25 Mark Watts

Falling back to an itertools.nullcontext when unable to create an owmeta bundle
fbb04583 13 Sep 2020 03:25 Mark Watts

Updating from PyOpenWorm to owmeta with bundles
e7e256c7 04 Sep 2020 20:35 Padraig Gleeson (admin)

Add docker image info
28c5cb42 22 Jun 2020 19:06 Padraig Gleeson (admin)

More tests on X
cf00410e 11 Jun 2020 23:02 Padraig Gleeson (admin)

Ideas for "parameters X"
a0de26b1 10 Jun 2020 20:09 Padraig Gleeson (admin)

Regenerated and tested
f1bf287a 10 Jun 2020 20:00 Padraig Gleeson (admin)

Regenerated and tested
69684351 10 Jun 2020 19:09 Padraig Gleeson (admin)

Regenerated
644d7e28 07 Apr 2020 21:04 Padraig Gleeson (admin)

Regenerated with latest c302; adds recommended_duration_ms to network for more approp. sim duration on OSB
3e08908c 26 Mar 2020 20:54 Padraig Gleeson (admin)

Regenerated using local cell_C.xml
a427b161 24 Feb 2020 21:10 Padraig Gleeson (admin)

Increment verison in master
ef6729f9 24 Feb 2020 21:01 Padraig Gleeson (admin)

Increment version c302
3a29ef74 24 Feb 2020 18:49 Padraig Gleeson (admin)

Better version
5df7474d 24 Feb 2020 18:38 Padraig Gleeson (admin)

Specific python module versions
9917a1ad 24 Feb 2020 17:39 Padraig Gleeson (admin)

Merge branch 'master' into ow-0.9

  • master: Tweaks for python3 Test py36 Disable graphical setup in travis Update .travis.yml Update .travis.yml Improved speed Reusing PyOpenWorm connection for all cell metadata queries Merged master & updated to v0.7.4...
2d8e09d7 07 Feb 2020 17:26 Padraig Gleeson (admin)

Tweaks for python3
acd27c55 07 Feb 2020 16:57 Padraig Gleeson (admin)

Test py36
20c03894 07 Feb 2020 16:45 Padraig Gleeson (admin)

Disable graphical setup in travis
a18482a6 07 Feb 2020 16:44 Padraig Gleeson (admin)

Merge branch 'pow-refactor' into test_xenial

  • pow-refactor: Update .travis.yml
4c16bcdc 07 Feb 2020 02:38 Padraig Gleeson (admin)

Update .travis.yml
26a6fc54 06 Feb 2020 23:34 Padraig Gleeson (admin)

Update .travis.yml
b3fd8d5f 06 Feb 2020 23:26 Padraig Gleeson (admin)

Improved speed
7e8eee7a 05 Feb 2020 21:34 Mark Watts

Reusing PyOpenWorm connection for all cell metadata queries
53082c98 04 Feb 2020 16:29 Padraig Gleeson (admin)

Merged master & updated to v0.7.4
3f56b5d4 04 Feb 2020 15:57 Padraig Gleeson (admin)

Merge branch 'master' into pow-refactor

  • master: More ideas More work Random thoughts Regenerated
1a9bb6d8 28 Jan 2020 23:06 Padraig Gleeson (admin)

More ideas
7648cf27 28 Jan 2020 20:17 Padraig Gleeson (admin)

More work
072cf147 28 Jan 2020 19:18 Padraig Gleeson (admin)

Random thoughts
6d89c87b 28 Jan 2020 15:40 Padraig Gleeson (admin)

Regenerated
f1d47214 28 Jan 2020 11:07 Mark Watts

Suppressing some excessive logging from PyOpenWorm when setting up a connection
b1d04c85 28 Jan 2020 11:07 Mark Watts

Using PyOpenWorm without all the global variables

  • Creates a connection for each usage for simplicity
8eba1d5c 16 Jan 2020 23:53 Padraig Gleeson (admin)

Updates for improved import for Python 3

Regenerated nml files
dac64ff3 04 Nov 2019 17:39 Padraig Gleeson (admin)

Add .openworm.yml
70b87470 18 Oct 2019 20:24 Padraig Gleeson (admin)

Merge pull request #23 from necr0n/master

Minor edits: python3 compatibility, dependencies update
a8073cc3 18 Oct 2019 18:14 Vladimir Chukov

Update .travis.yml

Python-dev is required for C extensions
cf5ece76 18 Oct 2019 17:07 Vladimir Chukov

Update init.py

Updating init file to be Python3 compatible
84607c80 09 Oct 2019 18:09 Padraig Gleeson (admin)

Ignoring
930f702e 01 Jul 2019 16:14 Padraig Gleeson (admin)

Update .travis.yml
e3e5d09c 01 Jul 2019 15:55 Padraig Gleeson (admin)

Update README.md
62f248a1 04 Jun 2019 23:36 Padraig Gleeson (admin)

Minor fixes
762be594 04 Jun 2019 14:54 Padraig Gleeson (admin)

Update .travis.yml
ec8f0fd0 03 Jun 2019 23:13 Padraig Gleeson (admin)

Merge pull request #21 from openworm/latest_pyow

Latest pyow
c598e02d 03 Jun 2019 22:51 Padraig Gleeson (admin)

PEP updates
6742a016 31 May 2019 18:49 Padraig Gleeson (admin)

To v0.7.3; Regenerated files
8fd141bf 31 May 2019 16:56 Padraig Gleeson (admin)

Updated use of pyopenworm
31386e8f 24 May 2019 23:00 Padraig Gleeson (admin)

Use local pyopenworm
56effdf8 24 May 2019 22:45 Padraig Gleeson (admin)

Tweaks
8a5425cf 24 May 2019 22:33 Padraig Gleeson (admin)

Missing lib
1665b180 24 May 2019 22:19 Padraig Gleeson (admin)

Test latest pyow
d347c53f 30 Apr 2019 23:24 Padraig Gleeson (admin)

Merge branch 'master' of github.com:openworm/c302

  • 'master' of github.com:openworm/c302: Tiny spelling fix (#20)
c75118c8 30 Apr 2019 23:23 Padraig Gleeson (admin)

Add RIA example
097d4677 23 Apr 2019 08:26 Renaldas Zioma

Tiny spelling fix (#20)
e46ab1b0 22 Mar 2019 22:15 Padraig Gleeson (admin)

Update .travis.yml
2747ad0f 22 Mar 2019 22:03 Padraig Gleeson (admin)

Cleaning up
86d6ed03 22 Feb 2019 01:32 Padraig Gleeson (admin)

Create README.md
7d9a5ed1 07 Feb 2019 15:18 Padraig Gleeson (admin)

Much tidied & tested OpenWormReader & made others all use read_data()

Updated version of c302
a8049973 06 Feb 2019 19:13 Padraig Gleeson (admin)

Updated & tested OpenWormReader, SpreadsheetDataReader etc.
fd0c35e8 18 Jan 2019 15:54 Padraig Gleeson (admin)

Merge branch 'master' of github.com:openworm/c302

  • 'master' of github.com:openworm/c302: Update README.md Update README.md Create OpenWormOverview.md