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# Date Author Comment
633c14b3 02 Aug 2022 16:06 Padraig Gleeson (admin)

Update non_omv.yml
abfcdc86 20 Jun 2022 19:39 Padraig Gleeson (admin)

Update setup.py
f545a1ce 29 Oct 2021 16:40 Padraig Gleeson (admin)

Merge pull request #44 from openworm/testpy36

Testpy36
8ac347ca 29 Oct 2021 16:14 Padraig Gleeson (admin)

Update non_omv.yml
969dba44 29 Oct 2021 16:14 Padraig Gleeson (admin)

Update non_omv.yml
21ba9abe 29 Oct 2021 14:59 Padraig Gleeson (admin)

Increment verson, use latest owmeta, pynml in requirements
48f458af 29 Oct 2021 14:23 Padraig Gleeson (admin)

Merge pull request #43 from openworm/development

owmeta latest used and all tests passing
21406db1 29 Oct 2021 14:12 Padraig Gleeson (admin)

Run test script
c9f876a3 29 Oct 2021 14:06 Padraig Gleeson (admin)

Merge branch 'development' of github.com:openworm/c302 into development
c820121e 29 Oct 2021 14:02 Padraig Gleeson (admin)

Test owm bundle remote
5234e40c 29 Oct 2021 06:49 Mark Watts

Adding bundle remote
8cf4ea25 28 Oct 2021 19:36 Padraig Gleeson (admin)

Full path
525f3265 28 Oct 2021 19:31 Padraig Gleeson (admin)

rdflib 5.0.0
3cd54bca 28 Oct 2021 19:28 Padraig Gleeson (admin)

higher rdflib
e2ee4e5c 28 Oct 2021 19:24 Padraig Gleeson (admin)

List dir
ec957373 28 Oct 2021 19:13 Padraig Gleeson (admin)

test owmeta
2ac627ce 28 Oct 2021 17:03 Padraig Gleeson (admin)

Readers
32c6af68 28 Oct 2021 17:02 Padraig Gleeson (admin)

Merge pull request #41 from openworm/development

Development
8f919038 28 Oct 2021 16:54 Padraig Gleeson (admin)

One working
2dc0b768 28 Oct 2021 16:50 Padraig Gleeson (admin)

Use right dir
699d7ffd 28 Oct 2021 16:43 Padraig Gleeson (admin)

Split
106fe611 18 Oct 2021 21:58 Padraig Gleeson (admin)

Update non_omv.yml
201aad98 18 Oct 2021 20:46 Padraig Gleeson (admin)

Update non_omv.yml
b977c039 18 Oct 2021 20:12 Padraig Gleeson (admin)

Update non_omv.yml
f23bd8a6 18 Oct 2021 20:09 Padraig Gleeson (admin)

Merge pull request #40 from openworm/development

More tests
a7cdd345 16 Sep 2021 19:50 Padraig Gleeson (admin)

More tests
f30cc5dc 16 Sep 2021 16:48 Padraig Gleeson (admin)

Replace travis badge
b0af6506 20 Aug 2021 14:33 Padraig Gleeson (admin)

Merge pull request #39 from openworm/development

Add Github actions
be560a76 20 Aug 2021 14:14 Padraig Gleeson (admin)

Disable NON_OMV_TESTS for now...
c21f46a0 20 Aug 2021 14:03 Padraig Gleeson (admin)

ore tests
046fd70f 19 Aug 2021 20:26 Padraig Gleeson (admin)

Add github actions
6a18f50b 07 Jun 2021 21:18 Padraig Gleeson (admin)

To travis-ci.com
250a4d6e 03 Jun 2021 14:15 Padraig Gleeson (admin)

Update .travis.yml
68c9ebc5 15 Apr 2021 23:01 Padraig Gleeson (admin)

Merge pull request #37 from openworm/readme-updates

Adding images for the LEMS_MyNetwork nml run
4f595793 15 Apr 2021 17:33 Mark Watts

Adding images for the LEMS_MyNetwork nml run
5095ab02 14 Apr 2021 18:13 Mark Watts

Recommending pip install rather than calling setup.py (#35)

  • python setup.py install installs pre-releases which breaks some basic examples in the README since owmeta publishes pre-release versions to PyPI (e.g., 0.14.0.dev20210412233714)
9e8b2cbc 09 Apr 2021 16:37 Padraig Gleeson (admin)

Updating nmllite version
ced48b2a 09 Apr 2021 16:20 Padraig Gleeson (admin)

Regenerated nml with latest dev version
0cde870d 09 Apr 2021 14:11 Padraig Gleeson (admin)

Update .openworm.yml
d5750e5c 25 Feb 2021 19:57 Padraig Gleeson (admin)

Regenerated nml with latest libs
97d704e7 25 Feb 2021 18:17 Padraig Gleeson (admin)

Merge pull request #33 from openworm/development

Use owmeta
96a73400 17 Feb 2021 17:57 Padraig Gleeson (admin)

Merge pull request #31 from openworm/development_owmeta

Development owmeta
3c807e87 17 Feb 2021 14:53 Padraig Gleeson (admin)

Regenerated summary
f771f2ed 17 Feb 2021 01:41 Padraig Gleeson (admin)

Test on py3.9
293841fe 17 Feb 2021 01:40 Padraig Gleeson (admin)

More tests to ensure compat with openwormreader
21a8fa2e 17 Feb 2021 00:27 Padraig Gleeson (admin)

More verbose readers, output more comparable
eeefc4f5 16 Feb 2021 23:29 Padraig Gleeson (admin)

Temporarily revert to SpreadsheetDataReader
2411165f 19 Jan 2021 21:04 Padraig Gleeson (admin)

Alphabetical
47902595 19 Jan 2021 20:52 Padraig Gleeson (admin)

Merge branch 'development' into development_owmeta

  • development: Some info files
1afe0040 19 Jan 2021 20:50 Padraig Gleeson (admin)

Some info files
4dd72261 16 Dec 2020 00:15 Padraig Gleeson (admin)

Merge branch 'development' into development_owmeta

  • development: More merging from pow Edits from pow-refactor branch
7216c47f 16 Dec 2020 00:13 Padraig Gleeson (admin)

More merging from pow
c1d5ad53 16 Dec 2020 00:01 Padraig Gleeson (admin)

Edits from pow-refactor branch
aae07fb5 15 Dec 2020 22:08 Padraig Gleeson (admin)

Merge branch 'pow-refactor' into development_owmeta
67e55c14 15 Dec 2020 21:44 Padraig Gleeson (admin)

Printing more conns info
9aff9747 15 Dec 2020 21:37 Padraig Gleeson (admin)

Regenerated and tested
3c1ba26b 15 Dec 2020 15:51 Mark Watts

Updating the owmeta bundle remote URL in README
9ff4d33d 11 Dec 2020 20:19 Padraig Gleeson (admin)

Merge pull request #30 from openworm/ow-0.9.1

Ow 0.9.1
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