Code

Rc/2.16.0#2722

Code

Merged

morriscb merged 95 commits intomasterAllenInstitute/AllenSDK:masterfrom rc/2.16.0AllenInstitute/AllenSDK:rc/2.16.0Copy head branch name to clipboardNov 9, 2023

+183,181-170,555

Commits

Commits on Aug 8, 2023

• Add new nwb writers with metadata comparison.

  Show description for 91456bf
  morriscb

  committed
  91456bf

• Add session_type and project code parsing.

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  morriscb

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  47b14c6

• isort+black

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  9ed214a

• Add stimulus_block_name column to stimulus_presentations.

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  morriscb

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  c9ced58

• Add trials_id creation to BehaviorSession.from_lims

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  morriscb

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  394265b

• isort+black

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  71d98ca

• Changes to support python 3.10

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  aamster

  authored and

  morriscb

  committed
  1ef1c85

• update setup

  

  aamster

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  4973c33

• remove upper bound on matplotlib

  

  aamster

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  6e664d7

• Revert "allow manually running nightly"

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  aamster

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  morriscb

  committed
  627b028

• set seed for df.sample

  

  mikejhuang

  authored and

  morriscb

  committed
  af046ae

• Clean up NWB creation code.

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  morriscb

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  4263a89

• isort+black

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  4afd032

• read session_type from db

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  aamster

  authored and

  morriscb

  committed
  61eb2b0

• remove logic that read session_type and daq from vbn code path

  

  aamster

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  8cc18e1

• read date of acquisition from lims

  

  aamster

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  5190992

• remove unused import

  

  aamster

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• lint

  

  aamster

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  b662c9c

• ignore column order in test

  

  aamster

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  committed
  ee98346

• revert left join on ophys containers

  

  aamster

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  80d16d8

• abstracts out logic to merge columns

  

  aamster

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  morriscb

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  e185833

• fix bug due to duplicated project_code logic

  

  aamster

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  morriscb

  committed
  640ae73

• Update behavior metadata writer.

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  morriscb

  committed
  8da875a

• flip input axes to _gaussian_function_2d to conform to np.array

  

  mikejhuang

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  committed
  f718c57

• lint

  

  mikejhuang

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  82f6fcd

• isort+black+manual comment line length editing receptive_field_mapping

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  mikejhuang

  authored and

  morriscb

  committed
  7148ac8

• Updating images to use PIL Image

  

  Ahad-Allen

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  morriscb

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  fc126ea

• Add negative running speed check.

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  morriscb

  committed
  d9893a0

• Clean up for VBO update release

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  morriscb

  committed
  55eb2b9

• Implement fixes to presentations table.

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  morriscb

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  9defb58

• Add new information to templates data.

  morriscb

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  04506b3

• Add stimulus template for movies.

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  morriscb

  committed
  00b4e98

• load probe lfp metadata without needing to load lfp

  

  aamster

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  morriscb

  committed
  5d7bd78

• Add removal of omitted stimulus to presentations.

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  morriscb

  committed
  005e680

• Unpeg statsmodels

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  morriscb

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  e271391

• Check for non-zero df length.

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  morriscb

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  f6942c0

• isort+black

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  6e0647b

• set structure_id to primary_injection_structure instead of first structure in list

  

  mikejhuang

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  morriscb

  committed
  2a15fae

• lint

  

  mikejhuang

  authored and

  morriscb

  committed
  27e48f7

• lint

  

  mikejhuang

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  64943f0

Commits on Aug 9, 2023

• Fix for namespaces issue

  brendanjohnharris

  committed
  b8e4882

Commits on Aug 10, 2023

• fix deprecated np.bool

  mikejhuang

  committed
  3076275

• fix Int64Index deprecation and explicit requirement for regex boolean on str.replace

  mikejhuang

  committed
  745d668

• fix pandas reindex change

  mikejhuang

  committed
  f89538a

• change check_less_precise to rtol in assert_series_equal

  mikejhuang

  committed
  b2f540d

• fix attempt to reindex a MultiIndex

  mikejhuang

  committed
  ad6c339

• fix deprecated np.float and np.int

  mikejhuang

  committed
  a77531f

• downgrade pandas=1.53, hdmf=3.4.7, pynwb=2.3.3

  mikejhuang

  committed
  a951f09

• add python 3.11 to github actions

  mikejhuang

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  d311a5e

• add Python 3.11 in setup.py

  mikejhuang

  committed
  0f714ec

• remove poetry related setup config

  mikejhuang

  committed
  4e65a29

Commits on Aug 11, 2023

• Updates before VBO re-release

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  morriscb

  committed
  64e334f

• Merge branch 'ticket/PSB-171/dev' into rc/2.16.0

  morriscb

  committed
  7af2406

• change bool_ to bool

  mikejhuang

  committed
  26a4665

Commits on Aug 14, 2023

• Merge pull request #2716 from AllenInstitute/psb-172/update_dependency_compatibility

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  mikejhuang

  authored
  e768fcc

Commits on Aug 21, 2023

• Add additional column for quality value in units.csv.

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  morriscb

  committed
  163414e

• Fix linting on failing files updated in previous commit.

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  morriscb

  committed
  2c9dc0c

• Merge branch 'ticket/PSB-167/addQualityToMetadataTable' into rc/2.16.0

  morriscb

  committed
  a3aa0cf

• Add is_sham_change column.

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  morriscb

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  b950704

• isort+black

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• Merge branch 'ticket/PSB-155/dev' into rc/2.16.0

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  committed
  420d6e2

Commits on Sep 8, 2023

• Merge pull request #2714 from brendanjohnharris/namespace-fix

  Show description for e0aa7e3
  morriscb

  authored
  e0aa7e3

• unpin hdmf and pynwb

  mikejhuang

  committed
  f952b32

• exclude failed version ranges from hdmf

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  mikejhuang

  committed
  0b3d496

• Merge pull request #2720 from AllenInstitute/unpin_hdmf_and_pynwb

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  mikejhuang

  authored
  deab76b

Commits on Sep 11, 2023

• Increment version.

  Show description for 9052d0d
  morriscb

  committed
  9052d0d

Commits on Sep 26, 2023

• Clean up code and add info to change log/release notes.

  Show description for 2e58703
  morriscb

  committed
  2e58703

• Merge branch 'ticket/PSB-200/dev' into rc/2.16.0

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  committed
  22106c4

Commits on Sep 27, 2023

• Add fixes to notebooks.

  Show description for cb5c52a
  morriscb

  committed
  cb5c52a

• Update notebooks

  

  morriscb

  authored and

  github-actions[bot]

  committed
  dccacd9

Commits on Sep 28, 2023

• Revert to json for vbn packaging.

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  morriscb

  committed
  715f728

• Merge branch 'ticket/PSB-227/dev' into rc/2.16.0

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  d0c44bc

Commits on Oct 6, 2023

• Add timezone to behavior session table daq.

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  committed
  50fa924

• Merge branch 'ticket/PSB-235/dev' into rc/2.16.0

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  committed
  8eb86aa

Commits on Oct 12, 2023

• Add natural movie cache class.

  Show description for c6202e6
  morriscb

  committed
  c6202e6

• Merge branch 'ticket/PSB-207/dev' into rc/2.16.0

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  committed
  ecae373

Commits on Oct 25, 2023

• Explicitly set xarray coordinates.

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  3df4687

• Merge branch 'ticket/PSB-257/dev' into rc/2.16.0

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  committed
  fe87c87

Commits on Nov 1, 2023

• Address comments on release from Marina

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  committed
  f1ae5ab

• isort+black

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• Merge branch 'ticket/PSB-249/dev' into rc/2.16.0

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  f8ea31b

Commits on Nov 3, 2023

• Remove skip and test lims consistency with new data.

  Show description for 03a784c
  morriscb

  committed
  03a784c

• Add section to vbo sphinx page.

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  morriscb

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  fd138ea

• isort+black

  morriscb

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  6fe632e

• Update more docs

  morriscb

  committed
  77737ec

• Merge branch 'ticket/PSB-7/dev' into rc/2.16.0

  morriscb

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  5a66e26

• Modify notebooks to use stimulus presentations.

  morriscb

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  1c51e73

• Debug notebook.

  morriscb

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  18c5340

Commits on Nov 6, 2023

• Fix type for pandas query.

  morriscb

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  4b497ed

• Add comment.

  morriscb

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  387a0bc

• Update notebooks

  

  morriscb

  authored and

  github-actions[bot]

  committed
  9b3b52d

Commits on Nov 8, 2023

• Update where cache points.

  Show description for 5337446
  morriscb

  committed
  5337446

• Add doc on traces.

  morriscb

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  9b17c6d

• Clarify trace change log comment.

  morriscb

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  b53471f

Commits on Nov 9, 2023

• Update changelog and index.

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  1454801