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Add Z drift metrics to imaging_no_curation #3

Merged
merged 113 commits into from
Aug 10, 2023
Merged

Add Z drift metrics to imaging_no_curation #3

merged 113 commits into from
Aug 10, 2023

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kushalbakshi
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This PR adds z-drift metrics to imaging_no_curation and changes to datajoint/element-calcium-imaging through version 0.5.6.

kabilar and others added 30 commits October 28, 2022 18:52
@kabilar
Fix format
9914121
@kabilar
Merge branch 'main' of https://github.com/datajoint/element-calcium-i…
9195511 
…maging into main
@kabilar
Merge branch 'main' of https://github.com/datajoint/element-calcium-i…
754665b 
…maging into main
add extract in processinmethod & add checks in processingparamset
1f9c9b1
Merge branch 'datajoint:main' into extract
ebb5b3a
extract: motion correction with suite2p
8f67a0c
save motion corrected matrix into mat file
f2f5a30
add run extract
eafda21
add processing_time
809b25e
Curation table
12de225
MotionCorrection table
8aa80ad
add comment
ed19738
ingest Fluorescence table
eca73b8
@kushalbakshi
Bruker PrairieView import added to imaging
8a662a6
code cleaning
67cc3b3
small refactoring
c6f3d2f
@kushalbakshi
Updates from review for bruker support
032a2be
@kabilar
Update element_calcium_imaging/imaging.py
44dcbf1 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
@kabilar
Update element_calcium_imaging/imaging.py
f6c41e2 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
@kabilar
Update element_calcium_imaging/imaging.py
af583f9 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
@kabilar
Update element_calcium_imaging/imaging.py
329a7b6 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
@kabilar
Update element_calcium_imaging/imaging.py
5a216e5 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
@kabilar
Update element_calcium_imaging/imaging.py
cc24a49 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
@kabilar
Update element_calcium_imaging/imaging.py
671e0ab 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
@kabilar
Update element_calcium_imaging/imaging.py
9eb2550 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
@kabilar
Update element_calcium_imaging/imaging.py
39f10fd 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
make mask_zpix nullable
9ff7b96
fix missing quote, change fetch to fetch1 in Processing
03effe9
make mask_center_z nullable
ec9fc85
add extract in concepts.md
5906e96
tdincer and others added 26 commits February 23, 2023 16:38
Merge pull request datajoint#122 from sidhulyalkar/main
7b6ea5c 
Update changelog and version for new release
@kabilar
Update css
b3fd1fb
Merge pull request datajoint#123 from kabilar/main
1f80fb8 
Fix to render images inline
@kushalbakshi
Add requirement for ipywidgets
f561965
@kabilar
Merge pull request datajoint#125 from kushalbakshi/main
96bbcc3 
Add requirement for `ipywidgets`
@kabilar
Update compose file
52cfffc
@kabilar
Update changelog
1f0b549
@kushalbakshi
Merge pull request datajoint#126 from kabilar/main
605f91b 
Fix bug with docs release
@kushalbakshi
Update version for element-interface requirement
4c2b78c
@kabilar
Merge pull request datajoint#129 from kushalbakshi/main
97d1106 
Update version for element-interface requirement
@kushalbakshi
Fix docs tutorials in dark mode
2de3ba9
@kushalbakshi @kabilar
Update docs/src/tutorials/index.md
45fbd33 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
@kushalbakshi @kabilar
Update CHANGELOG.md
49013dc 
Co-authored-by: Kabilar Gunalan <kabilar@datajoint.com>
@kabilar
Merge pull request datajoint#132 from kushalbakshi/main
66e5944 
Fix docs tutorials in dark mode
@kushalbakshi
Merge branch 'main' of https://github.com/dj-sciops/lulab_element-cal…
aa1e53c 
…cium-imaging into lu-lab
@kushalbakshi
Add cannabinoid schema
a234189
@kushalbakshi
Add Z drift calculation schema
3aaf940
@kushalbakshi
Fix formatting in ZDriftParamSet definition comment
e42e8fa
@kushalbakshi
Update foreign key reference
9edbb96
@kushalbakshi
Remove "processing_method" from ZDriftParamSet
ac0b484
@kushalbakshi
Modify key_source for ZDriftMetrics
5ca521e
@kushalbakshi
classmethod -> property for key_source
7ed4e90
@kushalbakshi
Add primary keys of key_source to table definition
6fa531c
@kushalbakshi
Add get_zstack_files function
c0a878e
@kushalbakshi
Bugfix in fetching image file path
c09b3e9
@kushalbakshi
Remove key_source property from ZDriftMetrics
6709903
@kushalbakshi kushalbakshi requested a review from ttngu207 August 2, 2023 16:49
@ttngu207 ttngu207 merged commit 87f2733 into dj-sciops:main Aug 10, 2023
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@ttngu207 ttngu207 ttngu207 approved these changes

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6 participants
@kushalbakshi @ttngu207 @kabilar @tdincer @CBroz1 @sidhulyalkar