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update July #2

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update July #2

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itsb and others added 30 commits February 24, 2023 00:10
@itsb
conform to function signature and usage pattern a few lines above
5c65b73
@chriski777
Addresses #930 in which bin_data has trouble dealing with cases in wh…
83d4ebb 
…ich the current batch has fewer frames than the bin_size
@amorsi1
removed ops assignment
d14bf20
@amorsi1
removed deprecated np.bool
ec128fb
@chriski777
Update the version of the dependencies for suite2p
8cb9964
@chriski777
Update np.bool to 'bool' to account for numpy deprecation with latest…
bd65417 
… version
@chriski777
Add Sparse detection to gui as a setting for running suite2p
7d52b30
@chriski777
Addresses #951 and adds nd2 as an input to gui
bea38a9
@chriski777
Fix issue with np.asanyarray being changed in numpy 1.24.4
4d9dd2b
@amorsi1
addressed IndexError
f4e5bb9
@marius10p
Update README.md
7891dd1
@carsen-stringer
Merge pull request #958 from MouseLand/refactor
3dfca21 
Dependency and GUI updates
@marius10p
Update README.md
a060610
@carsen-stringer
fixing skip torch if version 2.0
3c56d1a
@carsen-stringer
adding pep8 style to repo
abfc21c
@carsen-stringer
fixing dictionary splitting
c720257
@carsen-stringer
modifying imports
ebac6b1
@carsen-stringer
converting to "" from ''
d9cd43d
@carsen-stringer
converting binaryfile to memmap
100ddfb
@carsen-stringer
rewriting binarycombined
0a0a301
@carsen-stringer
removing scanimage-tiff-reader for now
fea79e0
@carsen-stringer
fixing dragging in gui and linewidth=88
8aa0ae3
@carsen-stringer
removing old testing yml
cb2ea8e
@carsen-stringer
adding py39, updating readme
29317fe
@carsen-stringer
Merge pull request #925 from itsb/main
a0f6389 
conform to function signature and usage pattern a few lines above
@carsen-stringer
adding option for #955
d38cc00
@carsen-stringer
Merge pull request #961 from MouseLand/dev
da6737c 
Dev
@carsen-stringer
fixing bug in docstring (#902)
8791a59
@carsen-stringer
adding iplane to saved manual ROIs (#789)
15d5666
@carsen-stringer
fixing #747 saving to mat
e1f3790
chriski777 and others added 30 commits December 10, 2023 14:59
@chriski777
Update inputs.rst
1a2763f
@yael-prilutski
Added support for Thorlabs RAW files (io.raw)
47c8053
@yael-prilutski
Merge pull request #1 from yaelpri/feature/raw2bin
7dcc40f 
Added support for Thorlabs RAW files (io.raw)
@yael-prilutski
Added xmltodict
982f4c5
@yael-prilutski
Update raw.py- todo verified
37cf1e8
@yael-prilutski
safe import for xmltodict
b042a22
@chriski777
Merge pull request #1069 from yael-prilutski/feature/raw2bin
193e7f1 
Added support for Thorlabs RAW files (io.raw)
@itsb
support roi extraction of 2-channel data in GUI
1a1bd5b
@carsen-stringer
fixing bug with multiplane registration
361421f
@carsen-stringer
allowing reg_file input to compute_zpos
c6e2915
@carsen-stringer
fixing bug with multi-plane nonrigid ops
02fe382
add support for Hamamatsu DCIMG format
711c376
add support for Hamamatsu DCIMG format
405aff8
add dcimg_deps to all_deps and restrict cellpose to <3.0
05e0d77
@carsen-stringer
Addresses #1093 with cellpose method having too many arguments
b442599
@chriski777 @carsen-stringer
Addresses #1093 with cellpose method having too many arguments
440a113
@carsen-stringer
Merge branch 'main' of https://github.com/MouseLand/suite2p into main
d5384fa
@nguyemi5
Merge branch 'MouseLand:main' into main
6446442
remove cellpose<3.0 restriction
3011cdf
Merge branch 'main' of https://github.com/nguyemi5/suite2p
51c8830
@carsen-stringer
Merge pull request #1100 from nguyemi5/main
4ceac9a 
support for dcimg
@chriski777 @carsen-stringer
Fixes issue #1101 with older version of cellpose
24a7f26
@liadJB
Update zalign.py
1a61fdb 
Made sure that if a reg_file is given to the zalign function it uses it, rather than the ops reg_file
@carsen-stringer
Merge pull request #1106 from liadJB/main
f500c1a 
Update zalign.py
@carsen-stringer
Update setup.py
8fbe1b8
@carsen-stringer
Merge branch 'main' of https://github.com/mouseland/suite2p
d922871
@carsen-stringer
adding dcimg
416024d
@carsen-stringer
removing dcimg extra
d528275
@carsen-stringer
fixing bugs with redcell detection
be8830d
@chriski777
Merge pull request #1086 from itsb/main
c88e1ba 
support roi extraction of 2-channel data in GUI
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