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vr behaviour implemented #13

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@a-zmz a-zmz commented Oct 22, 2025

implementations:

  • add stream level
  • add decorators
  • separate pixels utils
  • vr behaviour
  • motion correction
  • spikeinterface based spike sorting, pre and post processing

a-zmz added 30 commits June 2, 2025 11:17
@a-zmz
import the whole math_utils
031bea8
@a-zmz
add pre_dark_len event
28ff1aa
@a-zmz
add note & clarify format
d7a2507
@a-zmz
map end of pre dark visible tunnel
9528224
@a-zmz
add todo
da167d6
@a-zmz
takes event label to check what is the actual starting position
8b08373
@a-zmz
remove redundant imports; use InfFlag for automatic bit shift
ee21cd9
@a-zmz
use intflag to automatically shift bit instead of doing it manually
ec38b23
@a-zmz
use unsigned int32 dtype to increase upper bound
8175a22
@a-zmz
update refactor version
f9a843a
@a-zmz
change name of the class to what it actually represents
305f42e
@a-zmz
reorganise positional events
a56f0c7
@a-zmz
add notes and change name of the array
a0092fd
@a-zmz
create view to refer to array
d53833c
@a-zmz
use bitwise_or to assign values to labels array
45c00ef
@a-zmz
map more positional events
6cdffd1
@a-zmz
change name to represent what it actually is
2455aa5
@a-zmz
use last frame in zone as reward zone off
7947a68
@a-zmz
use NamedTuple
ab64025
@a-zmz
add none type
903ec4c
@a-zmz
use enum & auto to map labels
b8a5686
@a-zmz
use unsigned int32 to ensure no overflowing
9bf0dd9
@a-zmz
use DARKS
4805270
@a-zmz
add todo
5ec792b
@a-zmz
return more structured
1fc4307
@a-zmz
remove redundant
227d12e
@a-zmz
define world mask so it can be used globally
fed0066
@a-zmz
input vr behaviour obj
98a749a
@a-zmz
use uint32 not 64
245abd1
@a-zmz
fix main logic
b90dfb1
a-zmz added 30 commits October 11, 2025 21:57
@a-zmz
align to wall on/off events
54eee61
@a-zmz
use 1 index for landmarks to be consistent with virtual_reality.py cu…
eb167ce 
…z black wall is landmark 0
@a-zmz
stuff
f6db632
@a-zmz
remove redundant
be3c024
@a-zmz
skip if number of starts less than 2
77a4613
@a-zmz
fix typo
b29ae23
@a-zmz
load merged sorting analyser if there is one
f5e5bbe
@a-zmz
add file with merge units group
9b5c387
@a-zmz
set default to thread for fedora cuz process does not work for now...
225a195
@a-zmz
add merged sa and use it if exists
7e1f26e
@a-zmz
get chance of we do align units from trial start to end
fc717e0
@a-zmz
use path not dir
3a62cce
@a-zmz
get max channel index
b7204b2
@a-zmz
rename to differentiate from template metrics rule
48285e4
@a-zmz
show removed bad unit ids
238c14d
@a-zmz
use template metrics to filter units
5d18df6
@a-zmz
implement template metrics filter non somatic units
788e08e
@a-zmz
get chance with aligning in base.py
f73f766
@a-zmz
add todo
84b3cd9
@a-zmz
allow of_dates from mice in nested list
01c4946
@a-zmz
change name of arg to em_method (estimate_motion_method) cuz the the …
32970cc 
…different bit for ap and lfp is at motion estimation step
@a-zmz
input motion correction method, then define motion estimation method
499ca4d
@a-zmz
show surface depth
be20291
@a-zmz
add double quotes
9effe46
@a-zmz
get binned chance data
ebbda01
@a-zmz
save chance data in zarr not memmap
e3e738d
@a-zmz
bin chance given chance is zarr not memmap
1dc379c
@a-zmz
do not use welch by default it smooth too much
833d2de
@a-zmz
use implementation of df zarr in decorators
3e4143b
@a-zmz
add sampling rate
900fe4a
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@a-zmz