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Mph plots #101

Merged
merged 111 commits into from
Jul 12, 2022
Merged

Mph plots #101

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fde8a5c
setup branch and notebook
camisowers Apr 28, 2022
993c1a3
it works
camisowers Apr 29, 2022
6b67313
format and comments
camisowers May 5, 2022
d3b4d0e
regression line plot
camisowers May 5, 2022
ec9b6b3
Merge branch 'main' into MPH_plots
camisowers May 5, 2022
1ac57d8
move notebook functionality to helper functions
camisowers May 7, 2022
4a65409
Merge remote-tracking branch 'origin/MPH_plots' into MPH_plots
camisowers May 7, 2022
4618eeb
pycode style
camisowers May 10, 2022
51538d7
add mass functionality
camisowers May 11, 2022
407bcd9
fix existing csv issue
camisowers May 16, 2022
4ed3a60
add estimated time to mph functions and csvs
camisowers May 16, 2022
35540d6
add time axis to plots
camisowers May 16, 2022
64090d2
stupid character limit
camisowers May 16, 2022
aaa3e4b
add default mass_range
camisowers May 17, 2022
3f3a29f
comments
camisowers May 17, 2022
3725bc3
path validation
camisowers May 17, 2022
f53db8e
change mass_range to mass_start and mass_stop
camisowers May 17, 2022
f92ee51
get total_count for one fov at a time
camisowers May 17, 2022
f62d216
fix background issue
camisowers May 17, 2022
fabe5ed
validate paths issue
camisowers May 18, 2022
8aec085
cumulative total counts list
camisowers May 18, 2022
45fcb63
enumerate
camisowers May 18, 2022
0d0e5a7
compute_mph_metrics work one fov at a time
camisowers May 19, 2022
4f1e0d0
remove return functionality
camisowers May 19, 2022
e161b1e
Merge branch 'MPH_plots' into time_axis
camisowers May 19, 2022
2c8d9c0
typo
camisowers May 19, 2022
6b1d450
fix axis merge cumulative count
camisowers May 19, 2022
6cc4fe1
save figure change
camisowers May 19, 2022
e55d320
save figure change
camisowers May 19, 2022
885ac1f
fix time axis to have standard ticks
camisowers May 20, 2022
fbb9ed4
Merge branch 'MPH_plots' into time_axis
camisowers May 20, 2022
d5569d7
fix time axis to have standard ticks
camisowers May 20, 2022
7ab1267
Merge remote-tracking branch 'origin/time_axis' into time_axis
camisowers May 20, 2022
60ba28a
update images
camisowers May 20, 2022
b5fd28a
Merge pull request #105 from angelolab/time_axis
camisowers May 24, 2022
1dba497
delete and generate new csv for combine_mph_metrics
camisowers May 24, 2022
ca7cc8e
delete and generate new jpg for visualize_mph
camisowers May 24, 2022
47445ab
fix time retrieval to work one fov at a time
camisowers May 24, 2022
2169179
tests for get_estimated_time
camisowers May 24, 2022
fdbb60e
tests for compute_mph_metrics
camisowers May 25, 2022
fbbaf10
raise error for bad json and add test
camisowers May 26, 2022
e09b447
tests for combine_mph_metrics and add os.remove for test csvs
camisowers May 26, 2022
d0f9ef2
remove unecessary plt.show()
camisowers May 26, 2022
1285b3c
add directory tests to combine_mph
camisowers May 26, 2022
1673e40
tests for visualize_mph
camisowers May 26, 2022
9434570
add return functionality & test for combine_mph_metrics
camisowers May 31, 2022
400d12d
condense data retrieval from csv
camisowers May 31, 2022
40f0564
Merge branch 'main' into MPH_plots
camisowers May 31, 2022
ee4da48
csv_dir to save fov csvs to, remove bin_file_path arg for combine_mph
camisowers May 31, 2022
45b50d8
add watcher callbacks
camisowers May 31, 2022
7d01b37
update requirements.txt
camisowers Jun 1, 2022
b430c24
add test prefix
camisowers Jun 2, 2022
3ace025
fix path issues
camisowers Jun 2, 2022
adbd0ff
really fix the path issues this time
camisowers Jun 2, 2022
e1ab03d
fix json test error
camisowers Jun 2, 2022
b43a0a8
really fix json test error
camisowers Jun 2, 2022
07955bc
use TemporaryDirectory instead of NamedTemporaryFile
camisowers Jun 6, 2022
13885ca
fix watcher argument names
camisowers Jun 6, 2022
ca59fca
argument name change to bin_file_dir and comments
camisowers Jun 7, 2022
82f8639
remove excess path validations
camisowers Jun 7, 2022
4e3aa10
tims axis from ms to hours
camisowers Jun 7, 2022
277294b
function for sample mph data
camisowers Jun 7, 2022
19068d4
watcher tests
camisowers Jun 8, 2022
e1dc805
some case name changing
camisowers Jun 9, 2022
a900e20
take in all args
camisowers Jun 9, 2022
c8a1f93
add required args to tests
camisowers Jun 13, 2022
eaf9e69
remove target argument
camisowers Jun 14, 2022
a2f201b
watcher tests are working omg
camisowers Jun 14, 2022
2277278
Merge branch 'main' into MPH_plots
camisowers Jun 14, 2022
0585aef
add mph to WatcherCases
camisowers Jun 14, 2022
bf600a5
Merge remote-tracking branch 'origin/MPH_plots' into MPH_plots
camisowers Jun 14, 2022
19c132e
set defaults for mass specs
camisowers Jun 14, 2022
5af5de8
mph_output_dir --> mph_out_dir
camisowers Jun 14, 2022
408c9ff
out_dir --> img_out_dir
camisowers Jun 14, 2022
275f942
update watcher notebook
camisowers Jun 14, 2022
d269df3
set default regression=False
camisowers Jun 14, 2022
804739a
comments
camisowers Jun 14, 2022
751c591
regression defualt in tests
camisowers Jun 15, 2022
ef2cb06
fix failing tests
camisowers Jun 15, 2022
886c203
fix failing tests 2
camisowers Jun 15, 2022
031926c
update test_watcher
camisowers Jun 16, 2022
1a17736
adam is the goat
camisowers Jun 16, 2022
4860e43
fix double points
camisowers Jun 22, 2022
8a35f00
clean notebook
camisowers Jun 22, 2022
4ff4ca4
Merge branch 'main' into MPH_plots
camisowers Jun 22, 2022
9f9d48d
name change and mph_dir
camisowers Jun 22, 2022
11dba1d
pulse_height.csv -> mph_pulse.csv
camisowers Jun 22, 2022
b9bdae1
img_out_dir -> plot_dir
camisowers Jun 22, 2022
9fa212f
Merge remote-tracking branch 'origin/MPH_plots' into MPH_plots
camisowers Jun 22, 2022
1505791
img_out_dir -> plot_dir 2
camisowers Jun 23, 2022
445a428
csv renaming
camisowers Jun 23, 2022
7f9d141
Merge branch 'main' into MPH_plots
camisowers Jun 27, 2022
8f0a7cb
new data and fov sortiing
camisowers Jun 27, 2022
6857087
time axis accurate
camisowers Jun 28, 2022
016356e
stray pulse_height.csv
camisowers Jun 28, 2022
5614cb6
separate generate_time_ticks() function
camisowers Jun 29, 2022
9d83c0e
test_generate_time_ticks
camisowers Jun 29, 2022
ef54b4a
Merge branch 'main' into MPH_plots
camisowers Jun 29, 2022
28f4395
Merge remote-tracking branch 'origin/MPH_plots' into MPH_plots
camisowers Jun 29, 2022
0292f79
use normalize.compute_run_metrics, changes to mph_pulse_combined.csv
camisowers Jun 29, 2022
3b8d738
edit notebook for new csv name
camisowers Jun 29, 2022
f47ad6e
Merge branch 'main' into MPH_plots
camisowers Jun 29, 2022
e5d99b2
pycodestyle
camisowers Jun 29, 2022
e0ebefb
Merge branch 'main' into MPH_plots
camisowers Jun 30, 2022
f436f7f
Merge remote-tracking branch 'origin/MPH_plots' into MPH_plots
camisowers Jun 30, 2022
23c1ff2
pycodestyle
camisowers Jun 30, 2022
08a2e68
notebook tested on data and comments
camisowers Jul 8, 2022
4d285d8
notebook updated
camisowers Jul 11, 2022
52dbe1e
natsort and readme update
camisowers Jul 12, 2022
6139219
notebook renaming
camisowers Jul 12, 2022
0f9b8c2
broken links fix
camisowers Jul 12, 2022
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