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Merged
grero merged 1 commit into from
Aug 25, 2020
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Removes 'complete example' from README' #67

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36 changes: 0 additions & 36 deletions README.md
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Original file line number Diff line number Diff line change
Expand Up @@ -47,42 +47,6 @@ class DirFiles(DPT.DPObject):
self.setidx = [0 for i in range(dnum)]
```

### A complete example
Here is an example of how to compute raster and psth for a list for a list of
cells and step through plots of both using PanGUI

```python
import DataProcessingTools as DPT
import numpy as np
import os
import PanGUI

# change this to wherever you keep the data hierarchy
datadir = os.path.expanduser("~/Documents/workingMemory")

# get all the cells for one session
with DPT.misc.CWD(os.path.join(datadir, "Whiskey/20200106/session02")):
cells = DPT.levels.get_level_dirs("cell")

# gather rasters and PSTH for these cells, for the error trials
bins = np.arange(-300, 1000.0, 10)
with DPT.misc.CWD(cells[0]):
raster = DPT.raster.Raster(-300.0, 1000.0, "stimulus1", "reward_on", "stimulus1",
redoLevel=1, saveLevel=0)
psth = DPT.psth.PSTH(bins, 10, trialEvent="stimulus1", sortBy="stimulus1", trialType="reward_on",
redoLevel=1, saveLevel=0)
for cell in cells[1:]:
with DPT.misc.CWD(cell):
praster = DPT.raster.Raster(-300.0, 1000.0, "stimulus1", "reward_on", "stimulus1",
redoLevel=1, saveLevel=0)
raster.append(praster)
ppsth = DPT.psth.PSTH(bins, 10, trialEvent="stimulus1", sortBy="stimulus1", trialType="reward_on",
redoLevel=1, saveLevel=0)
psth.append(ppsth)

app = PanGUI.create_window([raster, psth], cols=1, indexer="cell")
```

## Custom hierarchy

It also possible to customize the hierarchy that DPT understands. This is done with a JSON coded config file. This is what
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