baccuslab / igor

useful utilities for dealing with igor files in experiments

Igor utilities

for dealing with Igor files in experiments

Installation

Run python setup.py install (for permanent install) or python setup.py develop (for development installation).

Usage

For example, let's say you did an experiment on May 13, 2015. Then you might run something like:

from convert import interleaved_to_chunk
interleaved_to_chunk("150513.bin", "150513_FIFO", "150513")

to convert the FIFO file to a series of binary files, "150513a.bin", "150513b.bin", and so on, where each file contains 1000 seconds of the experiment.

The interleaved_to_chunk function in convert.py requires the following arguments: headerfile - the sample header .bin file, fifofile - contains the experiment data as a FIFO file (output from the recording system),and outputfilebase - the desired base filename for the output files (a letter is appended to denote each of the 1000 second segments).

Requires

• Numpy

igor's Issues

memory issues with `interleaved_to_h5`

my script crashed Lane's computer, not on purpose this time

"chanlist" feature in recording.binary.readbin() outputs half as many samples as expected

When calling recording.binary.readbin() with chanlist=[n], where n is any channel's integer index, the data has half as many samples as you'd expect from readbinhdr['nsamples']. The data retrieved using the chanlist flag also differs from the same channel's data retrieved without using the chanlist flag.

This was observed on a .bin file recorded on July 2nd, 2015 under the new FIFO->BIN conversion script.

Ex. If you want to get just the photodiode trace (channel 0), using chanlist = [0] you will only get 1/2 of the samples from that file.