Configuration¶
The config
module can be used to alter and ColiCoords
’ default configuration values. These are mostly default
values in relation to the generation of graphs via the plot
module and they do not affect coordinate transformations.
These default values for plot generation can be overruled by giving explicit keyword arguments to plot functions.
Name | Type | Default value | Units | Description |
---|---|---|---|---|
IMG_PIXELSIZE | float |
80 | Nanometers | Pixel size of the acquired images. |
ENDCAP_RANGE | float |
20.0 | Pixels | Default bounds for positions of cell’s poles used in bounded optimization. |
R_DIST_STOP | float |
20.0 | Pixels | Upper limit for generation of radial distribution curves. |
R_DIST_STEP | float |
0.5 | Pixels | Step size between datapoints for generation of radial distribution curves |
R_DIST_SIGMA | float |
0.3 | Pixels | Size of the sigma parameter of gaussian used for convolution to generate radial distribution curves. |
L_DIST_NBINS | int |
100 | - | Number of bins to generate the longitudinal distribution curves. |
L_DIST_SIGMA | float |
0.5 | Pixels | Size of the sigma parameter of gaussian used for convolution to generate longitudinal distribution curves. |
PHI_DIST_STEP | float |
1.0 | Degrees | Step size between datapoints for generation of angular distribution curves. |
PHI_DIST_SIGMA | float |
5.0 | Degrees | Size of the sigma parameter of gaussian used for convolution to generate longitudinal distribution curves. |
CACHE_DIR | str |
- | Path to the chache dir directory. | |
DEBUG | bool |
False | - | Set to True to print numpy division warnings. |