Seggridexplore¶
Program to interactively explore grid searches according to different criteria
Input: Grid database
Output: Subgrid merge option
Parameters¶
Parameter |
Example (default) |
Description |
|---|---|---|
Grid database |
grid.db |
Grid database with associated metadata from segclassreconstruct or segrefine3dgrid: accepted file formats (db). |
Batch mode |
False |
Batch mode for plot. Otherwise interactive. |
EM name |
recvol.hdf |
Template output name for associated EM files from grid search: accepted image file formats (hdf) |
Sample parameter file¶
You may run the program in the command line by providing the parameters via a text file:
seggridexplore --f parameterfile.txt
Where the format of the parameters is:
Grid database = grid.db
Batch mode = False
EM name = recvol.hdf
Additional parameters (intermediate level)¶
Parameter |
Example (default) |
Description |
|---|---|---|
Parameter pair |
(1.408, 22.03) |
Parameter pair to extract associated EM files (accepted values min=-1000, max=1000). |
Sample parameter file (intermediate level)¶
You may run the program in the command line by providing the parameters via a text file:
seggridexplore --f parameterfile.txt
Where the format of the parameters is:
Grid database = grid.db
Batch mode = False
EM name = recvol.hdf
Parameter pair = (1.408, 22.03)
Additional parameters (expert level)¶
Parameter |
Example (default) |
Description |
|---|---|---|
Subgrid merge option |
False |
Merge subgrids from multiple grid searches. Either these subgrids were generated using the subgrid option in segrefine3drid or they originate from adjacent grids with the same grid spacing. Enter subgrids using wildcards * or ?? can be used to specify multiple input files. |
Reconstitute Grid |
True |
In case subgrids are merged reconstitute entire grid by reproducing directory tree in one place and generate symbolic links to associated original files. |
Sample parameter file (expert level)¶
You may run the program in the command line by providing the parameters via a text file:
seggridexplore --f parameterfile.txt
Where the format of the parameters is:
Grid database = grid.db
Subgrid merge option = False
Reconstitute Grid = True
Batch mode = False
EM name = recvol.hdf
Parameter pair = (1.408, 22.03)
Command line options¶
When invoking seggridexplore, you may specify any of these options:
usage: seggridexplore [-h] [--g] [--p] [--f FILENAME] [--c] [--l LOGFILENAME] [--d DIRECTORY_NAME] [--version] [--subgrid_merge_option]
[--reconstitute_grid] [--batch_mode]
[input_output [input_output ...]]
Program to interactively explore grid searches according to different criteria
positional arguments:
input_output Input and output files
optional arguments:
-h, --help show this help message and exit
--g, --GUI GUI option: read input parameters from GUI
--p, --promptuser Prompt user option: read input parameters from prompt
--f FILENAME, --parameterfile FILENAME
File option: read input parameters from FILENAME
--c, --cmd Command line parameter option: read only boolean input parameters from command line and all other parameters will be assigned
from other sources
--l LOGFILENAME, --logfile LOGFILENAME
Output logfile name as specified
--d DIRECTORY_NAME, --directory DIRECTORY_NAME
Output directory name as specified
--version show program's version number and exit
--subgrid_merge_option, --sub
Merge subgrids from multiple grid searches. Either these subgrids were generated using the subgrid option in segrefine3drid or
they originate from adjacent grids with the same grid spacing. Enter subgrids using wildcards * or ?? can be used to specify
multiple input files. (default: False)
--reconstitute_grid, --rec
In case subgrids are merged reconstitute entire grid by reproducing directory tree in one place and generate symbolic links to
associated original files. (default: False)
--batch_mode, --bat Batch mode for plot. Otherwise interactive. (default: False)
Program flow¶
extract_desired_em_files: Extract desired EM files
launch_seggridexplore_gui: Explore different grid combinations interactively