ldocker – run a docker image analysis algorithm on a set of curated images

Syntax:

                  ldocker  [a=]<application>  [if=]<input>  [of=]output [od=<output-directory>] [-ic] [-csv]

Description:

ldocker runs a docker algorithm as specified by the <application> on a set of images specified by the <input> list and returns the <output> a csv file of the results, one row per image. All the output values created by the docker (other than DICOM patient information) created by are returned in the output csv file.   To use this application your account must be a member of the “docker” group

Constraints:

lodcker requires write access to the directory where it is run as it needs to create and delete some temporary files and directories during execution

Options:

a= <application> the algorithm to be used the currently available algorithms are: bmd (BMD), chamber(Chambers), fat(Fat)  and (Emphysema).

if=<file>The list of images specified by image-codes to be processed. One image-code per line. Two other input formats are possible as determined by option settings.

of=<file> The file name of the csv result file

od=<directory> All outputs form the docker, intermediate images and json file may be optionally saved when the od= option is specified. The result for each image is saved in a directory which has the name of the image-code inside the <directory> specified by od=.

-ic            The input (if=) specifies an single iamge-code that is to be analyzed

-csv       The input list is specified by a csv file with a column labeled “image” that contains the image-codes to be processed.