Importing data to OpenREM¶
Importing dose related data from DICOM files¶
If you are using linux, or for Windows if you have put
C:\Python27\;C:\Python27\Lib\site-packages;C:\Python27\Scripts onto
your system path, you should be able to import from the command line:
Radiation Dose Structured Reports¶
openrem_rdsr.py filename.dcm
You can use wildcards to process a number of files at once, ie:
openrem_rdsr.py *.dcm
For mammography DICOM images¶
openrem_mg.py filename.dcm
The facility for extracting dose information from mammography DICOM images has been designed and tested with images created with the GE Senographe DS. It has now been tested in a limited fashion with the images generated by the following systems:
- GE Senographe Essential
- Hologic Selenia
- Siemens Inspiration
See Mammography module for testing restrictions.
For radiographic DICOM images¶
openrem_dx.py filename.dcm
It is now possible with OpenREM version 0.5.0 to import dose information from DX and CR images from digital radiography units. As yet, it hasn’t been tested extensively.
For CT dose summary files from Philips CT scanners¶
openrem_ctphilips.py filename.dcm
Importing dose related data from csv files using the command line¶
Patient height and weight information¶
If height and weight data is not available in the DICOM data, but is available
from another source, then it can be imported into the database using the
openrem_ptsizecsv.py function. Normally the key to match the size information
with the studies in the database will be the accession number; however in some
situations this isn’t available and the Study Instance UID can be used instead.
usage:
openrem_ptsizecsv.py [-h] [-u] [-v] csvfile id height weight
-h, --help- Print the help text.
-u, --si-uid- Use Study Instance UID instead of Accession Number.
-v, --verbose- New in 0.3.7 Print to the standard output the success or otherwise of inserting each value.
csvfile- csv file containing the height and/or weight information and study identifier. Other columns will be ignored. Use quotes if the filepath has spaces.
id- Column title for the accession number or study instance UID. Use quotes if the title has spaces.
height- Column title for the patient height (DICOM size) - if this information is missing simply add a blank column with a suitable title. Use quotes if the title has spaces.
weight- Column title for the patient weight - if this information is missing simply add a blank column with a suitable title. Use quotes if the title has spaces.
Changed in version 0.3.7: Verbosity flag added to supress printing to the standard output unless requested.