Tools and helper modules¶
Get values¶
Tiny modules to reduce repetition in the main code when extracting information from DICOM headers using pydicom.
- openrem.remapp.tools.get_values.get_keys_by_value(dict_of_elements, value_to_find)¶
Get a list of keys from a dictionary which have the given value :param dict_of_elements: a dictionary of elements :param value_to_find: the value to look for in the dictionary :return: list of key names matching the given value
- openrem.remapp.tools.get_values.get_or_create_cid(codevalue, codemeaning)¶
Create a code_value code_meaning pair entry in the ContextID table if it doesn’t already exist.
- Parameter
codevalue (int.) – Code value as defined in the DICOM standard part 16
codemeaning – Code meaning as defined in the DICOM standard part 16
- Rückgabe
ContextID entry for code value passed
- openrem.remapp.tools.get_values.get_seq_code_meaning(sequence, dataset)¶
From a DICOM sequence, get the code meaning.
- Parameter
sequence (DICOM keyword, no spaces or plural as per dictionary.) – DICOM sequence name.
dataset (DICOM dataset) – The DICOM dataset containing the sequence.
- Rückgabe
str. – code meaning
- openrem.remapp.tools.get_values.get_seq_code_value(sequence, dataset)¶
From a DICOM sequence, get the code value.
- Parameter
sequence (DICOM keyword, no spaces or plural as per dictionary.) – DICOM sequence name.
dataset (DICOM dataset) – The DICOM dataset containing the sequence.
- Rückgabe
int. – code value
- openrem.remapp.tools.get_values.get_value_kw(tag, dataset)¶
Get DICOM value by keyword reference.
- Parameter
tag (str.) – DICOM keyword, no spaces or plural as per dictionary.
dataset (dataset) – The DICOM dataset containing the tag.
- Rückgabe
str. – value
- openrem.remapp.tools.get_values.get_value_num(tag, dataset)¶
Get DICOM value by tag group and element number.
Always use get_value_kw by preference for readability. This module can be required when reading private elements.
- Parameter
tag (hex) – DICOM group and element number as a single hexadecimal number (prefix 0x).
dataset (dataset) – The DICOM dataset containing the tag.
- Rückgabe
str. – value
- openrem.remapp.tools.get_values.list_to_string(dicom_value)¶
Turn multivalue names into a single string for correct encoding and pretty reproduction :param dicom_value: returned DICOM value, usually a name field. Might be single (string) or multivalue (list) :return: string of name(s)
- openrem.remapp.tools.get_values.return_for_export(model, field)¶
Prevent errors due to missing data in models :param model: database table :param field: database field :return: value or None
- openrem.remapp.tools.get_values.test_numeric_value(string_number)¶
Tests if string can be converted to a float. If it can, return it :param string_number: string to test if is a number :return: string if number, nothing otherwise
- openrem.remapp.tools.get_values.to_decimal_value(string_number)¶
Tests if string can be converted to a float. If yes returns it as decimal. :param string_number: string to test if a number :return: Decimal if convertable, None otherwise
Check if UID exists¶
Small module to check if UID already exists in the database.
- openrem.remapp.tools.check_uid.check_uid(uid, level='Study')¶
Check if UID already exists in database.
- Parameter
uid (str.) – Study UID.
- Rückgabe
1 if it does exist, 0 otherwise
- openrem.remapp.tools.check_uid.record_sop_instance_uid(study, sop_instance_uid)¶
Record the object’s SOP Instance UID so we can ignore it next time. If an object does need to be imported again, the original one needs to be deleted first.
- Parameter
study – GeneralStudyModuleAttr database object
sop_instance_uid – SOP Instance UID of object being imported
- Rückgabe
DICOM time and date values¶
Module to convert betweeen DICOM and Python dates and times.
- openrem.remapp.tools.dcmdatetime.get_date(tag, dataset)¶
Get DICOM date string and return Python date.
- Parameter
tag (str.) – DICOM keyword, no spaces or plural as per dictionary.
dataset (dataset) – The DICOM dataset containing the tag.
- Rückgabe
Python date value
- openrem.remapp.tools.dcmdatetime.get_date_time(tag, dataset)¶
Get DICOM date time string and return Python date time.
- Parameter
tag (str.) – DICOM keyword, no spaces or plural as per dictionary.
dataset (dataset) – The DICOM dataset containing the tag.
- Rückgabe
Python date time value
- openrem.remapp.tools.dcmdatetime.get_time(tag, dataset)¶
Get DICOM time string and return Python time.
- Parameter
tag (str.) – DICOM keyword, no spaces or plural as per dictionary.
dataset (dataset) – The DICOM dataset containing the tag.
- Rückgabe
python time value
- openrem.remapp.tools.dcmdatetime.make_date(dicomdate)¶
Given a DICOM date, return a Python date.
- Parameter
dicomdate (str.) – DICOM style date.
- Rückgabe
Python date value
- openrem.remapp.tools.dcmdatetime.make_date_time(dicomdatetime)¶
Given a DICOM date time, return a Python date time.
- Parameter
dicomdate (str.) – DICOM style date time.
- Rückgabe
Python date time value
- openrem.remapp.tools.dcmdatetime.make_dcm_date(pythondate)¶
Given a Python date, return a DICOM date :param pythondate: Date :type pythondate: Python date object :returns: DICOM date as string
- openrem.remapp.tools.dcmdatetime.make_dcm_date_range(date1=None, date2=None, single_date=False)¶
Given one or two dates of the form yyyy-mm-dd, return a DICOM date range.
- Parameter
date1 – Date from, string, yyyy-mm-dd, 1900-01-01 if None or badly formatted
date2 – Date until, string, yyyy-mm-dd, today if None or badly formatted
single_date – Single date range, bool, default False
- Rückgabe
DICOM formatted date range or single date
- openrem.remapp.tools.dcmdatetime.make_dcm_time(python_time)¶
Return DICOM formatted time without seconds from python time
- Parameter
python_time – Python datetime.time object
- Rückgabe
string, %H%M
- openrem.remapp.tools.dcmdatetime.make_dcm_time_range(time1=None, time2=None)¶
Given one or two times of the format 0123, return DICOM formatted time range (without seconds)
- Parameter
time1 – time, format 0123, 0000 if None
time2 – time, format 0123, 2359 if None
- Rückgabe
time range, string, format 0123-1234
- openrem.remapp.tools.dcmdatetime.make_time(dicomtime)¶
Given a DICOM time, return a Python time.
- Parameter
dicomdate (str.) – DICOM style time.
- Rückgabe
Python time value
Test for QA or other non-patient related studies¶
- openrem.remapp.tools.not_patient_indicators.get_not_pt(dataset)¶
Looks for indications that a study might be a test or QA study.
Some values that might indicate a study was for QA or similar purposes are not recorded in the database, for example patient name. Therefore this module attempts to find such indications and creates an xml style string that can be recorded in the database on study import.
- Parameter
dataset (dataset) – The DICOM dataset.
- Rückgabe
str. – xml style string if any trigger values are found.