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.

Parameters:

• codevalue (int.) – Code value as defined in the DICOM standard part 16

• codemeaning – Code meaning as defined in the DICOM standard part 16

Returns:

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.

Parameters:

• sequence (DICOM keyword, no spaces or plural as per dictionary.) – DICOM sequence name.

• dataset (DICOM dataset) – The DICOM dataset containing the sequence.

Returns:

str. – code meaning

openrem.remapp.tools.get_values.get_seq_code_value(sequence, dataset)

From a DICOM sequence, get the code value.

Parameters:

• sequence (DICOM keyword, no spaces or plural as per dictionary.) – DICOM sequence name.

• dataset (DICOM dataset) – The DICOM dataset containing the sequence.

Returns:

int. – code value

openrem.remapp.tools.get_values.get_value_kw(tag, dataset)

Get DICOM value by keyword reference.

Parameters:

• tag (str.) – DICOM keyword, no spaces or plural as per dictionary.

• dataset (dataset) – The DICOM dataset containing the tag.

Returns:

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.

Parameters:

• tag (hex) – DICOM group and element number as a single hexadecimal number (prefix 0x).

• dataset (dataset) – The DICOM dataset containing the tag.

Returns:

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.

Parameters:

uid (str.) – Study UID.

Returns:

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.

Parameters:

• study – GeneralStudyModuleAttr database object

• sop_instance_uid – SOP Instance UID of object being imported

Returns:

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.

Parameters:

• tag (str.) – DICOM keyword, no spaces or plural as per dictionary.

• dataset (dataset) – The DICOM dataset containing the tag.

Returns:

Python date value

openrem.remapp.tools.dcmdatetime.get_date_time(tag, dataset)

Get DICOM date time string and return Python date time.

Parameters:

• tag (str.) – DICOM keyword, no spaces or plural as per dictionary.

• dataset (dataset) – The DICOM dataset containing the tag.

Returns:

Python date time value

openrem.remapp.tools.dcmdatetime.get_time(tag, dataset)

Get DICOM time string and return Python time.

Parameters:

• tag (str.) – DICOM keyword, no spaces or plural as per dictionary.

• dataset (dataset) – The DICOM dataset containing the tag.

Returns:

python time value

openrem.remapp.tools.dcmdatetime.make_date(dicomdate)

Given a DICOM date, return a Python date.

Parameters:

dicomdate (str.) – DICOM style date.

Returns:

Python date value

openrem.remapp.tools.dcmdatetime.make_date_time(dicomdatetime)

Given a DICOM date time, return a Python date time.

Parameters:

dicomdate (str.) – DICOM style date time.

Returns:

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.

Parameters:

• 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

Returns:

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

Parameters:

python_time – Python datetime.time object

Returns:

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)

Parameters:

• time1 – time, format 0123, 0000 if None

• time2 – time, format 0123, 2359 if None

Returns:

time range, string, format 0123-1234

openrem.remapp.tools.dcmdatetime.make_time(dicomtime)

Given a DICOM time, return a Python time.

Parameters:

dicomdate (str.) – DICOM style time.

Returns:

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.

Parameters:

dataset (dataset) – The DICOM dataset.

Returns:

str. – xml style string if any trigger values are found.