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doseHunter.cs
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doseHunter.cs
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/*
User input :
The user must provide 3 files (file names MUST be id.txt and index.txt)
See documentation
Output: (in out/ dir.)
log.txt: main information about the execution
data.csv: all collected data
*/
using System;
using System.Text.RegularExpressions;
using System.Linq;
using System.Text;
using System.Collections.Generic;
using VMS.TPS.Common.Model.API;
using VMS.TPS.Common.Model.Types;
using System.Threading;
using System.IO;
using System.Linq.Expressions;
using System.Windows.Controls;
using static VMS.TPS.Program;
using System.IO.Packaging;
using System.Diagnostics;
using System.Reflection;
namespace VMS.TPS
{
class Program
{
#region Calculate DVH
public class DVH
{
public DVH() {; }
#region CalculeDvh
internal DVHData CalculateDvh(PlanUncertainty uncert_plan, Structure structure, string volume_representation) // Function de generate DVHData variable
{
if (volume_representation.ToUpper() == "RELATIVE")
{
return uncert_plan.GetDVHCumulativeData(structure,
DoseValuePresentation.Absolute,
VolumePresentation.Relative, 0.001);
}
else
{
return uncert_plan.GetDVHCumulativeData(structure,
DoseValuePresentation.Absolute,
VolumePresentation.AbsoluteCm3, 0.001);
}
}
#endregion
#region extract_VolumeAtDose
internal double extract_VolumeAtDose(List<(double, double)> dvh_table, string Value, PlanSetup MyPlan, Structure MyStruct) // Function to calculate the Volume at certain Dose (Gy) from the DVHData
{
double closestVolume = 0;
double VolumeAsked = 0.0000, DoseAsked = 0.0000;
double PresDose = MyPlan.TotalDose.Dose;
double toleranceV = 0.01, ToleranceD = 0.01;
double StructVol = MyStruct.Volume;
List<(double, double)> AverageDVH = new List<(double, double)>();
List<(double, double)> DvhDiff = new List<(double, double)>();
#region Mean, Median, Min et Max
if (Value.ToUpper() == "MEAN") // HDV cumule
{
double Volcc = 0;
for (int i = dvh_table.Count - 1; i > 0; i--)
{
Volcc = (1 - ((dvh_table[i].Item2/100) * StructVol)) - (1 - ((dvh_table[i-1].Item2/ 100) * StructVol));
DvhDiff.Add((dvh_table[i].Item1,Volcc));
}
closestVolume = DvhDiff.Sum(x => x.Item1 * x.Item2) / StructVol;
return closestVolume;
}
if (Value.ToUpper() == "MEDIAN")
{
closestVolume = dvh_table.Where(pair => Math.Abs(pair.Item2) <= 50 + toleranceV && Math.Abs(pair.Item2 - VolumeAsked) >= 50 - toleranceV).Select(pair => pair.Item1).FirstOrDefault();
return closestVolume;
}
if (Value.ToUpper() == "MIN")
{
closestVolume = dvh_table.Where(pair => pair.Item2 == 100).Select(pair => pair.Item1).LastOrDefault();
return closestVolume;
}
if (Value.ToUpper() == "MAX")
{
closestVolume = dvh_table.Max(pair => pair.Item1);
return closestVolume;
}
#endregion
#region D__% or D__cc
try
{
if (Value.Contains("D")) // ne fonctionne pas sans cette condition
{
string d_at_v_pattern = @"^D(?<evalpt>\d+\p{P}\d+|\d+)(?<unit>(%|cc))$"; // matches D95%, D2cc
var testMatch = Regex.Matches(Value, d_at_v_pattern);
Group eval = testMatch[0].Groups["evalpt"];
Group unit = testMatch[0].Groups["unit"];
double.TryParse(eval.Value, out VolumeAsked);
if (testMatch.Count != 0)
{
if (unit.Value == "%") //Relative volume
{
closestVolume = dvh_table.Where(pair => Math.Abs(pair.Item2 - VolumeAsked) < toleranceV).Select(pair => pair.Item1).FirstOrDefault();
if (VolumeAsked == 100) // permet de gérer les multiples valeurs de dose pour le 100% de couverture dans l'HDV cumulatif
{
closestVolume = dvh_table.Where(pair => Math.Abs(pair.Item2 - VolumeAsked) < toleranceV).Select(pair => pair.Item1).LastOrDefault();
}
}
else if (unit.Value == "cc") //Absolute volume
{
closestVolume = dvh_table.Where(pair => Math.Abs((pair.Item2 / 100) * StructVol - VolumeAsked) < toleranceV).Select(pair => pair.Item1).FirstOrDefault();
}
return closestVolume;
}
}
}
catch (Exception ex)
{
Console.WriteLine(ex.ToString(), " for {0} ", Value);
}
#endregion
#region V__Gy
try
{
if (Value.Contains("V")) // ne fonctionne pas sans cette condition
{
string v_at_d_pattern = @"^V(?<evalpt>\d+\p{P}\d+|\d+)(?<unit>(%|cc))$"; // matches V50.4cc or V50.4%
var testMatch = Regex.Matches(Value, v_at_d_pattern);
Group eval = testMatch[0].Groups["evalpt"];
Group unit = testMatch[0].Groups["unit"];
double.TryParse(eval.Value, out DoseAsked);
if (testMatch.Count != 0) // count is 1
{
if (unit.Value == "%") //Relative Volume
{
closestVolume = dvh_table.Where(pair => Math.Abs(pair.Item1 - DoseAsked) < ToleranceD).Select(pair => pair.Item2).FirstOrDefault();
if (VolumeAsked == 100) // permet de gérer les multiples valeurs de couverture pour la dose dans l'HDV cumulatif
{
closestVolume = dvh_table.Where(pair => Math.Abs(pair.Item1 - DoseAsked) < ToleranceD).Select(pair => pair.Item2).LastOrDefault();
}
}
else if (unit.Value == "cc") //Absolute volume
{
closestVolume = dvh_table.Where(pair => Math.Abs(pair.Item1 - DoseAsked) < ToleranceD).Select(pair => pair.Item2 * StructVol / 100).FirstOrDefault();
}
return closestVolume;
}
}
}
catch (Exception ex)
{
Console.WriteLine(ex.ToString(), " for {0} ", Value);
}
return closestVolume;
}
#endregion
#endregion
#region CurveData2Table
internal List<(double, double)> CurveData2Table(DVHData dvh_data)
{
List<(double, double)> dvh_table = new List<(double, double)>(); //Table that will store dvh curve
//Place the DVH Data into a table
foreach (DVHPoint dvh_points in dvh_data.CurveData)
{
dvh_table.Add((dvh_points.DoseValue.Dose, dvh_points.Volume));
}
return dvh_table;
}
#endregion
}
#endregion
[STAThread]
#region EMPTY MAIN PROGRAM
static void Main(string[] args)
{
try
{
using (Application app = Application.CreateApplication())
{
Execute(app);
}
}
catch (Exception e)
{
Console.Error.WriteLine(e.ToString());
Console.ReadLine();
}
}
#endregion
#region EXECUTE PROGRAM, THE REAL MAIN
static void Execute(Application app)
{
Stopwatch stopwatch = new Stopwatch();
stopwatch.Start();
#region WELCOME MESSAGE
Console.WriteLine("-+-+-+-+-+-+-+-+-+-+-+-+-+-+-+-+-+-");
Console.WriteLine("");
Console.WriteLine(" D O S E H U N T E R ");
Console.WriteLine("");
Console.WriteLine(" Luc SIMON, 2021");
Console.WriteLine("");
Console.WriteLine("-+-+-+-+-+-+-+-+-+-+-+-+-+-+-+-+-+-");
#endregion
#region DECLARATION OF VARIABLES
List<string> list_patient = new List<string>();
List<string> list_struct = new List<string>();
List<string> list_struct_name = new List<string>();
String line;
string[] lineElements;
string[] filterTags;
string[] stringToContainToBeKept = null;
string[] stringinCourseToContainToBeKept = null;
string[] stringToContainToBeExcluded = null;
bool isADoublon = false;
int verbose;
//verbose = 9;
verbose = 1;
DateTime lastTime = DateTime.Now;
int nPatient = 0; // total number of patient. Must be the number of lines in ip.txt
int nDoublons = 0;
int nPatientWithAnAcceptedPlan = 0; // number of patient with at least an accepted plan
int foundOneAcceptedPlan = 0; // bool, use to count nPatientWithAnAcceptedPlan
int totalNumberOfPlans = 0;
int numberOfAcceptedPlans = 0;
int numberOfPlansForThisPatient = 0;
int numberOfAcceptedPlansForThisPatient = 0;
string idfilename = "id.txt"; // Input file names can not be chosen
string structsfilename = "index.txt"; // Input file names can not be chosen
string planfilterfilename = "planfilter.txt"; // Input file names can not be chosen
Structure struct1;
double minTotalDose, maxTotalDose;
bool keepUnapprovedPlan, keepPAapprovedPlan, keepTAapprovedPlan;
bool keepNamedPlan, keepUnamedPlan, keepRefusedPlan, keepRetiredPlan;
bool keepIfPlanNameContainAstring, excludeIfPlannedNameContainAString;
bool keepIfCourseNameContainAstring;
bool exploreSumPlan;
bool exploreUP;
#endregion
#region READ THE ID FILE
if (verbose > 5)
{
Console.WriteLine("ID FILE OPEN.....START\n");
Console.ReadLine();
}
// Open a text file to read patient ID. Text file must contains IDs, one by line
if (!File.Exists(idfilename))
{
Console.WriteLine("Can't find file {0}\nPlease ENTER to exit\n", idfilename);
Console.ReadLine();
return;
}
int nPatientsInList = 0;
StreamReader sr = new StreamReader(idfilename);
line = sr.ReadLine(); // read first line
if ((line != null) && (line.Length > 2)) // an ID Must be > 2 characters
{
nPatientsInList++;
list_patient.Add(line);
}
while (line != null)
{
line = sr.ReadLine();
#region TEST IF ID IS A DOUBLON
foreach (string ipp in list_patient) // loop on the patient list
{
if (isADoublon == false)
if (ipp == line)
isADoublon = true;
}
#endregion
if ((line != null) && (line.Length > 2)) // an ID Must be > 2 characters
if (isADoublon == false)
{
nPatientsInList++;
list_patient.Add(line);
}
else
{
nDoublons++;
isADoublon = false;
//Console.WriteLine(" {0} is a doublon\n", line);
}
}
sr.Close();
if (verbose > 5)
{
Console.WriteLine("ID FILE OPEN.....OK\n");
Console.ReadLine();
}
#endregion
#region READ THE PLAN FILTER FILE
if (verbose > 5)
{
Console.WriteLine("PLAN FILTER FILE OPEN.....START\n");
Console.ReadLine();
}
// Open a text file to read patient ID. Text file must contains IDs, one by line
// DEFAULT FILTER VALUES :
minTotalDose = 60.0;
maxTotalDose = 80.0;
keepNamedPlan = true;
keepUnamedPlan = true;
keepRefusedPlan = true;
keepRetiredPlan = true;
keepPAapprovedPlan = false;
keepTAapprovedPlan = false;
keepUnapprovedPlan = true;
keepIfPlanNameContainAstring = false;
excludeIfPlannedNameContainAString = false;
exploreSumPlan = false;
exploreUP = false;
keepIfCourseNameContainAstring = false;
if (!File.Exists(planfilterfilename))
{
Console.WriteLine("Can't find file {0}\r\n", planfilterfilename);
Console.WriteLine("Default filters will be used\r\n");
Console.ReadLine();
}
else
{
StreamReader srf = new StreamReader(planfilterfilename);
line = "start";
while (line != null)
{
line = srf.ReadLine();
if (line != null)
{
filterTags = line.Split(':');
if (filterTags[0] == "Min Total Dose (Gy)")
{
minTotalDose = Convert.ToDouble(filterTags[1]);
}
if (filterTags[0] == "Max Total Dose (Gy)")
{
maxTotalDose = Convert.ToDouble(filterTags[1]);
}
if (filterTags[0] == "TreatApproved plan")
{
if (filterTags[1] == "yes")
keepTAapprovedPlan = true;
else if (filterTags[1] == "no")
keepTAapprovedPlan = false;
else
Console.WriteLine("*** Unexpected value for filter '{0}'", filterTags[0]);
}
if (filterTags[0] == "PlanningApproved plan")
{
if (filterTags[1] == "yes")
keepPAapprovedPlan = true;
else if (filterTags[1] == "no")
keepPAapprovedPlan = false;
else
Console.WriteLine("*** Unexpected value for filter '{0}'", filterTags[0]);
}
if (filterTags[0] == "Unapproved plan")
{
if (filterTags[1] == "yes")
keepUnapprovedPlan = true;
else if (filterTags[1] == "no")
keepUnapprovedPlan = false;
else
Console.WriteLine("*** Unexpected value for filter '{0}'", filterTags[0]);
}
if (filterTags[0] == "Named plan")
{
if (filterTags[1] == "yes")
keepNamedPlan = true;
else if (filterTags[1] == "no")
keepNamedPlan = false;
else
Console.WriteLine("*** Unexpected value for filter '{0}'", filterTags[0]);
}
if (filterTags[0] == "Unnamed plan")
{
if (filterTags[1] == "yes")
keepUnamedPlan = true;
else if (filterTags[1] == "no")
keepUnamedPlan = false;
else
Console.WriteLine("*** Unexpected value for filter '{0}'", filterTags[0]);
}
if (filterTags[0] == "Refused plan")
{
if (filterTags[1] == "yes")
keepRefusedPlan = true;
else if (filterTags[1] == "no")
keepRefusedPlan = false;
else
Console.WriteLine("*** Unexpected value for filter '{0}'", filterTags[0]);
}
if (filterTags[0] == "Retired plan")
{
if (filterTags[1] == "yes")
keepRetiredPlan = true;
else if (filterTags[1] == "no")
keepRetiredPlan = false;
else
Console.WriteLine("*** Unexpected value for filter '{0}'", filterTags[0]);
}
if (filterTags[0] == "Plan name must contain a string")
{
if (filterTags[1] == "yes")
{
keepIfPlanNameContainAstring = true;
stringToContainToBeKept = filterTags;
}
else if (filterTags[1] == "no")
keepIfPlanNameContainAstring = false;
else
Console.WriteLine("*** Unexpected value for filter '{0}'", filterTags[0]);
}
if (filterTags[0] == "Exclude if plan name contains")
{
if (filterTags[1] == "yes")
{
excludeIfPlannedNameContainAString = true;
stringToContainToBeExcluded = filterTags;
}
else if (filterTags[1] == "no")
excludeIfPlannedNameContainAString = false;
else
Console.WriteLine("*** Unexpected value for filter '{0}'", filterTags[0]);
}
if (filterTags[0] == "Explore Sumplans")
{
if (filterTags[1] == "yes")
{
exploreSumPlan = true;
}
else if (filterTags[1] == "no")
{
exploreSumPlan = false;
}
}
if (filterTags[0] == "Explore uncertainty")
{
if (filterTags[1] == "yes")
{
exploreUP = true;
}
else if (filterTags[1] == "no")
{
exploreUP = false;
}
}
if (filterTags[0] == "Course name must contain a string")
{
if (filterTags[1] == "yes")
{
keepIfCourseNameContainAstring = true;
stringinCourseToContainToBeKept = filterTags;
}
else if (filterTags[1] == "no")
keepIfCourseNameContainAstring = false;
else
Console.WriteLine("*** Unexpected value for filter '{0}'", filterTags[0]);
}
}
}
srf.Close();
}
#region RECAP FILTERS
Console.WriteLine("\r\n\r\nPlans filters. The following filters will be used to select the plans:");
Console.WriteLine("Total dose between {0:0.00} and {1:0.00} Gy", minTotalDose, maxTotalDose);
Console.WriteLine("Keep planning approved plans?\t{0}", keepPAapprovedPlan);
Console.WriteLine("Keep treatment approved plans?\t{0}", keepTAapprovedPlan);
Console.WriteLine("Keep retired plans?\t{0}", keepRetiredPlan);
Console.WriteLine("Keep refused plans?\t{0}", keepRefusedPlan);
Console.WriteLine("Keep unapproved plans?\t{0}", keepUnapprovedPlan);
Console.WriteLine("Keep named plans?\t{0}", keepNamedPlan);
Console.WriteLine("Keep unamed plans?\t{0}", keepUnamedPlan);
Console.WriteLine("Keep plans containing a particular string?\t{0}", keepIfPlanNameContainAstring);
Console.WriteLine("Explore Sum plans?\t{0}", exploreSumPlan);
if (keepIfPlanNameContainAstring)
for (int i = 2; i < stringToContainToBeKept.Length; i++)
{
Console.WriteLine(" keep the plan if planID contains: '{0}'", stringToContainToBeKept[i]);
}
Console.WriteLine("Exclude plans containing a particular string?\t{0}", excludeIfPlannedNameContainAString);
if (excludeIfPlannedNameContainAString)
for (int i = 2; i < stringToContainToBeExcluded.Length; i++)
{
Console.WriteLine(" exclude the plan if planID contains: '{0}'", stringToContainToBeExcluded[i]);
}
Console.WriteLine("\r\n\r\n\r\n");
#endregion
#endregion
#region READ THE FILE WITH STRUCTURES AND METRICS
if (verbose > 5)
{
Console.WriteLine("METRICS FILE OPEN.....START\n");
Console.ReadLine();
}
// Open a text file to read patient ID. Text file must contains IDs, one by line
if (!File.Exists(structsfilename))
{
Console.WriteLine("Can't find file {0}\nPlease ENTER to exit\n", structsfilename);
Console.ReadLine();
return;
}
StreamReader srm = new StreamReader(structsfilename);
if (srm == null)
{
Console.WriteLine("Impossible to read {0}\r\n The file is maybe already opened\r\n", structsfilename);
Console.ReadLine();
return;
}
line = "start";
while (line != null)
{
line = srm.ReadLine();
if (line != null)
list_struct.Add(line);
if (verbose > 5)
Console.WriteLine("line:{0}", line);
if (line != null)
{
lineElements = line.Split(','); // lineElements is a list of the elements of a line
list_struct_name.Add(lineElements[0]); // first column is the structure name
if (verbose > 5)
{
Console.WriteLine("struct:{0}", lineElements[0]);
// Console.ReadLine();
}
}
}
srm.Close();
if (verbose > 5)
{
Console.WriteLine("METRICS FILE OPEN.....OK\n");
Console.ReadLine();
}
#endregion
#region DELETE AND RECREATE OUTPUT DIR
string folderPath = @"./out";
if (!Directory.Exists(folderPath)) // if out/ doesn't exist
{
Directory.CreateDirectory(folderPath);
Console.WriteLine("Directory {0} created...", folderPath);
}
else // if out/ already exists
{
var dir = new DirectoryInfo(folderPath);
foreach (var file in dir.GetFiles()) // get files one by one in out/ to delete them
{
{
try
{
file.Delete(); // delete this file
}
catch (IOException) // This part does not work. If an output file is open the error message is not displayed
{
Console.WriteLine("Impossible to delete a file (locked). Please close all output files\r\n");
Console.ReadLine();
return;
}
}
}
Directory.Delete(folderPath); // Remove out/ dir.
Directory.CreateDirectory(folderPath); // Re Create out/ dir.
Console.WriteLine("Directory {0} deleted and recreated...", folderPath);
}
#endregion
#region CREATE THE OUTPUT FILES
// create log file
StreamWriter swLogFile = new StreamWriter("out/log.txt");
swLogFile.WriteLine("Output log\r\n\r\n\r\n");
// create file for output data
StreamWriter swData = new StreamWriter("out/data.csv");
#region WRITE CSV HEAD
//swData.Write("ID,date,user"); // first 3 fields separated by a coma
//swData.Write("patientID;planID;date;user"); // first 3 fields separated by a ;
swData.Write("patientID;courseID;planID;date;user;TotalDose;Dose/#;Fractions;MU;MI;Normalisation");// first 11 fields separated by a ;
foreach (string myString in list_struct) // loop on the lines
{
lineElements = myString.Split(','); // separate elements in a line by a ,
string[] myFirstName = lineElements[0].Split(';'); // separate the element (different struct names separate by a ;)
foreach (string myOthereMetrics in lineElements.Skip(1)) // Create a cell name: <struct name> (<dose index>)
swData.Write(";{0}({1})", myFirstName[0], myOthereMetrics);
//swData.Write(",{0} ({1})", myFirstName[0], myOthereMetrics);
}
swData.Write("\r\n"); // add a final line break
if (verbose > 5)
{
Console.WriteLine("OUTPUT FILE INITATED.....OK\n");
Console.ReadLine();
}
#endregion
#endregion
#region LOOP EVERY PATIENT
foreach (string ipp in list_patient) // loop on the patient list
{
nPatient++; // number of patients
numberOfPlansForThisPatient = 0;
numberOfAcceptedPlansForThisPatient = 0;
foundOneAcceptedPlan = 0;
Patient p = app.OpenPatientById(ipp); // open the patient
if (verbose > 0)
{
Console.WriteLine("{1}/{2} {0}", p.Name, nPatient, nPatientsInList); // verbose
swLogFile.WriteLine("{1}/{2} {0}\n\n\n", p.Name, nPatient, nPatientsInList);
if (verbose > 5)
Console.ReadLine();
}
int keepThisPlan = 1;
int keepThisCourse = 1;
#region LOOP EVERY COURSE
#region TEST THE COURSE
foreach (Course course in p.Courses) // loop on the courses
{
if (keepIfCourseNameContainAstring)
{
keepThisCourse = 0;
for (int i = 2; i < stringinCourseToContainToBeKept.Length; i++)
{
if (course.Id.Contains(stringinCourseToContainToBeKept[i]))
keepThisCourse = 1;
}
if (keepThisCourse == 0)
{
Console.WriteLine(" refused: course ID ({0}) does not contain one of the required strings", course.Id);
swLogFile.WriteLine(" refused: course ID ({0}) does not contain one of the required strings", course.Id);
}
}
#endregion
#region LOOP EVERY PLAN
foreach (PlanSetup plan in course.PlanSetups) // loop on the plans
{
#region VERBOSE
if (verbose > 5)
{
Console.WriteLine("Inspect Course: {0} Plan: {1}", course.Id, plan.Id); // verbose
Console.ReadLine();
}
#endregion
keepThisPlan = 1;
if (keepThisCourse == 0)
keepThisPlan = 0;
totalNumberOfPlans++;
numberOfPlansForThisPatient++;
Console.WriteLine(" Plan: {0} (course: {1})", plan.Id, course.Id); // Verbose
swLogFile.WriteLine(" Plan: {0} (course: {1})", plan.Id, course.Id); // Verbose
#region TEST THE PLAN
#region EXCLUDE ALL PLANS WITH NO BEAM
try // this exception
{
plan.Beams.Count(); // manages plans with no beams. they make the program crash
}
catch
{
Console.WriteLine(" refused: THE PLAN HAS NO BEAM");
swLogFile.WriteLine(" refused: THE PLAN HAS NO BEAM ");
keepThisPlan = 0;
}
#endregion
#region EXCLUDE ALL PLANS WITH NO VALID DOSE
if (keepThisPlan == 1)
{
if (plan.IsDoseValid == false)
{
Console.WriteLine(" refused: THE PLAN HAS NO VALID DOSE");
swLogFile.WriteLine(" refused: THE PLAN HAS NO NO VALID DOSE ");
keepThisPlan = 0;
}
}
#endregion
#region TEST IF THE PLAN HAS A NAME
if (keepThisPlan == 1)
{
if (keepNamedPlan == false) // dont keep plans with a name
{
if (plan.Name != "") // if name exist
{
keepThisPlan = keepThisPlan * 0;
Console.WriteLine(" refused: THE PLAN HAS A NAME");
swLogFile.WriteLine(" refused: THE PLAN HAS A NAME ");
}
}
if (keepUnamedPlan == false) // dont keep plans with no name
{
if (plan.Name == "") // if no name
{
keepThisPlan = keepThisPlan * 0;
Console.WriteLine(" refused: THE PLAN HAS NO NAME");
swLogFile.WriteLine(" refused: THE PLAN HAS NO NAME ");
}
}
}
#endregion
#region TEST THE PLAN APPROBATION
if (keepThisPlan == 1)
if (keepTAapprovedPlan == false) // dont keep Treat approved plans
{
if (plan.ApprovalStatus == PlanSetupApprovalStatus.TreatmentApproved) // if treat approve
{
keepThisPlan = keepThisPlan * 0;
Console.WriteLine(" refused: THE PLAN IS TREAT APPROVED");
swLogFile.WriteLine(" refused: THE PLAN IS TREAT APPROVED");
}
}
if (keepThisPlan == 1)
if (keepPAapprovedPlan == false) // dont keep planning approved plans
{
if (plan.ApprovalStatus == PlanSetupApprovalStatus.PlanningApproved) // if plan approve
{
keepThisPlan = keepThisPlan * 0;
Console.WriteLine(" refused: THE PLAN IS PLAN APPROVED");
swLogFile.WriteLine(" refused: THE PLAN IS PLAN APPROVED");
}
}
if (keepThisPlan == 1)
if (keepUnapprovedPlan == false) // dont keep unapproved plans
{
if (plan.ApprovalStatus == PlanSetupApprovalStatus.UnApproved) // if plan approve
{
keepThisPlan = keepThisPlan * 0;
Console.WriteLine(" refused: THE PLAN IS UNAPPROVED");
swLogFile.WriteLine(" refused: THE PLAN IS UNAPPROVED");
}
}
if (keepThisPlan == 1)
if (keepRefusedPlan == false) // dont keep refused plans
{
if (plan.ApprovalStatus == PlanSetupApprovalStatus.Rejected) // if plan rejected
{
keepThisPlan = keepThisPlan * 0;
Console.WriteLine(" refused: THE PLAN STATUS IS REFUSED");
swLogFile.WriteLine(" refused: THE PLAN STATUS IS REFUSED");
}
}
if (keepThisPlan == 1)
if (keepRetiredPlan == false) // dont keep retired plans
{
if (plan.ApprovalStatus == PlanSetupApprovalStatus.Retired) // if plan retired
{
keepThisPlan = keepThisPlan * 0;
Console.WriteLine(" refused: THE PLAN STATUS IS RETIRED");
swLogFile.WriteLine(" refused: THE PLAN STATUS IS RETIRED");
}
}
#endregion
#region TEST IF TOTAL DOSE BETWEEN MIN AND MAX
if (keepThisPlan == 1)
if (plan.TotalDose.Dose < minTotalDose || plan.TotalDose.Dose > maxTotalDose)
{
keepThisPlan = keepThisPlan * 0;
Console.WriteLine(" refused: Total dose ({0:0.00} Gy) is not between {1} and {2} Gy", plan.TotalDose.Dose, minTotalDose, maxTotalDose);
swLogFile.WriteLine(" refused: Total dose ({0:0.00} Gy) is not between {1} and {2} Gy", plan.TotalDose.Dose, minTotalDose, maxTotalDose);
}
#endregion
#region TEST IF PLAN CONTAINS OR DOES NOT CONTAIN SOME CHOSEN STRINGS
if (keepThisPlan == 1) // TEST ALL STRINGS TO KEEP PLANS
if (keepIfPlanNameContainAstring)
{
keepThisPlan = 0;
for (int i = 2; i < stringToContainToBeKept.Length; i++)
{
if (plan.Id.Contains(stringToContainToBeKept[i]))
keepThisPlan = 1;
}
if (keepThisPlan == 0)
{
Console.WriteLine(" refused: plan ID ({0}) does not contain one of the required strings", plan.Id);
swLogFile.WriteLine(" refused: plan ID ({0}) does not contain one of the required strings", plan.Id);
}
}
if (keepThisPlan == 1) // TEST ALL STINGS TO EXCLUDE PLANS
if (excludeIfPlannedNameContainAString)
{
for (int i = 2; i < stringToContainToBeExcluded.Length; i++)
{
if (plan.Id.Contains(stringToContainToBeExcluded[i]))
{
keepThisPlan = keepThisPlan * 0;
Console.WriteLine(" refused: plan ID ({0}) does contain the strings {1}", plan.Id, stringToContainToBeExcluded[i]);
swLogFile.WriteLine(" refused: plan ID ({0}) does contain the strings {1}", plan.Id, stringToContainToBeExcluded[i]);
}
}
}
#endregion
#endregion
#region VERBOSE
if (verbose > 5)
{
Console.WriteLine("Plan tested"); // verbose
Console.ReadLine();
}
#endregion
#region Uncertainty plan
// uncertainties analysis must be done before plan analysis. Bug in ESAPI15.
// see reddit thread:
// https://www.reddit.com/r/esapi/comments/13ok5g2/plan_uncertainty_dvh_bug/
if (exploreUP)
{
foreach (var pu in plan.PlanUncertainties)
{
if (pu != null)
{
double MU = 0;
foreach (Beam beam in plan.Beams)
{
if (!beam.IsSetupField)
MU = MU + Math.Round(beam.Meterset.Value, 2);
}
//MI
var MI = Math.Round(MU / (plan.DosePerFraction.Dose), 3);
DVH MyDVH = new DVH();
swData.Write("{0};{1};{2} ({11});{3};{4};{5};{6};{7};{8};{9};{10}",
p.Id, course.Id, pu.Id, plan.CreationDateTime, plan.CreationUserName, plan.TotalDose.ValueAsString, plan.DosePerFraction.ValueAsString,
plan.NumberOfFractions, MU, MI, Math.Round(plan.PlanNormalizationValue, 1), plan.Id);
foreach (string myString in list_struct) // loop on lines of user dose index (1 by struct)
{
// get separated elements of a line (separator is a ,)
lineElements = myString.Split(',');
// get the different possible names of the structure (separate by a ;)
string[] myFirstName = lineElements[0].Split(';');
StructureSet ss = plan.StructureSet;
bool foundOneStruct = false;
foreach (string myDiffStrucNames in myFirstName) // loop on the different names of a same struct
{
if (foundOneStruct == false)
{
struct1 = ss.Structures.FirstOrDefault(x => x.Id == myDiffStrucNames);
if (struct1 != null) // does the stucture exist?
{
if (!struct1.IsEmpty) // Is it empty?
{
foundOneStruct = true;
try
{
DVHData DVH_uncert = MyDVH.CalculateDvh(pu, struct1, "relative");
List<(double, double)> dvhPU = MyDVH.CurveData2Table(DVH_uncert);
if (!dvhPU.Equals(null))
{
swLogFile.WriteLine(" {0} found in {1}", myDiffStrucNames, pu.Id); // verbose
if (verbose > 0)
Console.WriteLine(" {0} found in {1} ({2})", myDiffStrucNames, pu.Id, plan.Id);
foreach (string dataToGet in lineElements.Skip(1)) // loop on index
{
if (verbose > 5)
Console.WriteLine(" Gimme the {0} for {1}\r\n", dataToGet, struct1.Id);
double thisValueImLookingFor = -99.999;
thisValueImLookingFor = MyDVH.extract_VolumeAtDose(dvhPU, dataToGet, plan, struct1);
if (thisValueImLookingFor != -1.0)
{
swLogFile.WriteLine(" {0} for {1} is {2:0.00}", dataToGet, struct1.Id, thisValueImLookingFor);
swData.Write(";{0:0.00}", Math.Round(thisValueImLookingFor, 5));
}
else
{
swData.Write(";"); // if data impossible to extract
}
}
dvhPU.Clear();
}
else
{
Console.WriteLine("DVH is empty");
swLogFile.WriteLine("DVH is empty");
}
}
catch (Exception ex)
{
swLogFile.WriteLine(" Uncertainty plan not found; exception {0} {1} plan", ex.Message, pu.Id);
Console.WriteLine(" Uncertainty plan not found; exception {0} pour le plan {1}", ex, pu.Id);
}
}
}
}
}
if (foundOneStruct == false)
{
Console.WriteLine(" {0} not found ********", myFirstName[0]);
swLogFile.WriteLine(" {0} not found ********", myFirstName[0]);
foreach (string skippedData in lineElements.Skip(1))
swData.Write(";");
//swData.Write(",");
}
}
}
swData.WriteLine(";");
}
}
#endregion
#region GET THE DATA
if (keepThisPlan == 1)
{
numberOfAcceptedPlans++;
numberOfAcceptedPlansForThisPatient++;
if (foundOneAcceptedPlan == 0)
{
nPatientWithAnAcceptedPlan++;
foundOneAcceptedPlan = 1;
}
else
{
Console.WriteLine(" THIS PATIENT HAS MORE THAN ONE ACCEPTED PLAN !!"); // verbose
swLogFile.WriteLine(" THIS PATIENT HAS MORE THAN ONE ACCEPTED PLAN !!"); // verbose
}
if (verbose > 0)
{
Console.WriteLine(" Total dose = {0} ", plan.TotalDose); // verbose
swLogFile.WriteLine(" Total dose = {0} ", plan.TotalDose); // verbose
}
//Total MU
double MU = 0;
foreach (Beam beam in plan.Beams)
{
if (!beam.IsSetupField)
MU = MU + Math.Round(beam.Meterset.Value, 2);
}
//MI
var MI = Math.Round(MU / (plan.DosePerFraction.Dose), 3);
// write first 11 columns
swData.Write("{0};{1};{2};{3};{4};{5};{6};{7};{8};{9};{10}",
p.Id, course.Id, plan.Id, plan.CreationDateTime, plan.CreationUserName, plan.TotalDose.ValueAsString, plan.DosePerFraction.ValueAsString,
plan.NumberOfFractions, MU, MI, Math.Round(plan.PlanNormalizationValue, 1));
StructureSet ss = plan.StructureSet;
bool foundOneStruct = false;
foreach (string myString in list_struct) // loop on lines of user dose index (1 by struct)
{
// get separated elements of a line (separator is a ,)
lineElements = myString.Split(',');
// get the different possible names of the structure (separate by a ;)
string[] myFirstName = lineElements[0].Split(';');