public static int Main(string[] args)
{
gdcm.Global global = gdcm.Global.GetInstance();
if (!global.LoadResourcesFiles())
{
System.Console.WriteLine("Could not LoadResourcesFiles");
return(1);
}
string file1 = args[0];
string file2 = args[1];
Reader reader = new Reader();
reader.SetFileName(file1);
bool ret = reader.Read();
if (!ret)
{
return(1);
}
string certpath = gdcm.Filename.Join(gdcm.Testing.GetSourceDirectory(), "/Testing/Source/Data/certificate.pem");
gdcm.CryptoFactory fact = gdcm.CryptoFactory.GetFactoryInstance();
gdcm.CryptographicMessageSyntax cms = fact.CreateCMSProvider();
if (!cms.ParseCertificateFile(certpath))
{
return(1);
}
//Anonymizer ano = new Anonymizer();
SmartPtrAno sano = Anonymizer.New();
Anonymizer ano = sano.__ref__();
//SimpleSubjectWatcher watcher = new SimpleSubjectWatcher(ano, "Anonymizer");
MyWatcher watcher = new MyWatcher(ano);
ano.SetFile(reader.GetFile());
ano.SetCryptographicMessageSyntax(cms);
if (!ano.BasicApplicationLevelConfidentialityProfile())
{
return(1);
}
Writer writer = new Writer();
writer.SetFileName(file2);
writer.SetFile(ano.GetFile());
ret = writer.Write();
if (!ret)
{
return(1);
}
return(0);
}
private void FramesQuery(string PatientId)
{
gdcm.ERootType typ = gdcm.ERootType.ePatientRootType;
gdcm.EQueryLevel poziom = gdcm.EQueryLevel.ePatient; // zobacz inne
gdcm.KeyValuePairArrayType klucze = new gdcm.KeyValuePairArrayType();
gdcm.KeyValuePairType klucz1 = new gdcm.KeyValuePairType(new gdcm.Tag(0x0010, 0x0020), PatientId); // NIE WOLNO TU STOSOWAC *; tutaj PatientID="01"
klucze.Add(klucz1);
// skonstruuj zapytanie
gdcm.BaseRootQuery zapytanie = gdcm.CompositeNetworkFunctions.ConstructQuery(typ, poziom, klucze, true);
// sprawdź, czy zapytanie spełnia kryteria
if (!zapytanie.ValidateQuery())
{
MessageBox.Show("Wrong frames query.", "Error");
}
// przygotuj katalog na wyniki
String odebrane = System.IO.Path.Combine(".", "temporary");
if (!System.IO.Directory.Exists(odebrane))
{
System.IO.Directory.CreateDirectory(odebrane);
}
dane = System.IO.Path.Combine(odebrane, System.IO.Path.GetRandomFileName()); //katalog
System.IO.Directory.CreateDirectory(dane);
// wykonaj zapytanie - pobierz do katalogu _dane_
bool stan = gdcm.CompositeNetworkFunctions.CMove(ip, port, zapytanie, port, aet, call, dane);
// sprawdź stan
if (!stan)
{
MessageBox.Show("PACS server doesn't work.", "Error");
}
// skasowanie listy zdjęć
Images.Clear();
ImageNames.Clear();
Datas.Clear();
List <string> pliki = new List <string>(System.IO.Directory.EnumerateFiles(dane)); //nazwy plikow
foreach (String plik in pliki)
{
gdcm.Reader dataReader = new gdcm.Reader();
dataReader.SetFileName(plik);
if (!dataReader.Read())
{
continue;
}
gdcm.File file = dataReader.GetFile();
gdcm.DataSet dataSet = file.GetDataSet();
string data = dataSet.toString();
gdcm.Global g = gdcm.Global.GetInstance();
gdcm.Dicts dicts = g.GetDicts();
gdcm.Dict dict = dicts.GetPublicDict();
string[] dataArray = dataSet.toString().Split('\n');
Dictionary <string, string> dataValues = new Dictionary <string, string>();
String[] id = plik.Split('\\');
foreach (string s in dataArray)
{
string[] dataArrayRow = s.Split('\t');
if (dataArrayRow.Length > 1)
{
string[] tags = dataArrayRow[0].Remove(0, 1).Remove(dataArrayRow[0].Length - 2, 1).Split(',');
//Pobranie nazwy Tagu
//gdcm.Tag tag = new gdcm.Tag(Convert.ToUInt16(tags[0]),Convert.ToUInt16(tags[1]));
//string dictDorTag = dict.GetKeywordFromTag(tag);
//if (dictDorTag != null)
// dataValues.Add(dictDorTag, dataArrayRow[dataArrayRow.Length - 1]);
dataValues.Add(dataArrayRow[0], dataArrayRow[dataArrayRow.Length - 1]);
}
}
// przeczytaj pixele
gdcm.PixmapReader reader = new gdcm.PixmapReader();
reader.SetFileName(plik);
if (!reader.Read())
{
continue;
}
// przekonwertuj na "znany format"
gdcm.Bitmap bmjpeg2000 = PACS.ImageConverter.pxmap2jpeg2000(reader.GetPixmap());
// przekonwertuj na .NET bitmapy
System.Drawing.Bitmap[] X = PACS.ImageConverter.gdcmBitmap2Bitmap(bmjpeg2000);
// zapisz
for (int i = 0; i < X.Length; i++)
{
String name = "";
if (X.Length > 1)
{
name = String.Format("{0}_slice{1}.jpg", plik, i);
Images.Add(String.Format("{0}_slice{1}", id[id.Length - 1], i), X[i]);
ImageNames.Add(String.Format("{0}_slice{1}", id[id.Length - 1], i));
Datas.Add(String.Format("{0}_slice{1}", id[id.Length - 1], i), dataValues);
}
else
{
name = String.Format("{0}.jpg", plik);
Images.Add(String.Format("{0}", id[id.Length - 1]), X[i]);
ImageNames.Add(String.Format("{0}", id[id.Length - 1]));
Datas.Add(String.Format("{0}", id[id.Length - 1]), dataValues);
}
X[i].Save(name);
}
}
}
public static int Main(string[] args)
{
gdcm.FileMetaInformation.SetSourceApplicationEntityTitle("My ClinicalTrial App");
// http://www.oid-info.com/get/1.3.6.1.4.17434
string THERALYS_ORG_ROOT = "1.3.6.1.4.17434";
gdcm.UIDGenerator.SetRoot(THERALYS_ORG_ROOT);
System.Console.WriteLine("Root dir is now: " + gdcm.UIDGenerator.GetRoot());
gdcm.Global global = gdcm.Global.GetInstance();
if (!global.LoadResourcesFiles())
{
System.Console.WriteLine("Could not LoadResourcesFiles");
return(1);
}
if (args.Length != 2)
{
System.Console.WriteLine("Usage:");
System.Console.WriteLine("ClinicalTrialIdentificationWorkflow input_dir output_dir");
return(1);
}
string dir1 = args[0];
string dir2 = args[1];
// Check input is valid:
if (!gdcm.PosixEmulation.FileIsDirectory(dir1))
{
System.Console.WriteLine("Input directory: " + dir1 + " does not exist. Sorry");
return(1);
}
if (!gdcm.PosixEmulation.FileIsDirectory(dir2))
{
System.Console.WriteLine("Output directory: " + dir2 + " does not exist. Sorry");
return(1);
}
// Recursively search all file within this toplevel directory:
Directory d = new Directory();
uint nfiles = d.Load(dir1, true);
if (nfiles == 0)
{
return(1);
}
// Let's use the pre-shipped certificate of GDCM.
string certpath = gdcm.Filename.Join(gdcm.Testing.GetSourceDirectory(), "/Testing/Source/Data/certificate.pem");
gdcm.CryptographicMessageSyntax cms = new gdcm.CryptographicMessageSyntax();
if (!cms.ParseCertificateFile(certpath))
{
System.Console.WriteLine("PEM Certificate : " + certpath + " could not be read. Sorry");
return(1);
}
//Anonymizer ano = new Anonymizer();
// A reference to an actual C++ instance is required here:
SmartPtrAno sano = Anonymizer.New();
Anonymizer ano = sano.__ref__();
//SimpleSubjectWatcher watcher = new SimpleSubjectWatcher(ano, "Anonymizer");
MyWatcher watcher = new MyWatcher(ano);
// Explicitely specify the Cryptographic Message Syntax to use:
ano.SetCryptographicMessageSyntax(cms);
// Process all filenames:
FilenamesType filenames = d.GetFilenames();
for (uint i = 0; i < nfiles; ++i)
{
string filename = filenames[(int)i];
string outfilename = filename.Replace(dir1, dir2);
System.Console.WriteLine("Filename: " + filename);
System.Console.WriteLine("Out Filename: " + outfilename);
if (!ProcessOneFile(ano, filename, outfilename))
{
System.Console.WriteLine("Could not process filename: " + filename);
return(1);
}
}
return(0);
}
private void FramesQuery(string PatientId, out string dane, out string name, out Dictionary <string, Dictionary <string, string> > Datas, out string segmentation_name)
{
gdcm.ERootType typ = gdcm.ERootType.ePatientRootType;
gdcm.EQueryLevel poziom = gdcm.EQueryLevel.ePatient; // zobacz inne
gdcm.KeyValuePairArrayType klucze = new gdcm.KeyValuePairArrayType();
gdcm.KeyValuePairType klucz1 = new gdcm.KeyValuePairType(new gdcm.Tag(0x0010, 0x0020), PatientId); // NIE WOLNO TU STOSOWAC *; tutaj PatientID="01"
klucze.Add(klucz1);
// skonstruuj zapytanie
gdcm.BaseRootQuery zapytanie = gdcm.CompositeNetworkFunctions.ConstructQuery(typ, poziom, klucze, true);
// sprawdź, czy zapytanie spełnia kryteria
if (!zapytanie.ValidateQuery())
{
MessageBox.Show("Wrong frames query.", "Error");
}
// przygotuj katalog na wyniki
String odebrane = System.IO.Path.Combine(".", "temporary");
if (!System.IO.Directory.Exists(odebrane))
{
System.IO.Directory.CreateDirectory(odebrane);
}
dane = System.IO.Path.Combine(odebrane, System.IO.Path.GetRandomFileName()); //katalog
System.IO.Directory.CreateDirectory(dane);
// wykonaj zapytanie - pobierz do katalogu _dane_
bool stan = gdcm.CompositeNetworkFunctions.CMove(ip, port, zapytanie, 10104, aet, call, dane);
// sprawdź stan
if (!stan)
{
MessageBox.Show("PACS server doesn't work.", "Error");
}
// skasowanie listy zdjęć
name = "";
segmentation_name = "";
Datas = new Dictionary <string, Dictionary <string, string> >();
List <string> pliki = new List <string>(System.IO.Directory.EnumerateFiles(dane)); //nazwy plikow
//OBRAZ ORYGINALNY
gdcm.Reader dataReader = new gdcm.Reader();
dataReader.SetFileName(pliki[0]);
if (!dataReader.Read())
{
}
gdcm.File file = dataReader.GetFile();
gdcm.DataSet dataSet = file.GetDataSet();
string data = dataSet.toString();
gdcm.Global g = gdcm.Global.GetInstance();
gdcm.Dicts dicts = g.GetDicts();
gdcm.Dict dict = dicts.GetPublicDict();
string[] dataArray = dataSet.toString().Split('\n');
Dictionary <string, string> dataValues = new Dictionary <string, string>();
String[] id = pliki[0].Split('\\');
bool first_exp = true;
bool first_original = true;
foreach (string plik in pliki)
{
dataValues.Clear();
foreach (string s in dataArray)
{
string[] dataArrayRow = s.Split('\t');
if (dataArrayRow.Length > 1)
{
string[] tags = dataArrayRow[0].Remove(0, 1).Remove(dataArrayRow[0].Length - 2, 1).Split(',');
//Pobranie nazwy Tagu
//gdcm.Tag tag = new gdcm.Tag(Convert.ToUInt16(tags[0]),Convert.ToUInt16(tags[1]));
//string dictDorTag = dict.GetKeywordFromTag(tag);
//if (dictDorTag != null)
// dataValues.Add(dictDorTag, dataArrayRow[dataArrayRow.Length - 1]);
dataValues.Add(dataArrayRow[0], dataArrayRow[dataArrayRow.Length - 1]);
}
}
if (dataValues.Count > 0)
{
if (dataValues["(0020,000d)"].Substring(0, 1) == "E" && first_exp == true)
{//OBRAZ SEGMENTACJI
gdcm.Reader dataReader2 = new gdcm.Reader();
dataReader2.SetFileName(plik);
if (!dataReader2.Read())
{
}
gdcm.File file2 = dataReader2.GetFile();
// przeczytaj pixele
gdcm.PixmapReader reader2 = new gdcm.PixmapReader();
string temp = plik;
if (plik.Substring(plik.Length - 4, 4) != ".dcm")
{
temp = pliki[1] + ".dcm";
}
reader2.SetFileName(plik);
if (!reader2.Read())
{
}
segmentation_name = String.Format("{0}", plik.Substring(0, plik.Length - 4));
first_exp = false;
}
else
{
if (first_original == true)
{
// przeczytaj pixele
gdcm.PixmapReader reader = new gdcm.PixmapReader();
string temp = plik;
if (plik.Substring(plik.Length - 4, 4) != ".dcm")
{
temp = plik + ".dcm";
}
reader.SetFileName(plik);
if (!reader.Read())
{
}
name = String.Format("{0}", plik.Substring(0, plik.Length - 4));
Datas.Add(String.Format("{0}", plik.Substring(0, plik.Length - 4)).Replace("\\", "\\\\"), dataValues);
first_original = false;
}
else
{
gdcm.Reader dataReader2 = new gdcm.Reader();
dataReader2.SetFileName(plik);
if (!dataReader2.Read())
{
}
gdcm.File file2 = dataReader2.GetFile();
// przeczytaj pixele
gdcm.PixmapReader reader2 = new gdcm.PixmapReader();
string temp = plik;
if (plik.Substring(plik.Length - 4, 4) != ".dcm")
{
temp = pliki[1] + ".dcm";
}
reader2.SetFileName(plik);
if (!reader2.Read())
{
}
segmentation_name = String.Format("{0}", plik.Substring(0, plik.Length - 4));
first_exp = false;
}
}
}
}
}