Codify2.ipynb

{
 "cells": [
  {
   "cell_type": "code",
   "execution_count": 36,
   "metadata": {},
   "outputs": [],
   "source": [
    "import pydicom\n",
    "from pydicom.dataset import Dataset, FileMetaDataset\n",
    "from pydicom.sequence import Sequence\n",
    "import numpy as np\n",
    "import os\n",
    "from pydicom.uid import generate_uid"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 37,
   "metadata": {},
   "outputs": [],
   "source": [
    "# Orientation\n",
    "\n",
    "def file_plane(IOP):\n",
    "    IOP_round = [round(x) for x in IOP]\n",
    "    plane = np.cross(IOP_round[0:3], IOP_round[3:6])\n",
    "    plane = [abs(x) for x in plane]\n",
    "    if plane[0] == 1:\n",
    "        return 0    #\"Sagittal\"\n",
    "    elif plane[1] == 1:\n",
    "        return 1    #\"Coronal\"\n",
    "    elif plane[2] == 1:\n",
    "        return 2    #\"Transverse\"\n",
    "\n",
    "def newPosition(n,ax,xp_rt,yp_rt,x_rt,y_rt):\n",
    "    if ax == 0:\n",
    "        return(xp_rt+n*2*abs(xp_rt)/abs(x_rt))\n",
    "    else:\n",
    "        return(yp_rt+n*2*abs(yp_rt)/abs(y_rt))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 41,
   "metadata": {},
   "outputs": [],
   "source": [
    "def DicomRT(path,file_name,region_number):\n",
    "    file_path=path+'Dicom/'+file_name\n",
    "    dsorg = pydicom.read_file(file_path, force=True)\n",
    "\n",
    "    IOP = dsorg.ImageOrientationPatient\n",
    "    plane = file_plane(IOP)\n",
    "    planVal=dsorg.ImagePositionPatient[plane]\n",
    "    planVal=float(planVal)\n",
    "    \n",
    "    xp_rt=dsorg.ImagePositionPatient[0]\n",
    "    yp_rt=dsorg.ImagePositionPatient[1]\n",
    "\n",
    "    x_rt=dsorg.Columns\n",
    "    y_rt=dsorg.Rows\n",
    "\n",
    "    # Put Contoure pixel cordination Inside file\n",
    "    with open(path+'Borders/border'+str(region_number)+'-'+file_name+'.npy', 'rb') as f:\n",
    "        num = np.load(f)\n",
    "\n",
    "    borders=[]\n",
    "    for t in range(len(num)):\n",
    "        #print(t,num[t])    \n",
    "        if plane == 0:  #\"Sagittal\"\n",
    "            x=planVal\n",
    "            y=newPosition(num[t][1],0,xp_rt,yp_rt,x_rt,y_rt)\n",
    "            z=newPosition(num[t][0],1,xp_rt,yp_rt,x_rt,y_rt)\n",
    "        elif plane == 1:  #\"Coronal\"\n",
    "            x=newPosition(num[t][1],0,xp_rt,yp_rt,x_rt,y_rt)\n",
    "            y=planVal\n",
    "            z=newPosition(num[t][0],1,xp_rt,yp_rt,x_rt,y_rt)\n",
    "        elif plane == 2:#  \"Transverse\"\n",
    "            x=newPosition(num[t][1],0,xp_rt,yp_rt,x_rt,y_rt)\n",
    "            y=newPosition(num[t][0],1,xp_rt,yp_rt,x_rt,y_rt)\n",
    "            z=planVal\n",
    "        borders.extend([x,y,z])\n",
    "        \n",
    "    uid1=generate_uid()\n",
    "    uid2=generate_uid()\n",
    "    # File meta info data elements\n",
    "    file_meta = FileMetaDataset()\n",
    "    file_meta.FileMetaInformationGroupLength = 182\n",
    "    file_meta.FileMetaInformationVersion = b'\\x00\\x01'\n",
    "    file_meta.MediaStorageSOPClassUID = '1.2.840.10008.5.1.4.1.1.481.3'\n",
    "    file_meta.MediaStorageSOPInstanceUID = uid1 #'1.2.826.0.1.534147.578.2719282597.2020101685637449'\n",
    "    file_meta.TransferSyntaxUID = '1.2.840.10008.1.2.1'\n",
    "    file_meta.ImplementationClassUID = '1.2.40.0.13.1.1'\n",
    "    file_meta.ImplementationVersionName = 'dcm4che-2.0'\n",
    "\n",
    "    ds = Dataset()\n",
    "\n",
    "    # Main data elements\n",
    "    ds = Dataset()\n",
    "    ds.SOPClassUID = '1.2.840.10008.5.1.4.1.1.481.3'\n",
    "    ds.SOPInstanceUID =uid1 #'1.2.826.0.1.534147.578.2719282597.2020101685637449' #uid1\n",
    "    ds.StudyDate =dsorg.StudyDate #'20450916'\n",
    "    ds.StudyTime =dsorg.StudyTime # '000000'\n",
    "    ds.AccessionNumber = ''\n",
    "    ds.Modality = 'RTSTRUCT'\n",
    "    ds.Manufacturer =dsorg.Manufacturer # 'SIEMENS'\n",
    "    ds.ReferringPhysicianName = ''\n",
    "    ds.OperatorsName = ''\n",
    "    ds.ManufacturerModelName = dsorg.ManufacturerModelName # SOMATOM Definition Edge'\n",
    "    ds.PatientName = dsorg.PatientName # 'Covid7175'\n",
    "    ds.PatientID = dsorg.PatientID # 'Covid7175'\n",
    "    ds.PatientBirthDate = dsorg.PatientBirthDate # '19300101'\n",
    "    ds.PatientSex = dsorg.PatientSex # 'F'\n",
    "    ds.SoftwareVersions = dsorg.SoftwareVersions # 'syngo CT VA48A'\n",
    "    ds.StudyInstanceUID = dsorg.StudyInstanceUID #'1.2.826.0.1.3680043.9.3218.1.1.302475.1985.1592890895061.53221.0' # dsOrg.StudyInstanceUID\n",
    "    ds.SeriesInstanceUID = uid2 #'1.2.826.0.1.534147.578.2719282597.2020101685637450' #uid2\n",
    "    ds.StudyID = ''\n",
    "    ds.SeriesNumber = None\n",
    "    ds.FrameOfReferenceUID = dsorg.FrameOfReferenceUID #'1.2.826.0.1.3680043.9.3218.1.1.302475.1985.1592890895061.53224.0' # dsOrg.FrameOfReferenceUID\n",
    "    ds.PositionReferenceIndicator = ''\n",
    "    ds.StructureSetLabel = 'AIM_' + str(dsorg.InstanceNumber) +'_'+ str(region_number) #Scaling04\n",
    "    ds.StructureSetDate ='20201116'\n",
    "    ds.StructureSetTime ='085637'\n",
    "\n",
    "    # Referenced Frame of Reference Sequence\n",
    "    refd_frame_of_ref_sequence = Sequence()\n",
    "    ds.ReferencedFrameOfReferenceSequence = refd_frame_of_ref_sequence\n",
    "\n",
    "    # Referenced Frame of Reference Sequence: Referenced Frame of Reference 1\n",
    "    refd_frame_of_ref1 = Dataset()\n",
    "    refd_frame_of_ref1.FrameOfReferenceUID =dsorg.FrameOfReferenceUID # '1.2.826.0.1.3680043.9.3218.1.1.302475.1985.1592890895061.53224.0' \n",
    "\n",
    "    # RT Referenced Study Sequence\n",
    "    rt_refd_study_sequence = Sequence()\n",
    "    refd_frame_of_ref1.RTReferencedStudySequence = rt_refd_study_sequence\n",
    "\n",
    "    # RT Referenced Study Sequence: RT Referenced Study 1\n",
    "    rt_refd_study1 = Dataset()\n",
    "    rt_refd_study1.ReferencedSOPClassUID = '1.2.840.10008.3.1.2.3.1'\n",
    "    rt_refd_study1.ReferencedSOPInstanceUID = dsorg.StudyInstanceUID #'1.2.826.0.1.3680043.9.3218.1.1.302475.1985.1592890895061.53221.0' # \n",
    "\n",
    "    # RT Referenced Series Sequence\n",
    "    rt_refd_series_sequence = Sequence()\n",
    "    rt_refd_study1.RTReferencedSeriesSequence = rt_refd_series_sequence\n",
    "\n",
    "    # RT Referenced Series Sequence: RT Referenced Series 1\n",
    "    rt_refd_series1 = Dataset()\n",
    "    rt_refd_series1.SeriesInstanceUID =dsorg.SeriesInstanceUID #'1.2.826.0.1.3680043.9.3218.1.1.302475.1985.1592890895061.53222.0'\n",
    "\n",
    "    # Contour Image Sequence\n",
    "    contour_image_sequence = Sequence()\n",
    "    rt_refd_series1.ContourImageSequence = contour_image_sequence\n",
    "\n",
    "    # Contour Image Sequence: Contour Image 1\n",
    "    contour_image1 = Dataset()\n",
    "    contour_image1.ReferencedSOPClassUID = '1.2.840.10008.5.1.4.1.1.2'\n",
    "    contour_image1.ReferencedSOPInstanceUID = dsorg.SOPInstanceUID #'1.2.826.0.1.3680043.9.3218.1.1.302475.1985.1592890895061.53223.0' \n",
    "    contour_image1.ReferencedFrameNumber = \"1\"\n",
    "    contour_image_sequence.append(contour_image1)\n",
    "    rt_refd_series_sequence.append(rt_refd_series1)\n",
    "    rt_refd_study_sequence.append(rt_refd_study1)\n",
    "    refd_frame_of_ref_sequence.append(refd_frame_of_ref1)\n",
    "\n",
    "\n",
    "    # Structure Set ROI Sequence\n",
    "    structure_set_roi_sequence = Sequence()\n",
    "    ds.StructureSetROISequence = structure_set_roi_sequence\n",
    "\n",
    "    # Structure Set ROI Sequence: Structure Set ROI 1\n",
    "    structure_set_roi1 = Dataset()\n",
    "    structure_set_roi1.ROINumber = \"1\"\n",
    "    structure_set_roi1.ReferencedFrameOfReferenceUID = dsorg.FrameOfReferenceUID #'1.2.826.0.1.3680043.9.3218.1.1.302475.1985.1592890895061.53224.0' # \n",
    "    structure_set_roi1.ROIName = 'TestScale'\n",
    "    structure_set_roi1.ROIGenerationAlgorithm = ''\n",
    "    structure_set_roi_sequence.append(structure_set_roi1)\n",
    "\n",
    "\n",
    "    # ROI Contour Sequence\n",
    "    roi_contour_sequence = Sequence()\n",
    "    ds.ROIContourSequence = roi_contour_sequence\n",
    "\n",
    "    # ROI Contour Sequence: ROI Contour 1\n",
    "    roi_contour1 = Dataset()\n",
    "\n",
    "    # Contour Sequence\n",
    "    contour_sequence = Sequence()\n",
    "    roi_contour1.ContourSequence = contour_sequence\n",
    "\n",
    "    # Contour Sequence: Contour 1\n",
    "    contour1 = Dataset()\n",
    "\n",
    "    # Contour Image Sequence\n",
    "    contour_image_sequence = Sequence()\n",
    "    contour1.ContourImageSequence = contour_image_sequence\n",
    "\n",
    "    # Contour Image Sequence: Contour Image 1\n",
    "    contour_image1 = Dataset()\n",
    "    contour_image1.ReferencedSOPClassUID = '1.2.840.10008.5.1.4.1.1.2'\n",
    "    contour_image1.ReferencedSOPInstanceUID =dsorg.SOPInstanceUID #'1.2.826.0.1.3680043.9.3218.1.1.302475.1985.1592890895061.53223.0' \n",
    "    contour_image1.ReferencedFrameNumber = \"1\"\n",
    "    contour_image_sequence.append(contour_image1)\n",
    "\n",
    "    contour1.ContourGeometricType = 'CLOSED_PLANAR'\n",
    "    contour1.NumberOfContourPoints = len(borders)/3#\"4\"\n",
    "    contour1.ContourNumber = \"1\"\n",
    "    contour1.ContourData =borders # [-276.91503267973, -162.50000000000, 516.398692810457, 270.222222222222, -162.50000000000, 514.725490196078, 271.895424836601, -162.50000000000, -177.98039215686, -271.89542483660, -162.50000000000, -176.30718954248]\n",
    "    contour_sequence.append(contour1)\n",
    "\n",
    "    roi_contour1.ReferencedROINumber = \"1\"\n",
    "    roi_contour_sequence.append(roi_contour1)\n",
    "\n",
    "\n",
    "    # RT ROI Observations Sequence\n",
    "    rtroi_observations_sequence = Sequence()\n",
    "    ds.RTROIObservationsSequence = rtroi_observations_sequence\n",
    "\n",
    "    # RT ROI Observations Sequence: RT ROI Observations 1\n",
    "    rtroi_observations1 = Dataset()\n",
    "    rtroi_observations1.ObservationNumber = \"1\"\n",
    "    rtroi_observations1.ReferencedROINumber = \"1\"\n",
    "    rtroi_observations1.RTROIInterpretedType = ''\n",
    "    rtroi_observations1.ROIInterpreter = ''\n",
    "    rtroi_observations_sequence.append(rtroi_observations1)\n",
    "\n",
    "    ds.file_meta = file_meta\n",
    "    ds.is_implicit_VR = False\n",
    "    ds.is_little_endian = True\n",
    "\n",
    "    ds.save_as(path+'RTSTRUCT/rt'+str(region_number)+'-'+file_name, write_like_original=False)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": []
  },
  {
   "cell_type": "code",
   "execution_count": 42,
   "metadata": {},
   "outputs": [],
   "source": [
    "# path='/Users/Alireza/Desktop/Datasets/covid4237/'\n",
    "\n",
    "# files = os.listdir(path+'Dicom')\n",
    "# file_name=files[1]\n",
    "# print(file_name)\n",
    "# DicomRT(path,file_name)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 43,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
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      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-40-6lmb09.dcm\n",
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      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-134-6m6m4z.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-64-6m23qw.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-68-6m26po.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-28-6lljkk.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-66-6m258a.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-48-6lmx93.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-31-6lm7as.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-1-6lk844.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-43-6lmssx.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-137-6m5f4p.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-58-6m0v98.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-70-6m2872.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-109-6m5aoj.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-91-6m2af5.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-127-6m4qns.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-72-6m29og.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-23-6lll1y.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-7-6lkb2w.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-36-6m1jq5.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-47-6lmtjm.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-117-6m42xk.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-104-6m3jni.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-103-6m47dq.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-80-6m1nfm.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-89-6m28xr.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-87-6m4ofp.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-41-6lm6k3.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-85-6m2wnz.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-63-6m1hi2.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-20-6ll117.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-27-6llo0q.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-114-6m41g6.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-81-6m2v6l.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-76-6m1kgu.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-118-6m5bf8.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-73-6m2qqf.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-49-6lmv10.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-107-6m40ph.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-113-6m4reh.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-18-6lkzjt.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-101-6m45wc.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-132-6m4ud9.dcm\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-78-6m1ly8.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-38-6lms28.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-108-6m6248.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-15-6lkesd.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-35-6lm9iv.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-115-6m4svv.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-119-6m43o9.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-30-6lllsn.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-98-6m3hff.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-71-6m10g3.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-82-6m24hl.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-56-6m1i8r.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-102-6m3iwt.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-19-6lkwl1.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-105-6m3ke7.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-33-6lm8s6.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-39-6lm52p.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-99-6m44ey.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-84-6m25yz.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-75-6m2s7t.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-94-6m3f7c.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-95-6m2syi.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-11-6lkv3n.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-116-6m426v.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-34-6llorf.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-69-6m0zpe.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-122-6m46n1.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-26-6lli36.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-67-6m0yyp.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-92-6m3egn.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-133-6m6lea.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-16-6lkxbq.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-29-6lm5te.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-54-6m1grd.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-25-6llmjc.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-131-6m63lm.dcm\n",
      "1.2.826.0.1.3680043.9.3218.1.1.1872364.1022.1591771672055.7043.0-3-59-6m1l7j.dcm\n"
     ]
    }
   ],
   "source": [
    "path='/Users/Alireza/Desktop/Datasets/covid4237/'\n",
    "files = os.listdir(path+'Dicom')\n",
    "for name in files:\n",
    "    print(name)\n",
    "    if name.find('.dcm')>=0:\n",
    "        DicomRT(path,name,1)\n",
    "        DicomRT(path,name,2)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": []
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": []
  }
 ],
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   "name": "python3"
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  "language_info": {
   "codemirror_mode": {
    "name": "ipython",
    "version": 3
   },
   "file_extension": ".py",
   "mimetype": "text/x-python",
   "name": "python",
   "nbconvert_exporter": "python",
   "pygments_lexer": "ipython3",
   "version": "3.8.5"
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 },
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