Structured Report (SR) objects

marcelvanherk · Apr 28th 2014

Hi Robby,

no space between the filenames and the , and it needs to running server to process data.

Marcel

Robbster · May 1st 2014

Hey Marcel,

Tried again:

root@ubuntu:/data/0001# /opt/dgate --uncompress 1.3.12.2.1107.5.2.6.22723.30000010032313544023400001129_0019_000001_1276026003ac83.v2,outfile
Server command sent using DGATE -- option

Not sure what else to try. My goal here is to convert close to 900,000. Is there any type of "batch conversion" I can run using the --uncompress option or is there an easier way?

Many thanks!!!

Robby

marcelvanherk · May 1st 2014

Hi,

you miss the : between uncompress and the first filename. It is in the manual.

dgate --uncompress:file_in,file_out

The best wat to batch it to load the data into a conquest server (put the files in the MAG storage and regenerate) and move all data to itself choosing a filenamesyntax with .dcm extension.

Marcel

alain_godard · Nov 24th 2014

Bonjour

Quote from marcelvanherk

....
you can fix this by adding the reported sequence to dgate.dic; a more general solution is scheduled for the next release.
Marcel

I have never been able to solve this problem. Modifying dicom.dic changes nothing.
I wanted to test with dicomserver1417d but export does not work.

Code

ExportConverters                  = 1ExportModality0                   = SRExportConverter0                  = D:\dicomserver1417d\dsr2xml.exe %f D:\dicomserver1417d\structuredreport\%b.xml

Code

[CONQUESTSRV1] Started 1 export queue thread(s)

Merci

marcelvanherk · Nov 24th 2014

Hi,

if you use drag and drop to load the SR you have to set ImportExportDragAnDrop to 1 in dicom.ini. Otherwise the export converter does not trigger (which seems to be the case).

Marcel

alain_godard · Nov 24th 2014

yes is't
dicom.ini like

Code

...
ImportExportDragAnDrop            = 1


ExportConverters                  = 1
ExportModality0                   = SR
ExportConverter0                  = D:\dicomserver1417d\dsr2xml.exe %f D:\dicomserver1417d\structuredreport\%b.xml....

marcelvanherk · Nov 24th 2014

Can you enable debug logging and see hat happens if you load an SR?

Marcel

alain_godard · Nov 24th 2014

Merci de votre réponse rapide.

Code

------------ Adding image files to server -----------
[CONQUESTSRV1] Connected by address: 0100007f
[CONQUESTSRV1] Testing transfer: '1.2.840.10008.1.2' against list #0 = '1.2.840.10008.1.2'
[CONQUESTSRV1] 0000,0002     18 UI AffectedSOPClassUID    "1.2.840.10008.1.1" 
[CONQUESTSRV1] 0000,0100      2 US CommandField           48 
[CONQUESTSRV1] 0000,0110      2 US MessageID              7 
[CONQUESTSRV1] 0000,0800      2 US DataSetType            257 
[CONQUESTSRV1] 0002,0010     17 UI TransferSyntaxUID      "1.2.840.10008.1.2" 
[CONQUESTSRV1] 9999,0400    120 LO ConquestConsoleComma   "addimagefile:C:\\Users\\godard\\Desktop\\dicom\\1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1_0001_000001_141441774986f9.dcm" 
[CONQUESTSRV1] Query Tables: DICOMImages
[CONQUESTSRV1] Columns     : ObjectFile, DeviceName
[CONQUESTSRV1] Where       : SOPInstanc = '1.2.276.0.26.1.1.1.2.2014.337.51634.5521272' AND ImagePat = '36197'
[CONQUESTSRV1] Order       : (null)
[CONQUESTSRV1] Query Tables: DICOMImages
[CONQUESTSRV1] Columns     : SOPInstanc,SOPClassUI,ImageNumbe,ImageDate,ImageTime,EchoNumber,NumberOfFr,AcqDate,AcqTime,ReceivingC,AcqNumber,SliceLocat,SamplesPer,PhotoMetri,Rows,Colums,BitsStored,ImageType,ImageID,ImagePat,SeriesInst
[CONQUESTSRV1] Where       : SOPInstanc = '1.2.276.0.26.1.1.1.2.2014.337.51634.5521272' AND ImagePat = '36197'
[CONQUESTSRV1] Order       : (null)
[CONQUESTSRV1] Update Table: DICOMImages
[CONQUESTSRV1] Updates     :  SOPInstanc = '1.2.276.0.26.1.1.1.2.2014.337.51634.5521272',  SOPClassUI = '1.2.840.10008.5.1.4.1.1.88.33',  ImageNumbe = '1',  ImageDate = '20141027',  ImageTime = '152034',  ImagePat = '36197',  SeriesInst = '1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1', AccessTime = 1416830976, ObjectFile = '36197\\1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1_0001_000001_14166954670000.dcm', DeviceName = 'MAG0'
[CONQUESTSRV1] Where       : SOPInstanc = '1.2.276.0.26.1.1.1.2.2014.337.51634.5521272' AND ImagePat = '36197'
[CONQUESTSRV1] Query Tables: DICOMSeries
[CONQUESTSRV1] Columns     : SeriesInst,SeriesNumb,SeriesDate,SeriesTime,SeriesDesc,Modality,PatientPos,ContrastBo,Manufactur,ModelName,BodyPartEx,ProtocolNa,FrameOfRef,SeriesPat,StudyInsta
[CONQUESTSRV1] Where       : SeriesInst = '1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1' AND SeriesPat = '36197'
[CONQUESTSRV1] Order       : (null)
[CONQUESTSRV1] Update Table: DICOMSeries
[CONQUESTSRV1] Updates     :  SeriesInst = '1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1',  SeriesNumb = '1',  Modality = 'SR',  Manufactur = 'GE Healthcare Kretz',  SeriesPat = '36197',  StudyInsta = '1.2.276.0.26.1.1.1.2.2014.337.51089.1964877.1', AccessTime = 1416830976
[CONQUESTSRV1] Where       : SeriesInst = '1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1' AND SeriesPat = '36197'
[CONQUESTSRV1] Query Tables: DICOMStudies
[CONQUESTSRV1] Columns     : StudyInsta,StudyDate,StudyTime,StudyID,StudyDescr,AccessionN,ReferPhysi,PatientsAg,PatientsWe,StudyModal,StationNam,Institutio,PatientNam,PatientBir,PatientSex,PatientID
[CONQUESTSRV1] Where       : StudyInsta = '1.2.276.0.26.1.1.1.2.2014.337.51089.1964877.1'
[CONQUESTSRV1] Order       : (null)
[CONQUESTSRV1] Update Table: DICOMStudies
[CONQUESTSRV1] Updates     :  StudyInsta = '1.2.276.0.26.1.1.1.2.2014.337.51089.1964877.1',  StudyDate = '20141027',  StudyTime = '151129',  AccessionN = '2128376',  StudyModal = 'SR',  PatientNam = ''xxxx,  PatientBir = xxxx,  PatientSex = 'F',  PatientID = xxxx, AccessTime = 1416830976
[CONQUESTSRV1] Where       : StudyInsta = '1.2.276.0.26.1.1.1.2.2014.337.51089.1964877.1'
[CONQUESTSRV1] Query Tables: DICOMPatients
[CONQUESTSRV1] Columns     : PatientID,PatientNam,PatientBir,PatientSex
[CONQUESTSRV1] Where       : PatientID = '36197'
[CONQUESTSRV1] Order       : (null)
[CONQUESTSRV1] Update Table: DICOMPatients
[CONQUESTSRV1] Updates     :  PatientID = '36197',  PatientNam = 'xxx,  PatientBir = 'xxx,  PatientSex = 'F', AccessTime = 1416830976
[CONQUESTSRV1] Where       : PatientID = xxxx'
[CONQUESTSRV1] Added file: D:\dicomserver1417d\data\36197\1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1_0001_000001_14166954670000.dcm
-----------------------------------------------------

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marcelvanherk · Nov 24th 2014

Hi,

the exportconverter does not trigger. Can you remove the ExportModality0 statement and make sure the server is restarted such that ImportExportDragAndDrop is read from dicom.ini.

Marcel

alain_godard · Nov 24th 2014

Code

[CONQUESTSRV1] Monitoring for files in: D:\dicomserver1417d\data\incoming\
[CONQUESTSRV1] DGATE (1.4.17d, build Sat Nov 22 21:00:56 2014, bits 32) is running as threaded server
[CONQUESTSRV1] Database type: native MySQL connection
[CONQUESTSRV1] User interface test: local server is running!


------------ Adding image files to server -----------
[CONQUESTSRV1] Connected by address: 0100007f
[CONQUESTSRV1] Testing transfer: '1.2.840.10008.1.2' against list #0 = '1.2.840.10008.1.2'
[CONQUESTSRV1] 0000,0002     18 UI AffectedSOPClassUID    "1.2.840.10008.1.1" 
[CONQUESTSRV1] 0000,0100      2 US CommandField           48 
[CONQUESTSRV1] 0000,0110      2 US MessageID              7 
[CONQUESTSRV1] 0000,0800      2 US DataSetType            257 
[CONQUESTSRV1] 0002,0010     17 UI TransferSyntaxUID      "1.2.840.10008.1.2" 
[CONQUESTSRV1] 9999,0400    120 LO ConquestConsoleComma   "addimagefile:C:\\Users\\godard\\Desktop\\dicom\\1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1_0001_000001_141441774986f9.dcm" 
[CONQUESTSRV1] Query Tables: DICOMImages
[CONQUESTSRV1] Columns     : ObjectFile, DeviceName
[CONQUESTSRV1] Where       : SOPInstanc = '1.2.276.0.26.1.1.1.2.2014.337.51634.5521272' AND ImagePat = '36197'
[CONQUESTSRV1] Order       : (null)
[CONQUESTSRV1] Query Tables: DICOMImages
[CONQUESTSRV1] Columns     : SOPInstanc,SOPClassUI,ImageNumbe,ImageDate,ImageTime,EchoNumber,NumberOfFr,AcqDate,AcqTime,ReceivingC,AcqNumber,SliceLocat,SamplesPer,PhotoMetri,Rows,Colums,BitsStored,ImageType,ImageID,ImagePat,SeriesInst
[CONQUESTSRV1] Where       : SOPInstanc = '1.2.276.0.26.1.1.1.2.2014.337.51634.5521272' AND ImagePat = '36197'
[CONQUESTSRV1] Order       : (null)
[CONQUESTSRV1] Update Table: DICOMImages
[CONQUESTSRV1] Updates     :  SOPInstanc = '1.2.276.0.26.1.1.1.2.2014.337.51634.5521272',  SOPClassUI = '1.2.840.10008.5.1.4.1.1.88.33',  ImageNumbe = '1',  ImageDate = '20141027',  ImageTime = '152034',  ImagePat = '36197',  SeriesInst = '1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1', AccessTime = 1416835072, ObjectFile = '36197\\1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1_0001_000001_14166954670000.dcm', DeviceName = 'MAG0'
[CONQUESTSRV1] Where       : SOPInstanc = '1.2.276.0.26.1.1.1.2.2014.337.51634.5521272' AND ImagePat = '36197'
[CONQUESTSRV1] Query Tables: DICOMSeries
[CONQUESTSRV1] Columns     : SeriesInst,SeriesNumb,SeriesDate,SeriesTime,SeriesDesc,Modality,PatientPos,ContrastBo,Manufactur,ModelName,BodyPartEx,ProtocolNa,FrameOfRef,SeriesPat,StudyInsta
[CONQUESTSRV1] Where       : SeriesInst = '1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1' AND SeriesPat = '36197'
[CONQUESTSRV1] Order       : (null)
[CONQUESTSRV1] Update Table: DICOMSeries
[CONQUESTSRV1] Updates     :  SeriesInst = '1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1',  SeriesNumb = '1',  Modality = 'SR',  Manufactur = 'GE Healthcare Kretz',  SeriesPat = '36197',  StudyInsta = '1.2.276.0.26.1.1.1.2.2014.337.51089.1964877.1', AccessTime = 1416835072
[CONQUESTSRV1] Where       : SeriesInst = '1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1' AND SeriesPat = '36197'
[CONQUESTSRV1] Query Tables: DICOMStudies
[CONQUESTSRV1] Columns     : StudyInsta,StudyDate,StudyTime,StudyID,StudyDescr,AccessionN,ReferPhysi,PatientsAg,PatientsWe,StudyModal,StationNam,Institutio,PatientNam,PatientBir,PatientSex,PatientID
[CONQUESTSRV1] Where       : StudyInsta = '1.2.276.0.26.1.1.1.2.2014.337.51089.1964877.1'
[CONQUESTSRV1] Order       : (null)
[CONQUESTSRV1] Update Table: DICOMStudies
[CONQUESTSRV1] Updates     :  StudyInsta = '1.2.276.0.26.1.1.1.2.2014.337.51089.1964877.1',  StudyDate = '20141027',  StudyTime = '151129',  AccessionN = '2128376',  StudyModal = 'SR',  PatientNam = ',  PatientBir = '19900116',  PatientSex = 'F',  PatientID = '36197', AccessTime = 1416835072
[CONQUESTSRV1] Where       : StudyInsta = '1.2.276.0.26.1.1.1.2.2014.337.51089.1964877.1'
[CONQUESTSRV1] Query Tables: DICOMPatients
[CONQUESTSRV1] Columns     : PatientID,PatientNam,PatientBir,PatientSex
[CONQUESTSRV1] Where       : PatientID = '36197'
[CONQUESTSRV1] Order       : (null)
[CONQUESTSRV1] Update Table: DICOMPatients
[CONQUESTSRV1] Updates     :  PatientID = '36197',  PatientNam = ',  PatientBir = '19900116',  PatientSex = 'F', AccessTime = 1416835072
[CONQUESTSRV1] Where       : PatientID = '36197'
[CONQUESTSRV1] Added file: D:\dicomserver1417d\data\36197\1.2.276.0.26.1.1.1.2.2014.337.51634.7189834.1_0001_000001_14166954670000.dcm
-----------------------------------------------------

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marcelvanherk · Nov 24th 2014

Hi

Can you post dicom.ini again. I have the feeling the settings were lost - the GUI keeps copy in memory so this happens if you change dicom.ini while the server is running.

P.S. Take out patient names if you post a log...

Marcel

alain_godard · Nov 24th 2014

I removed export converter, restart the server, the draganddrop work. I handed export converter , rebooted the server but it still does not work ...

marcelvanherk · Nov 24th 2014

Hi,

can you post the complete dicom.ini please.

Marcel

alain_godard · Nov 24th 2014

Sorry, I did not see the previous post . Oops, the patient name ....
Here the requested file :

Code

# This file contains configuration information for the DICOM server
# Do not edit unless you know what you are doing


[sscscp]
MicroPACS                = sscscp
Edition                  = Personal


# Network configuration: server name and TCP/IP port#
MyACRNema                = CONQUESTSRV1
TCPPort                  = 5678


# Reference to other files: known dicom servers; database layout; sops
ACRNemaMap               = acrnema.map
kFactorFile              = dicom.sql
SOPClassList             = dgatesop.lst


# Host, database, username and password for MySql database
SQLHost                  = localhost
SQLServer                = dicom
Username                 = root
Password                 = aaaaaa
MySql                    = 1
DoubleBackSlashToDB      = 1
UseEscapeStringConstants = 0


# Configure database
TruncateFieldNames       = 10
MaxFieldLength           = 254
MaxFileNameLength        = 255
FixPhilips               = 0
FixKodak                 = 0
KeepAlive                = 60
LargeFileSizeKB          = 2100
PrintSquareLandscape     = 0
UseKpacsDecompression    = 1
ZipTime                  = 05:
UIDPrefix                = 1.2.826.0.1.3680043.2.135.733027.78890188
EnableReadAheadThread    = 1
PatientQuerySortOrder    = 
StudyQuerySortOrder      = 
SeriesQuerySortOrder     = 
ImageQuerySortOrder      = 
EnableComputedFields     = 0
IndexDBF                 = 1
PackDBF                  = 0
LongQueryDBF             = 1000
TCPIPTimeOut             = 300
FailHoldOff              = 60
RetryDelay               = 100
RetryForwardFailed       = 0
ImportExportDragAndDrop  = 0
QueueSize                = 128
WorkListMode             = 0
WorkListReturnsISO_IR_100 = 1
DebugLevel               = 0
Prefetcher               = 0
LRUSort                  = 
AllowTruncate            = 
DecompressNon16BitsJpeg  = 1
UseBuiltInJPEG           = 1
LossyQuality             = 95
IgnoreOutOfMemoryErrors  = 0
NoDICOMCheck             = 0
PadAEWithZeros           = 0
AllowEmptyPatientID      = 0
FileNameSyntax           = 4


# Configuration of compression for incoming images and archival
DroppedFileCompression   = uj
IncomingCompression      = uj
ArchiveCompression       = as


# Names of the database tables
PatientTableName         = DICOMPatients
StudyTableName           = DICOMStudies
SeriesTableName          = DICOMSeries
ImageTableName           = DICOMImages
WorkListTableName        = DICOMWorkList
DMarkTableName           = DICOMAccessUpdates
RegisteredMOPDeviceTable = RegisteredMOPIDs
UIDToMOPIDTable          = UIDToMOPID
UIDToCDRIDTable          = UIDToCDRID


# Banner and host for debug information
PACSName                 = CONQUESTSRV1
OperatorConsole          = 127.0.0.1


# Configure email of error messages
MailHost                 = 
MailPort                 = smtp
MailSignon               = 
MailFromName             = 
MailRcptName1            = 
MailCollectTime          = 1
MailWaitTime             = 10


# Configuration of disk(s) to store images
MAGDeviceThreshhold      = 0
MAGDeviceFullThreshHold  = 30
IgnoreMAGDeviceThreshold = 0
MAGDevices               = 2
MAGDevice0               = D:\dicomserver1417d\data\
MAGDevice1               = D:\dicomserver1417d\archive\
NightlyCleanThreshhold   = 0
NightlyMoveThreshhold    = 0
NightlyMoveTarget        = 


# Configuration of disk(s) to hold images prior to archival
CACHEDevices             = 1
CACHEDevice0             = D:\dicomserver1417d\cache0\cd%02d_%04d\


# Configuration of disk jukebox(es) for archival
JUKEBOXDevices           = 1
JUKEBOXDevice0           = D:\dicomserver1417d\jukebox0\cd00_%04d\


# Configuration of forwarding and/or converter programs to export DICOM slices
ForwardAssociationLevel           = IMAGE
ForwardAssociationCloseDelay      = 5
ForwardAssociationRefreshDelay    = 3600
ForwardAssociationRelease         = 1


ImportExportDragAnDrop            = 1


ExportConverters                  = 1
ExportModality0                   = SR
ExportConverter0                  = D:\dicomserver1417d\dsr2xml.exe %f D:\dicomserver1417d\structuredreport\%b.xml


ForwardCollectDelay               = 600
MaximumExportRetries              = 0
MaximumDelayedFetchForwardRetries = 0

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marcelvanherk · Nov 24th 2014

Hi,

there are two lines with ImportExportDragAnDrop in the file: it reads the first one! So it is disabled.

Marcel

alain_godard · Nov 24th 2014

I do not understand, I see only a single line with ImportExportDragAnDrop ... It would take a second? where?

marcelvanherk · Nov 24th 2014

...
RetryForwardFailed = 0
ImportExportDragAndDrop = 0
QueueSize = 128
....

Marcel

alain_godard · Nov 25th 2014

Export now works correctly.
But, I have always, on some files, a blank export. The xml file exists but is empty (0KB).
With command line :
[Blocked Image: http://lagodardiere.free.fr/fichiers/erreur_dcm_dicom2.JPG]

D:\dicomserver1417d\dgate.dic amended as follows:

Code

...
(0040,A30A) VERS="4"	VR="SQ"   VM="1"	Keyword="MeasuredValueSequence"	Name="Measured Value Sequence"
...

But the problem persists.
Merci.

marcelvanherk · Nov 25th 2014

Hi,

why did you think the original dgate.dic is wrong?

(0040,A30A) VERS="4" VR="DS" VM="1-n" Keyword="NumericValue" Name="Numeric Value"

The software says it is trying to read a number.

Marcel

alain_godard · Nov 25th 2014

hi
You had me made this proposal before. See message:
http://forum.image-systems.biz/viewtopic.php?p=45906#p45906
In fact, whatever I do as a correction in dgate.dic I have the same message dsr2xml.exe.
This error only occurs on two GE V730 (often but not always) but not on the GE E8 newer.
Is the file is transmitted by the V730 which is not correct?
I can post you a file to test if you wish.

Structured Report (SR) objects

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