IGT:Image Anonymization - Revision history

Mark at 21:30, 24 October 2007

2007-10-24T21:30:49Z

Mark at 23:15, 13 July 2007

2007-07-13T23:15:36Z

Mark at 22:34, 13 July 2007

2007-07-13T22:34:25Z

Mark at 21:05, 13 July 2007

2007-07-13T21:05:46Z

Mark at 23:47, 27 February 2007

2007-02-27T23:47:07Z

Mark at 23:45, 27 February 2007

2007-02-27T23:45:47Z

Mark at 23:42, 27 February 2007

2007-02-27T23:42:09Z

Mark at 23:39, 27 February 2007

2007-02-27T23:39:55Z

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 dicom study and additionally will substitute the series number for the patient name. This is particularly useful when
 loading multiple series into ''3dslicer'' as the slicer assigns the ''volume name'' to be the patient name that has been
-extracted from the header. Using the command below will give each series a unique patient name which is just the series number.<br>
+extracted from the header. Using the command below will give each series a unique patient name which is just the series number.
 <br>
   '''ls -1 | awk '{printf("wish $ANON_DIR/dcanon.tcl -patname %s -force -nostrip /d/bigweekly/example/%s /d/bigweekly/anon/%s &\n",$0,$0,$0)}' | sed s/.SER// | sh'''

@@ Line 1: / Line 1: @@
 <center>
-'''Process to anonymize DICOM, SIGNA, and GENESIS headers'''
+'''Procedures to  ''anonymize'' images with DICOM, SIGNA, and GENESIS headers'''
 </center>
 Currently these procedures are to be used from within SPL
 on a ''solaris'' machine.
 In all cases, first login to a SOLARIS machine (e.g. ocean) and
-set the following environment variable:<br>
+set the following environment variable or add it to your .tcshrc file:<br>
 <br>
@@ Line 19: / Line 19: @@
 '''wish $ANON_DIR/dcanon.tcl
 '''
-Typically for our needs, something like the following is sufficient:
+<br>
 '''wish $ANON_DIR/dcanon.tcl -force -nostrip /d/bigweekly/example/000001.SER/ /d/bigweekly/example/anon1'''
+<br>
 <br>
@@ Line 29: / Line 46: @@
 * ''SIGNA data anonymization''
 <br>
-From the directory with your non-anonymized signa images type:<br><br>
+If you wanted to anonymize signa image I.001 and call it anon.001, from the directory with your non-anonymized signa image type:<br><br>
 '''$ANON_DIR/siganon I.001 anon.001'''
@@ Line 36: / Line 53: @@
 This can be done for an entire series. For example, if you had a directory full of signa images numbered I.001 to
 I.124, you could anonymize all of them (from within the directory containing the images) with the command: <br><br>
-<br><br>
+<br>
-'''ls -1 | awk '{printf("$ANON_DIR/siganon I.%03d anon.%03d\n",NR,NR)}' | sh'''
+'''ls -1 I.*  | awk '{printf("$ANON_DIR/siganon I.%03d anon.%03d\n",NR,NR)}' | sh'''
 <br><br>
 This will create an anonymized series of 124 images  called anon.001 - anon.124<br><br>
@@ Line 46: / Line 63: @@
-From the directory with your non-anonymized genesis images type:<br><br>
+To anonymize image I.001 can call the resulting image anon.001. from the directory with your non-anonymized genesis images type:<br><br>
 '''$ANON_DIR/genanon I.001 anon.001'''
-<br>
+<br><br>
 This can be done for an entire series. For example, if you had a directory full of genesis images numbered I.001 to
 I.124, you could anonymize all of them (from within the directory containing the images) with the command: <br><br>
-'''ls -1 | awk '{printf("$ANON_DIR/genanon I.%03d anon.%03d\n",NR,NR)}' | sh'''
+'''ls -1 I.* | awk '{printf("$ANON_DIR/genanon I.%03d anon.%03d\n",NR,NR)}' | sh'''
 <br><br>This will create an anonymized series of 124 images  called anon.001 - anon.124<br>
-Note that the input image and the output image can be the same image.
+Note that the input image and the output image can be the ''same image'' if you are using the genanon program.
 If you have any questions or suggestions, please email [mailto:mark@bwh.harvard.edu Mark Anderson]

@@ Line 1: / Line 1: @@
 <center>
-Process to anonymize SIGNA, GENESIS, and DICOM headers
+'''Process to anonymize DICOM, SIGNA, and GENESIS headers'''
 </center>
 Currently these procedures are to be used from within SPL
-on a solaris machine.
+on a ''solaris'' machine.

@@ Line 1: / Line 1: @@
 <center>
-Process to anonymize DICOM headers
+Process to anonymize SIGNA, GENESIS, and DICOM headers
 </center>
-We use several tcl programs which wrap Dave Clunie's DICOM copy program
+Currently these procedures are to be used from within SPL
-called dccp which is part of his Dicom3tools program set.
+on a solaris machine.

@@ Line 3: / Line 3: @@
 </center>
 We use several tcl programs which wrap Dave Clunie's DICOM copy program
-called dccp which is part of
+called dccp which is part of his Dicom3tools program set.

← Older revision		Revision as of 23:45, 27 February 2007
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	Process to anonymize DICOM headers		Process to anonymize DICOM headers
	</center>		</center>
		+	We use several tcl programs which wrap Dave Clunie's DICOM copy program
		+	called dccp which is part of

← Older revision		Revision as of 23:42, 27 February 2007
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−	~~save a placeholder~~	+	<center>
		+	Process to anonymize DICOM headers
		+	</center>