2010 Project Week DICOM supplement 145 - Revision history

Agouaillard: /* Key Investigators */

2011-05-04T16:17:01Z

Key Investigators

Agouaillard: /* Key Investigators */

2011-05-04T16:15:20Z

Key Investigators

Mathieu: /* Standard support for discrete 2 and 3 manifold storage in ITK */

2010-06-25T14:06:51Z

Standard support for discrete 2 and 3 manifold storage in ITK

Mathieu: /* Standard support for discrete 2 and 3 manifold storage in ITK */

2010-06-25T13:53:41Z

Standard support for discrete 2 and 3 manifold storage in ITK

Mathieu: /* Standard support for discrete 2 and 3 manifold storage in ITK */

2010-06-25T13:49:12Z

Standard support for discrete 2 and 3 manifold storage in ITK

Ibanez: /* Key Investigators */

2010-06-15T19:34:03Z

Key Investigators

Agouaillard: /* Project */

2010-06-14T05:37:38Z

Project

Agouaillard: /* Delivery Mechanism */

2010-06-14T04:18:59Z

Delivery Mechanism

Agouaillard at 04:18, 14 June 2010

2010-06-14T04:18:24Z

Agouaillard at 04:15, 14 June 2010

2010-06-14T04:15:09Z

@@ Line 5: / Line 5: @@
 ==Key Investigators==
-* Mathieu Malaterre: CoSMo Software
+* Mathieu Malaterre: Entrepreneur
 * Alex. Gouaillard: A*STAR
 * Luis Ibanez: Kitware Inc.

@@ Line 6: / Line 6: @@
 ==Key Investigators==
 * Mathieu Malaterre: CoSMo Software
-* Alex. Gouaillard: CoSMo SOftware, A*STAR
+* Alex. Gouaillard: A*STAR
 * Luis Ibanez: Kitware Inc.

← Older revision		Revision as of 14:06, 25 June 2010
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	'''*''' Worked with Kishore for ITK/JPEG 2000 reader. Code review / Made it compile		'''*''' Worked with Kishore for ITK/JPEG 2000 reader. Code review / Made it compile
		+
		+	'''*''' Sync with upstream openjpeg team: there are 400 regression tests now !

	'''*''' Need to synchronize effort with GDCM 2.x and OpenJPEG v2 update. Prepare patch for GDCM 2.x to use openjpeg v2.		'''*''' Need to synchronize effort with GDCM 2.x and OpenJPEG v2 update. Prepare patch for GDCM 2.x to use openjpeg v2.

@@ Line 57: / Line 57: @@
 <h3>Approach, Plan</h3>
-'''1.''' Item #1: Compare existing technologies: HDF5, DICOM, JPEG2000, TIFF
+'''1.''' Item #1: Compare existing technologies: HDF5, DICOM, JPEG2000, TIFF (XMP)
 </div>
@@ Line 66: / Line 70: @@
 '''*''' Worked with Kishore for ITK/JPEG 2000 reader. Code review / Made it compile
-'''*''' Need to synchronize effort with GDCM 2.x and OpenJPEG v2 update
+'''*''' Need to synchronize effort with GDCM 2.x and OpenJPEG v2 update. Prepare patch for GDCM 2.x to use openjpeg v2.
 '''*''' Worked with GoFigure2 team to identify the need:
@@ Line 75: / Line 79: @@
 ** annotations (label)
 </div>

@@ Line 57: / Line 57: @@
 <h3>Approach, Plan</h3>
+'''1.''' Item #1: Compare existing technologies: HDF5, DICOM, JPEG2000, TIFF
 </div>
@@ Line 63: / Line 63: @@
 <h3>Progress</h3>
 </div>

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+=== Standard support for Large multicomponent images in ITK ===
 DICOM currently defines Image IODs by storing the rows and columns as unsigned short
 integer. This means that an image can only be at most of size 2^16 * 2^16 pixels.
@@ Line 32: / Line 32: @@
+=== Standard support for multicomponent images compression in ITK ===
 Microscopy Images, on top of being larger sometimes by several orders of magnitudes from medical images, are also multi-component. Even though ITK handle multicomponent images per say, by defining the right pixel type, nothing is available today for the storage and compression of images that would have more than 3 channels (RGB). Since 2001, the DICOM standard allows JPEG 2000 compression. GDCM 2.x has supported a portion of the standard by providing an API to allow transfer syntax such as JPEG 2000 Image Compression (1.2.840.10008.1.2.4.90 and 1.2.840.10008.1.2.4.91). However the standard also includes JPEG 2000 Part 2 Multi-component Image Compression (1.2.840.10008.1.2.4.92 and 1.2.840.10008.1.2.4.93). The latter has never made into GDCM / ITK, or any other open source DICOM toolkit, since as quoted from the presentation: “Image Compression Refresher – JPEG 2000 and 3D, David Clunie”: the compression gain was modest (using lossless compression). We see now an opportunity that this compression can make it into GDCM / ITK since microscopy images would perfectly fit into the original design of the compression (ISO/IEC 15444-2:2003 Annex J). This would ease the dissemination of large dataset by reusing standard compression techniques, since this would greatly reduce the size of those file datasets. This will be particularly useful for microscopic images. At the time of writing no other open-source DICOM toolkit offer this compression algorithm.
+=== Standard support for discrete 2 and 3 manifold storage in ITK ===
 From its early design, ITK has always offered some n-dimensional n-manifold (polygonal meshes) support through the itk::Mesh class. However at the time of writing of this proposal, there is still no official way to read or write those meshes from and to a filesystem in ITK. Only an hybrid solution is available in Insight Applications. However it implies a dependency to the entire VTK library which is an overkill most of the time.
 Thanks to the work on itk::QuadEdgeMesh some progress have been made toward that goal. The Review directory surrently holds a very simple VTK PolyData reader and writer. However, it only supports legacy vtk files using ASCII encoding. For its defense, this implementation was only made for regression testing and illustration of the filters usage.
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 <div style="width: 97%; float: left;">
 ==Delivery Mechanism==

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 ==Delivery Mechanism==
-This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)
+This work will be delivered to the NA-MIC Kit as a
-#ITK Module
+* ITK Module
-#Other: GDCM extension (gdcm is included in ITK)
+* Other: GDCM extension (gdcm is included in ITK)
 ==References==

← Older revision		Revision as of 04:18, 14 June 2010
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		+	==Delivery Mechanism==

		+	This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)

		+	#ITK Module
		+	#Other: GDCM extension (gdcm is included in ITK)

−	~~(see~~ the official DICOM Standard Proposal [ftp://medical.nema.org/medical/dicom/supps/sup145_09.pdf here] )	+	==References==
		+	*the official DICOM Standard Proposal [ftp://medical.nema.org/medical/dicom/supps/sup145_09.pdf here]
		+
		+	</div>

← Older revision		Revision as of 04:15, 14 June 2010
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	<div style="width: 97%; float: left;">		<div style="width: 97%; float: left;">
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		+
		+
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		+	(see the official DICOM Standard Proposal [ftp://medical.nema.org/medical/dicom/supps/sup145_09.pdf here] )