NITRC Hammer And WML Modules for 3D Slicer Forum: hammer_faq

Using hammer in 3D Slicer

Zeyuan Chen — Mon, 16 Jan 2023 7:45:35 GMT

Hi manager,
I tried to use Hammer in 3D Slicer(Version 3.6), but my 3D Slicer's extensions Manager suggests me that 'Could not connect to specified repository, check network connection.' If I have any way to use Hammer in 3D slicer?

Thanks a lot.Best regards.

Zeyuan
Shandong Normal University

Where I Find the Implementation of Scalable High-Performance Image Registration Framework?

Natan Andrade — Sun, 08 Sep 2019 19:00:20 GMT

Hi guys!

I really liked the Hammer methodology.

I would like to know if the implementation of the article below is available in this repository or another?

Wu, Guorong, et al. "Scalable high-performance image registration framework by unsupervised deep feature representations learning." IEEE Transactions on Biomedical Engineering 63.7 (2015): 1505-1516.

Thanks in advance!
Natan Andrade

RE: Hammer in 3D Slicer for mac only support x86?

Yang Yu — Tue, 29 Nov 2011 22:47:24 GMT

Sorry, I wanner put this thread to Help forum, but I have no limit to do that.

I change some codes in CMakeList.txt to build shared library for HammerRegistration as following:

OPTION(BUILD_HAMMER_SHARED "Build the Hammer libraries shared." ON)

IF(BUILD_HAMMER_SHARED)
SET(HAMMER_LIBRARY_TYPE SHARED)
ELSE(BUILD_HAMMER_SHARED)
SET(HAMMER_LIBRARY_TYPE STATIC)
ENDIF(BUILD_HAMMER_SHARED)

ADD_LIBRARY(HammerRegistration ${HAMMER_LIBRARY_TYPE} HammerRegistrationTest.cxx)

Now I can obtain x86_64 HammerRegistration library on Mac.

Best,
Yang

Hammer in 3D Slicer for mac only support x86?

Yang Yu — Tue, 29 Nov 2011 20:44:12 GMT

The slicer is built in my Mac of x86_64. When I try slicer to install extend module, it could find HammerRegistration and installed. But when I restart Slicer, I can not find HammerRegistration module. I guess whether the website only provide precompiled 32-bit HammerRegistration. If so, could you please let me know whether you provide 64-bit HammerRegistration for Mac or how to get the 64-bit library from your open source codes?

Thanks,
Yang

RE: Run HAMMER

Guorong Wu — Thu, 17 Nov 2011 14:28:01 GMT

3D slicer encourages to reuse the existing modules as much as possible. Therefore our HAMMER registration module performs the deformable registration which only estimate the local deformations.

RE: An example of using HAMMER in ITK

Guorong Wu — Wed, 16 Nov 2011 15:49:57 GMT

3D slicer encourages to reuse the existing modules as much as possible. Therefore our HAMMER registration module performs the deformable registration which only estimate the local deformations. Usually linear registration is needed to remove the global difference before running the deformable registration. Please see the complete data processing pipeline at (http://www.nitrc.org/forum/forum.php?thread_id=2758&forum_id=2340).

RE: Supported data format in HAMMER

Guorong Wu — Wed, 16 Nov 2011 4:46:39 GMT

Since HAMMER is the 3D deformable registration method, the input images must be 3D images.

RE: Where to download source code and document

Guorong Wu — Fri, 11 Nov 2011 19:36:24 GMT

Use the following command to get the nightly-build source code (for HAMMER developer):
svn checkout https://www.nitrc.org/svn/hammerwml

Run HAMMER

Guorong Wu — Fri, 11 Nov 2011 18:29:45 GMT

The step-by-step tutorial can be found in the download panel of this page. We show all snapshots of using HAMMER in 3D Slicer from skull stripping module to HAMMER registration module.

RE: Supported data format in HAMMER

Guorong Wu — Fri, 11 Nov 2011 16:06:07 GMT

The input to HAMMER could be all kinds of medical data formats which ITK supports, such as ANALYZE and NIfTI data format.