Hi,
I'm looking for a tool to fill holes of only 1 voxel in size in a binary mask. I posted this also to the FSL mailing list but none of the suggested solutions could do this or were robust enough.
Ed
Hi Ed,
the dev version of mri_morphology will do this:
mri_morphology <input vol> fill_holes 26 <output vol>
where the 26 specifies the min # of nbrs that must be on for the output voxel to be set to 1
cheers Bruce
On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi,
I'm looking for a tool to fill holes of only 1 voxel in size in a binary mask. I posted this also to the FSL mailing list but none of the suggested solutions could do this or were robust enough.
Ed
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Bruce ,
What do you mean with "dev version"?
Ed
On 30 Sep 2011, at 15:22, Bruce Fischl wrote:
Hi Ed,
the dev version of mri_morphology will do this:
mri_morphology <input vol> fill_holes 26 <output vol>
where the 26 specifies the min # of nbrs that must be on for the output voxel to be set to 1
cheers Bruce
On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi,
I'm looking for a tool to fill holes of only 1 voxel in size in a binary mask. I posted this also to the FSL mailing list but none of the suggested solutions could do this or were robust enough.
Ed
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
I mean not the distributed version. If you let us know what software/hardware environment you are using Krish can get you a binary On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi Bruce ,
What do you mean with "dev version"?
Ed
On 30 Sep 2011, at 15:22, Bruce Fischl wrote:
Hi Ed,
the dev version of mri_morphology will do this:
mri_morphology <input vol> fill_holes 26 <output vol>
where the 26 specifies the min # of nbrs that must be on for the output voxel to be set to 1
cheers Bruce
On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi,
I'm looking for a tool to fill holes of only 1 voxel in size in a binary mask. I posted this also to the FSL mailing list but none of the suggested solutions could do this or were robust enough.
Ed
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Dev builds are found here
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev/
On Sep 30, 2011, at 9:42 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
I mean not the distributed version. If you let us know what software/hardware environment you are using Krish can get you a binary On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi Bruce ,
What do you mean with "dev version"?
Ed
On 30 Sep 2011, at 15:22, Bruce Fischl wrote:
Hi Ed,
the dev version of mri_morphology will do this:
mri_morphology <input vol> fill_holes 26 <output vol>
where the 26 specifies the min # of nbrs that must be on for the output voxel to be set to 1
cheers Bruce
On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi,
I'm looking for a tool to fill holes of only 1 voxel in size in a binary mask. I posted this also to the FSL mailing list but none of the suggested solutions could do this or were robust enough.
Ed
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
when does it get updated? He'll need a new one
On Fri, 30 Sep 2011, MGH wrote:
Dev builds are found here
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev/
On Sep 30, 2011, at 9:42 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
I mean not the distributed version. If you let us know what software/hardware environment you are using Krish can get you a binary On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi Bruce ,
What do you mean with "dev version"?
Ed
On 30 Sep 2011, at 15:22, Bruce Fischl wrote:
Hi Ed,
the dev version of mri_morphology will do this:
mri_morphology <input vol> fill_holes 26 <output vol>
where the 26 specifies the min # of nbrs that must be on for the output voxel to be set to 1
cheers Bruce
On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi,
I'm looking for a tool to fill holes of only 1 voxel in size in a binary mask. I posted this also to the FSL mailing list but none of the suggested solutions could do this or were robust enough.
Ed
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Nightly
On Sep 30, 2011, at 9:52 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
when does it get updated? He'll need a new one
On Fri, 30 Sep 2011, MGH wrote:
Dev builds are found here
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev/
On Sep 30, 2011, at 9:42 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
I mean not the distributed version. If you let us know what software/hardware environment you are using Krish can get you a binary On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi Bruce ,
What do you mean with "dev version"?
Ed
On 30 Sep 2011, at 15:22, Bruce Fischl wrote:
Hi Ed,
the dev version of mri_morphology will do this:
mri_morphology <input vol> fill_holes 26 <output vol>
where the 26 specifies the min # of nbrs that must be on for the output voxel to be set to 1
cheers Bruce
On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi,
I'm looking for a tool to fill holes of only 1 voxel in size in a binary mask. I posted this also to the FSL mailing list but none of the suggested solutions could do this or were robust enough.
Ed
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
so grab it tomorrow then Ed
On Fri, 30 Sep 2011, MGH wrote:
Nightly
On Sep 30, 2011, at 9:52 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
when does it get updated? He'll need a new one
On Fri, 30 Sep 2011, MGH wrote:
Dev builds are found here
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev/
On Sep 30, 2011, at 9:42 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
I mean not the distributed version. If you let us know what software/hardware environment you are using Krish can get you a binary On Fri, 30 Sep 2011, Ed Gronenschild wrote:
Hi Bruce ,
What do you mean with "dev version"?
Ed
On 30 Sep 2011, at 15:22, Bruce Fischl wrote:
Hi Ed,
the dev version of mri_morphology will do this:
mri_morphology <input vol> fill_holes 26 <output vol>
where the 26 specifies the min # of nbrs that must be on for the output voxel to be set to 1
cheers Bruce
On Fri, 30 Sep 2011, Ed Gronenschild wrote:
> Hi, > > I'm looking for a tool to fill holes of only 1 voxel in size > in a binary mask. > I posted this also to the FSL mailing list but none of the > suggested solutions could do this or were robust enough. > > Ed > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > >
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Ed Gronenschild -
MGH