subject:"Re\\\: \\\[Freesurfer\\\] spatial scale bar question"

Re: [Freesurfer] spatial scale bar question

2019-08-16 Thread Nasiriavanaki, Zahra

Thanks so much.


Zahra (Mona) Nasiriavanaki

Postdoctoral Research Fellow

Martinos Center for Biomedical Imaging

Massachusetts General Hospital

149 13th Street, 149-2615

Charlestown, MA, USA, 02129




From: freesurfer-boun...@nmr.mgh.harvard.edu 
 on behalf of Ruopeng Wang 

Sent: Friday, August 16, 2019 10:42:08 AM
To: Freesurfer support list 
Subject: Re: [Freesurfer] spatial scale bar question

The 3D scale is also a 3d object in the view. When you zoom the view, the scale 
will also zoom. But the number should not change.

On Aug 16, 2019, at 10:25 AM, Nasiriavanaki, Zahra 
mailto:znasiriavan...@mgh.harvard.edu>> wrote:

Hi Ruopeng

Thanks for your reply.
I have a question though. When I zoom in the 3D image, the scale bar numbers 
don't change. Shouldn't they change when I zoom in?

Thanks
Mona

Zahra (Mona) Nasiriavanaki
Postdoctoral Research Fellow
Martinos Center for Biomedical Imaging
Massachusetts General Hospital
149 13th Street, 149-2615
Charlestown, MA, USA, 02129



From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 on behalf of Ruopeng Wang 
mailto:rpw...@nmr.mgh.harvard.edu>>
Sent: Friday, August 16, 2019 8:46:57 AM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] spatial scale bar question

Hi Mona,

If you are running the latest dev build, you can right click in the 3D view and 
choose “Show 3D scale”. The scale bars can only be placed at the boundary of 
the FOV.

Best,
Ruopeng

On Aug 15, 2019, at 4:30 PM, Nasiriavanaki, Zahra 
mailto:znasiriavan...@mgh.harvard.edu>> wrote:

Hi Freesurfer experts

I wanted to follow up on my question about "spatial scale bar" for significancy 
maps in FS.
I appreciate if you let me know about the updates on that.

Thanks
Mona


Zahra (Mona) Nasiriavanaki
Postdoctoral Research Fellow
Martinos Center for Biomedical Imaging
Massachusetts General Hospital
149 13th Street, 149-2615
Charlestown, MA, USA, 02129



From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 on behalf of Bruce Fischl 
mailto:fis...@nmr.mgh.harvard.edu>>
Sent: Monday, May 13, 2019 9:56:41 AM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] spatial scale bar question

Hi Mona

sure. As I said it is a bit more complicated than it seems. Ruopeng will
post a note when something usable is in the dev version

Bruce


On Mon, 13 May
2019, Nasiriavanaki, Zahra wrote:

>
> Yes Bruce.
>
> It doesn't work.
>
> I appreciate if you could let me know when you had any updates on it.
>
>
> Thanks
>
> Mona
>
> ___
> From: 
> freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
>  
> mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
>  on behalf of
> Bruce Fischl mailto:fis...@nmr.mgh.harvard.edu>>
> Sent: Friday, May 10, 2019 6:15:05 PM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] spatial scale bar question
> I don't think it currently works in 3D mode as it is not trivial due to
> perspective transforms. Ruopeng is trying some things
> On Fri, 10 May 2019,
> Greve, Douglas N.,Ph.D. wrote:
>
> > here is a pick of it
> > https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif
>
> [fv.colorbar.gif]
>
>
> >
> >
> > On 5/10/2019 3:40 PM, Nasiriavanaki, Zahra wrote:
> >
> >   Thanks for your reply.
> >
> >   I have overlaid the significance map on an inflated brain, and I 
> > don't see the scale
> >   bar icon anywhere.
> >
> >   tksurferfv fsaverage lh inflated -ov sig.nii.gz
> >
> >
> >__
> _
> > From: 
> > freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
> >  
> > mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
> >  on
> > behalf of Greve, Douglas N.,Ph.D. 
> > mailto:dgr...@mgh.harvard.edu>>
> > Sent: Friday, May 10, 2019 3:27:15 PM
> > To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>
> > Subject: Re: [Freesurfer] spatial scale bar question
> > In freeview, it is just an icon above the image window. Click on it and it 
> > should give you a
> > scale bar
> >
> > On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:
> >
> &

Re: [Freesurfer] spatial scale bar question

2019-08-16 Thread Ruopeng Wang

The 3D scale is also a 3d object in the view. When you zoom the view, the scale 
will also zoom. But the number should not change. 

> On Aug 16, 2019, at 10:25 AM, Nasiriavanaki, Zahra 
>  wrote:
> 
> Hi Ruopeng
> 
> Thanks for your reply.
> I have a question though. When I zoom in the 3D image, the scale bar numbers 
> don't change. Shouldn't they change when I zoom in?
> 
> Thanks 
> Mona
> 
> Zahra (Mona) Nasiriavanaki
> Postdoctoral Research Fellow
> Martinos Center for Biomedical Imaging
> Massachusetts General Hospital
> 149 13th Street, 149-2615
> Charlestown, MA, USA, 02129
> 
> 
> From: freesurfer-boun...@nmr.mgh.harvard.edu 
>  on behalf of Ruopeng Wang 
> 
> Sent: Friday, August 16, 2019 8:46:57 AM
> To: Freesurfer support list 
> Subject: Re: [Freesurfer] spatial scale bar question
>  
> Hi Mona,
> 
> If you are running the latest dev build, you can right click in the 3D view 
> and choose “Show 3D scale”. The scale bars can only be placed at the boundary 
> of the FOV.
> 
> Best,
> Ruopeng
> 
>> On Aug 15, 2019, at 4:30 PM, Nasiriavanaki, Zahra 
>> mailto:znasiriavan...@mgh.harvard.edu>> 
>> wrote:
>> 
>> Hi Freesurfer experts
>> 
>> I wanted to follow up on my question about "spatial scale bar" for 
>> significancy maps in FS.
>> I appreciate if you let me know about the updates on that.
>> 
>> Thanks
>> Mona
>> 
>> Zahra (Mona) Nasiriavanaki
>> Postdoctoral Research Fellow
>> Martinos Center for Biomedical Imaging
>> Massachusetts General Hospital
>> 149 13th Street, 149-2615
>> Charlestown, MA, USA, 02129
>> 
>> 
>> From: freesurfer-boun...@nmr.mgh.harvard.edu 
>> <mailto:freesurfer-boun...@nmr.mgh.harvard.edu> 
>> > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> on behalf of Bruce Fischl 
>> mailto:fis...@nmr.mgh.harvard.edu>>
>> Sent: Monday, May 13, 2019 9:56:41 AM
>> To: Freesurfer support list > <mailto:freesurfer@nmr.mgh.harvard.edu>>
>> Subject: Re: [Freesurfer] spatial scale bar question
>>  
>> Hi Mona
>> 
>> sure. As I said it is a bit more complicated than it seems. Ruopeng will 
>> post a note when something usable is in the dev version
>> 
>> Bruce
>> 
>> 
>> On Mon, 13 May 
>> 2019, Nasiriavanaki, Zahra wrote:
>> 
>> > 
>> > Yes Bruce.
>> > 
>> > It doesn't work.
>> > 
>> > I appreciate if you could let me know when you had any updates on it.
>> > 
>> > 
>> > Thanks
>> > 
>> > Mona
>> > 
>> > ___
>> > From: freesurfer-boun...@nmr.mgh.harvard.edu 
>> > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu> 
>> > > > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> on behalf of
>> > Bruce Fischl > > <mailto:fis...@nmr.mgh.harvard.edu>>
>> > Sent: Friday, May 10, 2019 6:15:05 PM
>> > To: Freesurfer support list
>> > Subject: Re: [Freesurfer] spatial scale bar question  
>> > I don't think it currently works in 3D mode as it is not trivial due to
>> > perspective transforms. Ruopeng is trying some things
>> > On Fri, 10 May 2019,
>> > Greve, Douglas N.,Ph.D. wrote:
>> > 
>> > > here is a pick of it
>> > > https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif 
>> > > <https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif>
>> > 
>> > [fv.colorbar.gif]
>> > 
>> > 
>> > >
>> > >
>> > > On 5/10/2019 3:40 PM, Nasiriavanaki, Zahra wrote:
>> > >
>> > >   Thanks for your reply.
>> > >
>> > >   I have overlaid the significance map on an inflated brain, and I 
>> > > don't see the scale
>> > >   bar icon anywhere.
>> > >
>> > >   tksurferfv fsaverage lh inflated -ov sig.nii.gz
>> > >
>> > >
>> > >__
>> > _
>> > > From: freesurfer-boun...@nmr.mgh.harvard.edu 
>> > > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu> 
>> > > > > > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> on
>> > > behalf of Greve, Douglas N.,Ph.D. > > > <mailto:dgr...@mgh.harvard.edu>>
>> > > Sen

Re: [Freesurfer] spatial scale bar question

2019-08-16 Thread Nasiriavanaki, Zahra

Hi Ruopeng


Thanks for your reply.

I have a question though. When I zoom in the 3D image, the scale bar numbers 
don't change. Shouldn't they change when I zoom in?


Thanks

Mona


Zahra (Mona) Nasiriavanaki

Postdoctoral Research Fellow

Martinos Center for Biomedical Imaging

Massachusetts General Hospital

149 13th Street, 149-2615

Charlestown, MA, USA, 02129




From: freesurfer-boun...@nmr.mgh.harvard.edu 
 on behalf of Ruopeng Wang 

Sent: Friday, August 16, 2019 8:46:57 AM
To: Freesurfer support list 
Subject: Re: [Freesurfer] spatial scale bar question

Hi Mona,

If you are running the latest dev build, you can right click in the 3D view and 
choose “Show 3D scale”. The scale bars can only be placed at the boundary of 
the FOV.

Best,
Ruopeng

On Aug 15, 2019, at 4:30 PM, Nasiriavanaki, Zahra 
mailto:znasiriavan...@mgh.harvard.edu>> wrote:

Hi Freesurfer experts

I wanted to follow up on my question about "spatial scale bar" for significancy 
maps in FS.
I appreciate if you let me know about the updates on that.

Thanks
Mona


Zahra (Mona) Nasiriavanaki
Postdoctoral Research Fellow
Martinos Center for Biomedical Imaging
Massachusetts General Hospital
149 13th Street, 149-2615
Charlestown, MA, USA, 02129



From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 on behalf of Bruce Fischl 
mailto:fis...@nmr.mgh.harvard.edu>>
Sent: Monday, May 13, 2019 9:56:41 AM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] spatial scale bar question

Hi Mona

sure. As I said it is a bit more complicated than it seems. Ruopeng will
post a note when something usable is in the dev version

Bruce


On Mon, 13 May
2019, Nasiriavanaki, Zahra wrote:

>
> Yes Bruce.
>
> It doesn't work.
>
> I appreciate if you could let me know when you had any updates on it.
>
>
> Thanks
>
> Mona
>
> ___
> From: 
> freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
>  
> mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
>  on behalf of
> Bruce Fischl mailto:fis...@nmr.mgh.harvard.edu>>
> Sent: Friday, May 10, 2019 6:15:05 PM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] spatial scale bar question
> I don't think it currently works in 3D mode as it is not trivial due to
> perspective transforms. Ruopeng is trying some things
> On Fri, 10 May 2019,
> Greve, Douglas N.,Ph.D. wrote:
>
> > here is a pick of it
> > https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif
>
> [fv.colorbar.gif]
>
>
> >
> >
> > On 5/10/2019 3:40 PM, Nasiriavanaki, Zahra wrote:
> >
> >   Thanks for your reply.
> >
> >   I have overlaid the significance map on an inflated brain, and I 
> > don't see the scale
> >   bar icon anywhere.
> >
> >   tksurferfv fsaverage lh inflated -ov sig.nii.gz
> >
> >
> >__
> _
> > From: 
> > freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
> >  
> > mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
> >  on
> > behalf of Greve, Douglas N.,Ph.D. 
> > mailto:dgr...@mgh.harvard.edu>>
> > Sent: Friday, May 10, 2019 3:27:15 PM
> > To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>
> > Subject: Re: [Freesurfer] spatial scale bar question
> > In freeview, it is just an icon above the image window. Click on it and it 
> > should give you a
> > scale bar
> >
> > On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:
> >
> >   Dear Freesurfers
> >
> >   Hi
> >
> >
> >   I am trying to add a spatial scale bar to my cortical maps in 
> > tksurfer. However,
> >   as it's mentioned in Freesurfer forum before, the scale bar in 
> > tksurfer shrinks
> >   when you zoom in the brain.
> >
> >   I couldn't find a scale bar option in Freeview neither.
> >
> >   I appreciate if you could let me know how to get a scale bar.
> >
> >
> >   Thanks
> >
> >   Mona
> >
> >
> >
> > ___
> > Freesurfer mailing list
> > Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu>
> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>

Re: [Freesurfer] spatial scale bar question

2019-08-16 Thread Ruopeng Wang

Hi Mona,

If you are running the latest dev build, you can right click in the 3D view and 
choose “Show 3D scale”. The scale bars can only be placed at the boundary of 
the FOV.

Best,
Ruopeng

> On Aug 15, 2019, at 4:30 PM, Nasiriavanaki, Zahra 
>  wrote:
> 
> Hi Freesurfer experts
> 
> I wanted to follow up on my question about "spatial scale bar" for 
> significancy maps in FS.
> I appreciate if you let me know about the updates on that.
> 
> Thanks
> Mona
> 
> Zahra (Mona) Nasiriavanaki
> Postdoctoral Research Fellow
> Martinos Center for Biomedical Imaging
> Massachusetts General Hospital
> 149 13th Street, 149-2615
> Charlestown, MA, USA, 02129
> 
> 
> From: freesurfer-boun...@nmr.mgh.harvard.edu 
>  on behalf of Bruce Fischl 
> 
> Sent: Monday, May 13, 2019 9:56:41 AM
> To: Freesurfer support list 
> Subject: Re: [Freesurfer] spatial scale bar question
>  
> Hi Mona
> 
> sure. As I said it is a bit more complicated than it seems. Ruopeng will 
> post a note when something usable is in the dev version
> 
> Bruce
> 
> 
> On Mon, 13 May 
> 2019, Nasiriavanaki, Zahra wrote:
> 
> > 
> > Yes Bruce.
> > 
> > It doesn't work.
> > 
> > I appreciate if you could let me know when you had any updates on it.
> > 
> > 
> > Thanks
> > 
> > Mona
> > 
> > ___________________
> > From: freesurfer-boun...@nmr.mgh.harvard.edu 
> >  on behalf of
> > Bruce Fischl 
> > Sent: Friday, May 10, 2019 6:15:05 PM
> > To: Freesurfer support list
> > Subject: Re: [Freesurfer] spatial scale bar question  
> > I don't think it currently works in 3D mode as it is not trivial due to
> > perspective transforms. Ruopeng is trying some things
> > On Fri, 10 May 2019,
> > Greve, Douglas N.,Ph.D. wrote:
> > 
> > > here is a pick of it
> > > https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif 
> > > <https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif>
> > 
> > [fv.colorbar.gif]
> > 
> > 
> > >
> > >
> > > On 5/10/2019 3:40 PM, Nasiriavanaki, Zahra wrote:
> > >
> > >   Thanks for your reply.
> > >
> > >   I have overlaid the significance map on an inflated brain, and I 
> > > don't see the scale
> > >   bar icon anywhere.
> > >
> > >   tksurferfv fsaverage lh inflated -ov sig.nii.gz
> > >
> > >
> > >__
> > _
> > > From: freesurfer-boun...@nmr.mgh.harvard.edu 
> > >  on
> > > behalf of Greve, Douglas N.,Ph.D. 
> > > Sent: Friday, May 10, 2019 3:27:15 PM
> > > To: freesurfer@nmr.mgh.harvard.edu
> > > Subject: Re: [Freesurfer] spatial scale bar question  
> > > In freeview, it is just an icon above the image window. Click on it and 
> > > it should give you a
> > > scale bar
> > >
> > > On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:
> > >
> > >   Dear Freesurfers 
> > >
> > >   Hi
> > >
> > >
> > >   I am trying to add a spatial scale bar to my cortical maps in 
> > > tksurfer. However,
> > >   as it's mentioned in Freesurfer forum before, the scale bar in 
> > > tksurfer shrinks
> > >   when you zoom in the brain.
> > >
> > >   I couldn't find a scale bar option in Freeview neither.
> > >
> > >   I appreciate if you could let me know how to get a scale bar.
> > >
> > >
> > >   Thanks
> > >
> > >   Mona
> > >
> > >
> > >
> > > ___
> > > Freesurfer mailing list
> > > Freesurfer@nmr.mgh.harvard.edu
> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 
> > > <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 
> > > <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 mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

Re: [Freesurfer] spatial scale bar question

2019-08-15 Thread Nasiriavanaki, Zahra

Hi Freesurfer experts


I wanted to follow up on my question about "spatial scale bar" for significancy 
maps in FS.

I appreciate if you let me know about the updates on that.


Thanks

Mona


Zahra (Mona) Nasiriavanaki

Postdoctoral Research Fellow

Martinos Center for Biomedical Imaging

Massachusetts General Hospital

149 13th Street, 149-2615

Charlestown, MA, USA, 02129




From: freesurfer-boun...@nmr.mgh.harvard.edu 
 on behalf of Bruce Fischl 

Sent: Monday, May 13, 2019 9:56:41 AM
To: Freesurfer support list 
Subject: Re: [Freesurfer] spatial scale bar question

Hi Mona

sure. As I said it is a bit more complicated than it seems. Ruopeng will
post a note when something usable is in the dev version

Bruce


On Mon, 13 May
2019, Nasiriavanaki, Zahra wrote:

>
> Yes Bruce.
>
> It doesn't work.
>
> I appreciate if you could let me know when you had any updates on it.
>
>
> Thanks
>
> Mona
>
> ___
> From: freesurfer-boun...@nmr.mgh.harvard.edu 
>  on behalf of
> Bruce Fischl 
> Sent: Friday, May 10, 2019 6:15:05 PM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] spatial scale bar question
> I don't think it currently works in 3D mode as it is not trivial due to
> perspective transforms. Ruopeng is trying some things
> On Fri, 10 May 2019,
> Greve, Douglas N.,Ph.D. wrote:
>
> > here is a pick of it
> > https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif
>
> [fv.colorbar.gif]
>
>
> >
> >
> > On 5/10/2019 3:40 PM, Nasiriavanaki, Zahra wrote:
> >
> >   Thanks for your reply.
> >
> >   I have overlaid the significance map on an inflated brain, and I 
> > don't see the scale
> >   bar icon anywhere.
> >
> >   tksurferfv fsaverage lh inflated -ov sig.nii.gz
> >
> >
> >__
> _
> > From: freesurfer-boun...@nmr.mgh.harvard.edu 
> >  on
> > behalf of Greve, Douglas N.,Ph.D. 
> > Sent: Friday, May 10, 2019 3:27:15 PM
> > To: freesurfer@nmr.mgh.harvard.edu
> > Subject: Re: [Freesurfer] spatial scale bar question
> > In freeview, it is just an icon above the image window. Click on it and it 
> > should give you a
> > scale bar
> >
> > On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:
> >
> >   Dear Freesurfers
> >
> >   Hi
> >
> >
> >   I am trying to add a spatial scale bar to my cortical maps in 
> > tksurfer. However,
> >   as it's mentioned in Freesurfer forum before, the scale bar in 
> > tksurfer shrinks
> >   when you zoom in the brain.
> >
> >   I couldn't find a scale bar option in Freeview neither.
> >
> >   I appreciate if you could let me know how to get a scale bar.
> >
> >
> >   Thanks
> >
> >   Mona
> >
> >
> >
> > ___
> > 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 mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

Re: [Freesurfer] spatial scale bar question

2019-05-13 Thread Nasiriavanaki, Zahra

Great!
Thanks

> On May 13, 2019, at 9:56 AM, Bruce Fischl  wrote:
> 
> Hi Mona
> 
> sure. As I said it is a bit more complicated than it seems. Ruopeng will post 
> a note when something usable is in the dev version
> 
> Bruce
> 
> 
> On Mon, 13 May 2019, Nasiriavanaki, Zahra wrote:
> 
>> Yes Bruce.
>> It doesn't work.
>> I appreciate if you could let me know when you had any updates on it.
>> Thanks
>> Mona
>> ___
>> From: freesurfer-boun...@nmr.mgh.harvard.edu 
>>  on behalf of
>> Bruce Fischl 
>> Sent: Friday, May 10, 2019 6:15:05 PM
>> To: Freesurfer support list
>> Subject: Re: [Freesurfer] spatial scale bar question  
>> I don't think it currently works in 3D mode as it is not trivial due to
>> perspective transforms. Ruopeng is trying some things
>> On Fri, 10 May 2019,
>> Greve, Douglas N.,Ph.D. wrote:
>> > here is a pick of it
>> > https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif
>> [fv.colorbar.gif]
>> >
>> >
>> > On 5/10/2019 3:40 PM, Nasiriavanaki, Zahra wrote:
>> >
>> >   Thanks for your reply.
>> >
>> >   I have overlaid the significance map on an inflated brain, and I 
>> > don't see the scale
>> >   bar icon anywhere.
>> >
>> >   tksurferfv fsaverage lh inflated -ov sig.nii.gz
>> >
>> >
>> >______________________
>> _
>> > From: freesurfer-boun...@nmr.mgh.harvard.edu 
>> >  on
>> > behalf of Greve, Douglas N.,Ph.D. 
>> > Sent: Friday, May 10, 2019 3:27:15 PM
>> > To: freesurfer@nmr.mgh.harvard.edu
>> > Subject: Re: [Freesurfer] spatial scale bar question  
>> > In freeview, it is just an icon above the image window. Click on it and it 
>> > should give you a
>> > scale bar
>> >
>> > On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:
>> >
>> >   Dear Freesurfers 
>> >
>> >   Hi
>> >
>> >
>> >   I am trying to add a spatial scale bar to my cortical maps in 
>> > tksurfer. However,
>> >   as it's mentioned in Freesurfer forum before, the scale bar in 
>> > tksurfer shrinks
>> >   when you zoom in the brain.
>> >
>> >   I couldn't find a scale bar option in Freeview neither.
>> >
>> >   I appreciate if you could let me know how to get a scale bar.
>> >
>> >
>> >   Thanks
>> >
>> >   Mona
>> >
>> >
>> >
>> > ___
>> > 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
>> >
>> >
>> >
>> >
> ___
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Re: [Freesurfer] spatial scale bar question

2019-05-13 Thread Bruce Fischl


Hi Mona

sure. As I said it is a bit more complicated than it seems. Ruopeng will 
post a note when something usable is in the dev version


Bruce


On Mon, 13 May 
2019, Nasiriavanaki, Zahra wrote:




Yes Bruce.

It doesn't work.

I appreciate if you could let me know when you had any updates on it.


Thanks

Mona

___
From: freesurfer-boun...@nmr.mgh.harvard.edu 
 on behalf of
Bruce Fischl 
Sent: Friday, May 10, 2019 6:15:05 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] spatial scale bar question  
I don't think it currently works in 3D mode as it is not trivial due to
perspective transforms. Ruopeng is trying some things
On Fri, 10 May 2019,
Greve, Douglas N.,Ph.D. wrote:

> here is a pick of it
> https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif

[fv.colorbar.gif]


>
>
> On 5/10/2019 3:40 PM, Nasiriavanaki, Zahra wrote:
>
>   Thanks for your reply.
>
>   I have overlaid the significance map on an inflated brain, and I don't 
see the scale
>   bar icon anywhere.
>
>   tksurferfv fsaverage lh inflated -ov sig.nii.gz
>
>
>__
_
> From: freesurfer-boun...@nmr.mgh.harvard.edu 
 on
> behalf of Greve, Douglas N.,Ph.D. 
> Sent: Friday, May 10, 2019 3:27:15 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] spatial scale bar question  
> In freeview, it is just an icon above the image window. Click on it and it 
should give you a
> scale bar
>
> On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:
>
>   Dear Freesurfers 
>
>   Hi
>
>
>   I am trying to add a spatial scale bar to my cortical maps in tksurfer. 
However,
>   as it's mentioned in Freesurfer forum before, the scale bar in tksurfer 
shrinks
>   when you zoom in the brain.
>
>   I couldn't find a scale bar option in Freeview neither.
>
>   I appreciate if you could let me know how to get a scale bar.
>
>
>   Thanks
>
>   Mona
>
>
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
>
> ___
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> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
>
>

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Re: [Freesurfer] spatial scale bar question

2019-05-13 Thread Nasiriavanaki, Zahra

Yes Bruce.

It doesn't work.

I appreciate if you could let me know when you had any updates on it.


Thanks

Mona


From: freesurfer-boun...@nmr.mgh.harvard.edu 
 on behalf of Bruce Fischl 

Sent: Friday, May 10, 2019 6:15:05 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] spatial scale bar question

I don't think it currently works in 3D mode as it is not trivial due to
perspective transforms. Ruopeng is trying some things
On Fri, 10 May 2019,
Greve, Douglas N.,Ph.D. wrote:

> here is a pick of it
> https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif

[https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif]

>
>
> On 5/10/2019 3:40 PM, Nasiriavanaki, Zahra wrote:
>
>   Thanks for your reply.
>
>   I have overlaid the significance map on an inflated brain, and I don't 
> see the scale
>   bar icon anywhere.
>
>   tksurferfv fsaverage lh inflated -ov sig.nii.gz
>
>
> ___
> From: freesurfer-boun...@nmr.mgh.harvard.edu 
>  on
> behalf of Greve, Douglas N.,Ph.D. 
> Sent: Friday, May 10, 2019 3:27:15 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] spatial scale bar question
> In freeview, it is just an icon above the image window. Click on it and it 
> should give you a
> scale bar
>
> On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:
>
>   Dear Freesurfers
>
>   Hi
>
>
>   I am trying to add a spatial scale bar to my cortical maps in tksurfer. 
> However,
>   as it's mentioned in Freesurfer forum before, the scale bar in tksurfer 
> shrinks
>   when you zoom in the brain.
>
>   I couldn't find a scale bar option in Freeview neither.
>
>   I appreciate if you could let me know how to get a scale bar.
>
>
>   Thanks
>
>   Mona
>
>
>
> ___
> 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
>
>
>
>
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Re: [Freesurfer] spatial scale bar question

2019-05-10 Thread Bruce Fischl

I don't think it currently works in 3D mode as it is not trivial due to 
perspective transforms. Ruopeng is trying some things
On Fri, 10 May 2019, 
Greve, Douglas N.,Ph.D. wrote:



here is a pick of it
https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif


On 5/10/2019 3:40 PM, Nasiriavanaki, Zahra wrote:

  Thanks for your reply.

  I have overlaid the significance map on an inflated brain, and I don't 
see the scale
  bar icon anywhere.

  tksurferfv fsaverage lh inflated -ov sig.nii.gz


___
From: freesurfer-boun...@nmr.mgh.harvard.edu 
 on
behalf of Greve, Douglas N.,Ph.D. 
Sent: Friday, May 10, 2019 3:27:15 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] spatial scale bar question  
In freeview, it is just an icon above the image window. Click on it and it 
should give you a
scale bar

On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:

  Dear Freesurfers 

  Hi


  I am trying to add a spatial scale bar to my cortical maps in tksurfer. 
However,
  as it's mentioned in Freesurfer forum before, the scale bar in tksurfer 
shrinks
  when you zoom in the brain.

  I couldn't find a scale bar option in Freeview neither.

  I appreciate if you could let me know how to get a scale bar.


  Thanks

  Mona



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Re: [Freesurfer] spatial scale bar question

2019-05-10 Thread Greve, Douglas N.,Ph.D.

here is a pick of it
https://gate.nmr.mgh.harvard.edu/safelinks/greve/fv.colorbar.gif


On 5/10/2019 3:40 PM, Nasiriavanaki, Zahra wrote:

Thanks for your reply.

I have overlaid the significance map on an inflated brain, and I don't see the 
scale bar icon anywhere.

tksurferfv fsaverage lh inflated -ov sig.nii.gz



From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 on behalf of Greve, Douglas N.,Ph.D. 
<mailto:dgr...@mgh.harvard.edu>
Sent: Friday, May 10, 2019 3:27:15 PM
To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] spatial scale bar question

In freeview, it is just an icon above the image window. Click on it and it 
should give you a scale bar

On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:

Dear Freesurfers

Hi


I am trying to add a spatial scale bar to my cortical maps in tksurfer. 
However, as it's mentioned in Freesurfer forum before, the scale bar in 
tksurfer shrinks when you zoom in the brain.

I couldn't find a scale bar option in Freeview neither.

I appreciate if you could let me know how to get a scale bar.


Thanks

Mona




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Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu>
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Re: [Freesurfer] spatial scale bar question

2019-05-10 Thread Nasiriavanaki, Zahra

Thanks for your reply.

I have overlaid the significance map on an inflated brain, and I don't see the 
scale bar icon anywhere.

tksurferfv fsaverage lh inflated -ov sig.nii.gz



From: freesurfer-boun...@nmr.mgh.harvard.edu 
 on behalf of Greve, Douglas N.,Ph.D. 

Sent: Friday, May 10, 2019 3:27:15 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] spatial scale bar question

In freeview, it is just an icon above the image window. Click on it and it 
should give you a scale bar

On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:

Dear Freesurfers

Hi


I am trying to add a spatial scale bar to my cortical maps in tksurfer. 
However, as it's mentioned in Freesurfer forum before, the scale bar in 
tksurfer shrinks when you zoom in the brain.

I couldn't find a scale bar option in Freeview neither.

I appreciate if you could let me know how to get a scale bar.


Thanks

Mona




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Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu>
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

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Re: [Freesurfer] spatial scale bar question

2019-05-10 Thread Greve, Douglas N.,Ph.D.

In freeview, it is just an icon above the image window. Click on it and it 
should give you a scale bar

On 5/10/2019 3:13 PM, Nasiriavanaki, Zahra wrote:

Dear Freesurfers

Hi


I am trying to add a spatial scale bar to my cortical maps in tksurfer. 
However, as it's mentioned in Freesurfer forum before, the scale bar in 
tksurfer shrinks when you zoom in the brain.

I couldn't find a scale bar option in Freeview neither.

I appreciate if you could let me know how to get a scale bar.


Thanks

Mona




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