--===============0066150085465695964== Content-Type: multipart/alternative; boundary=0015175cb4cef5ced604abe442b8
--0015175cb4cef5ced604abe442b8 Content-Type: text/plain; charset=ISO-8859-1 actually, having read that, I have to change it a bit. If you have a large image and good reason to expect that overall (in all directions) you have the same average spacing and that drift on the AFM is your greatest source of error, you only need to average the longest and shortest and call the range the error. If you have no drift, then the gaussian method may be best. Your sample image is so small that the lamellae mostly run in one direction - probably in this case I would pick the direction with the strongest intensity (i.e. most information) and do the gaussian method on that. On 1 September 2011 11:54, Joe Smerdon <[email protected]> wrote: > Although there is probably a rigorous way of doing this, I wouldn't really > try. Since inside the region of intensity you will get additional peaks > (from multiples of the primary separation) you are only really interested in > the point at which the intensity starts i.e. the outer edge. I personally > would fit that with one half of a Gaussian, call the sigma the error and > average over all directions (to a first approximation, just the directions > which identify the bounds of the distribution i.e. the longest and the > shortest). I don't think it matters that this is not particularly rigorous > as it's a pretty fuzzy number in the first place. I don't know about > tutorials - I have thought about writing some, but the people who would read > them probably number in the 1s. > > Joe > > > 2011/9/1 Lewis Williams <[email protected]> > >> Joe, >> Thank-you very much for the help. >> >> I think I've gotten my head around extracting the d-spacing. But I'm not >> sure about the error. >> Which points of a line profile over the fft would correspond to the error? >> >> Is there a more in depth tutorial on looking at spacing in this manner? >> >> Lewis >> >> >> On 31/08/2011 22:35, Joe Smerdon wrote: >> >> for a large scale image with lots of information, a 2d fft should show a >> (diffuse) ring of intensity showing the average (inverse) spacing. a line >> profile over the diffuse ring might give you something to fit to find the >> error on the measurement. >> >> if i open your phase image, then do a 2d fft, then use the colour tool to >> optimise the colour range, i find a domain of intensity clustered around the >> middle - this (obv) is related only to the low frequency information and the >> stuff around the outside is related to the high frequency (to pick the >> frequency range you are interested in you can use fft filtering). well, the >> lowest frequency stuff i can find in the image is the domain spacing, so i >> just pick the frequency that fits the domain of intensity, invert it and i >> get an average spacing for your image of about 14 nm. a line profile of the >> fft gives me an error of about 1 order of magnitude, so about 1.4 nm. >> >> hth >> >> joe >> >> On 31 August 2011 14:39, Lewis Williams >> <[email protected]>wrote: >> >>> I was wondering if somebody could help me with the correct/best way to >>> process my images. >>> >>> I'm trying to extract the average domain spacing from tapping mode AFM >>> images. >>> I have a lamellae structure, and I'd like to know the average >>> interdomain spacing. >>> >>> I can extract a profile and then measure peak to peak and then average >>> the values, but this is only averaged in 1 dimension over a chosen >>> profile. >>> >>> Please advise. >>> >>> Sincerely, >>> Lewis >>> >>> >>> ------------------------------------------------------------------------------ >>> Special Offer -- Download ArcSight Logger for FREE! >>> Finally, a world-class log management solution at an even better >>> price-free! And you'll get a free "Love Thy Logs" t-shirt when you >>> download Logger. Secure your free ArcSight Logger TODAY! >>> http://p.sf.net/sfu/arcsisghtdev2dev >>> _______________________________________________ >>> Gwyddion-users mailing list >>> [email protected] >>> https://lists.sourceforge.net/lists/listinfo/gwyddion-users >>> >> >> >> >> ------------------------------------------------------------------------------ >> Special Offer -- Download ArcSight Logger for FREE! >> Finally, a world-class log management solution at an even better >> price-free! And you'll get a free "Love Thy Logs" t-shirt when you >> download Logger. Secure your free ArcSight Logger >> TODAY!http://p.sf.net/sfu/arcsisghtdev2dev >> >> >> >> _______________________________________________ >> Gwyddion-users mailing >> [email protected]https://lists.sourceforge.net/lists/listinfo/gwyddion-users >> >> >> >> ------------------------------------------------------------------------------ >> Special Offer -- Download ArcSight Logger for FREE! >> Finally, a world-class log management solution at an even better >> price-free! And you'll get a free "Love Thy Logs" t-shirt when you >> download Logger. Secure your free ArcSight Logger TODAY! >> http://p.sf.net/sfu/arcsisghtdev2dev >> _______________________________________________ >> Gwyddion-users mailing list >> [email protected] >> https://lists.sourceforge.net/lists/listinfo/gwyddion-users >> >> > --0015175cb4cef5ced604abe442b8 Content-Type: text/html; charset=ISO-8859-1 Content-Transfer-Encoding: quoted-printable actually, having read that, I have to change it a bit.=A0 If you have a lar= ge image and good reason to expect that overall (in all directions) you hav= e the same average spacing and that drift on the AFM is your greatest sourc= e of error, you only need to average the longest and shortest and call the = range the error.=A0 If you have no drift, then the gaussian method may be b= est. Your sample image is so small that the lamellae mostly run in one dire= ction - probably in this case I would pick the direction with the strongest= intensity (i.e. most information) and do the gaussian method on that.<br> <br><div class=3D"gmail_quote">On 1 September 2011 11:54, Joe Smerdon <span= dir=3D"ltr"><<a href=3D"mailto:[email protected]";>joesmerdon@go= oglemail.com</a>></span> wrote:<br><blockquote class=3D"gmail_quote" sty= le=3D"margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;"> Although there is probably a rigorous way of doing this, I wouldn't rea= lly try.=A0 Since inside the region of intensity you will get additional pe= aks (from multiples of the primary separation) you are only really interest= ed in the point at which the intensity starts i.e. the outer edge.=A0 I per= sonally would fit that with one half of a Gaussian, call the sigma the erro= r and average over all directions (to a first approximation, just the direc= tions which identify the bounds of the distribution i.e. the longest and th= e shortest).=A0 I don't think it matters that this is not particularly = rigorous as it's a pretty fuzzy number in the first place.=A0 I don'= ;t know about tutorials - I have thought about writing some, but the people= who would read them probably number in the 1s.<br> <font color=3D"#888888"> <br>Joe</font><div><div></div><div class=3D"h5"><br><br><div class=3D"gmail= _quote">2011/9/1 Lewis Williams <span dir=3D"ltr"><<a href=3D"mailto:Lew= [email protected]" target=3D"_blank">[email protected].= uk</a>></span><br> <blockquote class=3D"gmail_quote" style=3D"margin:0 0 0 .8ex;border-left:1p= x #ccc solid;padding-left:1ex"> =20=20 =20=20=20=20 =20=20 <div bgcolor=3D"#FFFFFF" text=3D"#000000"> Joe,<br> Thank-you very much for the help.<br> <br> I think I've gotten my head around extracting the d-spacing. But I&= #39;m not sure about the error.<br> Which points of a line profile over the fft would correspond to the error?<br> <br> Is there a more in depth tutorial on looking at spacing in this manner?<br><font color=3D"#888888"> <br> Lewis</font><div><div></div><div><br> <br> On 31/08/2011 22:35, Joe Smerdon wrote: <blockquote type=3D"cite">for a large scale image with lots of informat= ion, a 2d fft should show a (diffuse) ring of intensity showing the average (inverse) spacing.=A0 a line profile over the diffuse ring might give you something to fit to find the error on the measurement. <br> <br> if i open your phase image, then do a 2d fft, then use the colour tool to optimise the colour range, i find a domain of intensity clustered around the middle - this (obv) is related only to the low frequency information and the stuff around the outside is related to the high frequency (to pick the frequency range you are interested in you can use fft filtering). well, the lowest frequency stuff i can find in the image is the domain spacing, so i just pick the frequency that fits the domain of intensity, invert it and i get an average spacing for your image of about 14 nm.=A0 a line profile of the fft gives me an error of about 1 order of magnitude, so about 1.4 nm.<br> <br> hth<br> <br> joe<br> <br> <div class=3D"gmail_quote">On 31 August 2011 14:39, Lewis Williams <s= pan dir=3D"ltr"><<a href=3D"mailto:[email protected]"; targe= t=3D"_blank">[email protected]</a>></span> wrote:<br> <blockquote class=3D"gmail_quote" style=3D"margin:0 0 0 .8ex;border= -left:1px #ccc solid;padding-left:1ex"> I was wondering if somebody could help me with the correct/best way to<br> process my images.<br> <br> I'm trying to extract the average domain spacing from tapping mode AFM<br> images.<br> I have a lamellae structure, and I'd like to know the average= <br> interdomain spacing.<br> <br> I can extract a profile and then measure peak to peak and then average<br> the values, but this is only averaged in 1 dimension over a chosen profile.<br> <br> Please advise.<br> <br> Sincerely,<br> Lewis<br> <br> ---------------------------------------------------------------------------= ---<br> Special Offer -- Download ArcSight Logger for FREE!<br> Finally, a world-class log management solution at an even better<br> price-free! And you'll get a free "Love Thy Logs" t= -shirt when you<br> download Logger. Secure your free ArcSight Logger TODAY!<br> <a href=3D"http://p.sf.net/sfu/arcsisghtdev2dev"; target=3D"_blank= ">http://p.sf.net/sfu/arcsisghtdev2dev</a><br> _______________________________________________<br> Gwyddion-users mailing list<br> <a href=3D"mailto:[email protected]"; target=3D= "_blank">[email protected]</a><br> <a href=3D"https://lists.sourceforge.net/lists/listinfo/gwyddion-= users" target=3D"_blank">https://lists.sourceforge.net/lists/listinfo/gwydd= ion-users</a><br> </blockquote> </div> <br> <br> <fieldset></fieldset> <br> <pre>----------------------------------------------------------------= -------------- Special Offer -- Download ArcSight Logger for FREE! Finally, a world-class log management solution at an even better=20 price-free! And you'll get a free "Love Thy Logs" t-shirt whe= n you download Logger. Secure your free ArcSight Logger TODAY! <a href=3D"http://p.sf.net/sfu/arcsisghtdev2dev"; target=3D"_blank">http://p= .sf.net/sfu/arcsisghtdev2dev</a></pre> <br> <fieldset></fieldset> <br> <pre>_______________________________________________ Gwyddion-users mailing list <a href=3D"mailto:[email protected]"; target=3D"_blank">G= [email protected]</a> <a href=3D"https://lists.sourceforge.net/lists/listinfo/gwyddion-users"; tar= get=3D"_blank">https://lists.sourceforge.net/lists/listinfo/gwyddion-users<= /a> </pre> </blockquote> </div></div></div> <br>-----------------------------------------------------------------------= -------<br> Special Offer -- Download ArcSight Logger for FREE!<br> Finally, a world-class log management solution at an even better<br> price-free! And you'll get a free "Love Thy Logs" t-shirt whe= n you<br> download Logger. Secure your free ArcSight Logger TODAY!<br> <a href=3D"http://p.sf.net/sfu/arcsisghtdev2dev"; target=3D"_blank">http://p= .sf.net/sfu/arcsisghtdev2dev</a><br>_______________________________________= ________<br> Gwyddion-users mailing list<br> <a href=3D"mailto:[email protected]"; target=3D"_blank">G= [email protected]</a><br> <a href=3D"https://lists.sourceforge.net/lists/listinfo/gwyddion-users"; tar= get=3D"_blank">https://lists.sourceforge.net/lists/listinfo/gwyddion-users<= /a><br> <br></blockquote></div><br> </div></div></blockquote></div><br> --0015175cb4cef5ced604abe442b8-- --===============0066150085465695964== Content-Type: text/plain; charset="us-ascii" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit Content-Disposition: inline ------------------------------------------------------------------------------ Special Offer -- Download ArcSight Logger for FREE! Finally, a world-class log management solution at an even better price-free! And you'll get a free "Love Thy Logs" t-shirt when you download Logger. Secure your free ArcSight Logger TODAY! http://p.sf.net/sfu/arcsisghtdev2dev --===============0066150085465695964== Content-Type: text/plain; charset="us-ascii" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit Content-Disposition: inline _______________________________________________ Gwyddion-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/gwyddion-users --===============0066150085465695964==-- ------------------------------------------------------------------------------ Special Offer -- Download ArcSight Logger for FREE! Finally, a world-class log management solution at an even better price-free! And you'll get a free "Love Thy Logs" t-shirt when you download Logger. Secure your free ArcSight Logger TODAY! http://p.sf.net/sfu/arcsisghtdev2dev _______________________________________________ Gwyddion-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/gwyddion-users
