Mailman 3 February 2014 - scikit-image

Requested Feature - Blob Detection
by Vighnesh Birodkar 27 Feb '14

27 Feb '14

Hello I am applying as a GSoC student for scikit-image this year. I was a GSoC student for SimpleCV last year. I wanted to get started by implementing Blob Detection (DOG and LOG initially ). I was looking for some guidelines to start with. I would the code inside 'features' in a .py and/or .pyx file .Is there any existing piece of code lying around in scikit-image which I can use as a template ? I think it would be a good idea to keep the return value of all blob detection functions the same. They could return a class ( or a dict ) with some attributes set ( some blob detection algorithms might calculate areas as well ). Or I could just return (x,y) coordinates . Please point out if I am mistaken anywhere. Thanks Vighnesh

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Line structuring element
by Neil Isaacs 26 Feb '14

26 Feb '14

I would like to create linear structuring element but at different angles, are there any functions in scikit that will readily achieve this? Thanks for any assistance.

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Re: GSoC 2014 (mentors)
by Guillaume Gay 26 Feb '14

26 Feb '14

Hi, I'm not sure I qualify for the job, having contributed only a little to the code, but I sure use skimage a lot. If you think I can manage nonetheless, I'll be happy to try! Best, Guillaume Le 26/02/2014 12:43, Juan Nunez-Iglesias a écrit : > It's also worth noting that currently (if I remember correctly) only > Stefan and I are signed up, and we need a minimum of 3 mentors to be > listed under the PSF... So, any other volunteers are very much > appreciated!!! > > > > On Wed, Feb 26, 2014 at 5:14 PM, Stéfan van der Walt <stefan(a)sun.ac.za > <mailto:stefan@sun.ac.za>> wrote: > > If you would like to mentor for Google Summer of Code this year, > please raise your hand so that I know! > > On Mon, Feb 24, 2014 at 12:28 PM, Stéfan van der Walt > <stefan(a)sun.ac.za <mailto:stefan@sun.ac.za>> wrote: > > Hi everyone > > > > If you are interested in mentoring for Google Summer of Code this > > year, please fill in the following form: > > > > > https://docs.google.com/forms/d/1wEaF22w2sKQY4iWxzFKmuYPf6ZEgV4uUKEKssHFSTB… > > > > And join these two mailing lists: > > > > https://mail.python.org/mailman/listinfo/soc2014-general > (subscribe to > > this one to talk to prospective students) > > https://mail.python.org/mailman/listinfo/soc2014-mentors > (subscribe to > > this one for announcements, reminders & mentor discussion.) > > > > Discussions for the PSF GSoC effort on IRC: #python-gsoc on > Freenode. > > > > Thanks > > Stéfan > > -- > You received this message because you are subscribed to the Google > Groups "scikit-image" group. > To unsubscribe from this group and stop receiving emails from it, > send an email to scikit-image+unsubscribe(a)googlegroups.com > <mailto:scikit-image%2Bunsubscribe@googlegroups.com>. > For more options, visit https://groups.google.com/groups/opt_out. > > > -- > You received this message because you are subscribed to the Google > Groups "scikit-image" group. > To unsubscribe from this group and stop receiving emails from it, send > an email to scikit-image+unsubscribe(a)googlegroups.com. > For more options, visit https://groups.google.com/groups/opt_out.

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Re: GSoC 2014 (mentors)
by Juan Nunez-Iglesias 26 Feb '14

26 Feb '14

It's also worth noting that currently (if I remember correctly) only Stefan and I are signed up, and we need a minimum of 3 mentors to be listed under the PSF... So, any other volunteers are very much appreciated!!! On Wed, Feb 26, 2014 at 5:14 PM, Stéfan van der Walt <stefan(a)sun.ac.za>wrote: > If you would like to mentor for Google Summer of Code this year, > please raise your hand so that I know! > > On Mon, Feb 24, 2014 at 12:28 PM, Stéfan van der Walt <stefan(a)sun.ac.za> > wrote: > > Hi everyone > > > > If you are interested in mentoring for Google Summer of Code this > > year, please fill in the following form: > > > > > https://docs.google.com/forms/d/1wEaF22w2sKQY4iWxzFKmuYPf6ZEgV4uUKEKssHFSTB… > > > > And join these two mailing lists: > > > > https://mail.python.org/mailman/listinfo/soc2014-general (subscribe to > > this one to talk to prospective students) > > https://mail.python.org/mailman/listinfo/soc2014-mentors (subscribe to > > this one for announcements, reminders & mentor discussion.) > > > > Discussions for the PSF GSoC effort on IRC: #python-gsoc on Freenode. > > > > Thanks > > Stéfan > > -- > You received this message because you are subscribed to the Google Groups > "scikit-image" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to scikit-image+unsubscribe(a)googlegroups.com. > For more options, visit https://groups.google.com/groups/opt_out. >

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Re: GSoC 2014 (mentors)
by Stéfan van der Walt 26 Feb '14

26 Feb '14

If you would like to mentor for Google Summer of Code this year, please raise your hand so that I know! On Mon, Feb 24, 2014 at 12:28 PM, Stéfan van der Walt <stefan(a)sun.ac.za> wrote: > Hi everyone > > If you are interested in mentoring for Google Summer of Code this > year, please fill in the following form: > > https://docs.google.com/forms/d/1wEaF22w2sKQY4iWxzFKmuYPf6ZEgV4uUKEKssHFSTB… > > And join these two mailing lists: > > https://mail.python.org/mailman/listinfo/soc2014-general (subscribe to > this one to talk to prospective students) > https://mail.python.org/mailman/listinfo/soc2014-mentors (subscribe to > this one for announcements, reminders & mentor discussion.) > > Discussions for the PSF GSoC effort on IRC: #python-gsoc on Freenode. > > Thanks > Stéfan

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GSoC 2014 (mentors)
by Stéfan van der Walt 24 Feb '14

24 Feb '14

Hi everyone If you are interested in mentoring for Google Summer of Code this year, please fill in the following form: https://docs.google.com/forms/d/1wEaF22w2sKQY4iWxzFKmuYPf6ZEgV4uUKEKssHFSTB… And join these two mailing lists: https://mail.python.org/mailman/listinfo/soc2014-general (subscribe to this one to talk to prospective students) https://mail.python.org/mailman/listinfo/soc2014-mentors (subscribe to this one for announcements, reminders & mentor discussion.) Discussions for the PSF GSoC effort on IRC: #python-gsoc on Freenode. Thanks Stéfan

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Pixel Value
by Ambar Mehrotra 23 Feb '14

23 Feb '14

How do i get the RGB value of a pixel ? I am using 'misc.imread' module of 'SciPy' to load the image file. When i type : myimage[x,y] It gives me a single value. What value is this exactly? And how do i get the exact RGB value of the pixel?

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Re: Digitization errors in small circles
by Adam Hughes 20 Feb '14

20 Feb '14

Thanks Juan. I'm trying to write a section for a paper about imaging nanoparticles and one of the key criteria is finding the lower limit in resolution at which it's still safe to trust the encoding routines, otherwise I wouldn't be so pedantic. I'll try to followup and see if I can get a PR like that in. Hope it's kosher to cross post with this stuff. On Thu, Feb 20, 2014 at 8:25 PM, Juan Nunez-Iglesias <jni.soma(a)gmail.com>wrote: > I saw your post on the ImageJ list! =) imho that PR would be most welcome. > > > > On Fri, Feb 21, 2014 at 4:56 AM, Adam Hughes <hughesadam87(a)gmail.com>wrote: > >> Thanks. I suspect that the algorithm you guys have is probably a good >> solution for the encoding, and the fact that it gets a bit fuzzy at very >> low pixel count is just the price one pays for having a very applicable >> encoding algorithm. I noticed that imageJ's encoding outputs the same area >> and perimiter by the way, but they apply some sort of the correction before >> outputting circularity. If I get a chance to see what the circularity >> correction is; if it's not too hard, maybe I can put in a PR for a new >> descriptor called circularity to circularity_adjusted. >> >> >> >> On Wed, Feb 19, 2014 at 10:17 PM, Juan Nunez-Iglesias <jni.soma(a)gmail.com >> > wrote: >> >>> On Thu, Feb 20, 2014 at 4:42 AM, Adam Hughes <hughesadam87(a)gmail.com>wrote: >>> >>>> Thanks Juan. Ya I had read that, sorry to make you post the source >>>> link. I guess I just wanted to confirm that what I was seeing made sense >>>> and was a product of the drawing routine rather than some sort of error or >>>> misinterpretation. >>>> >>> >>> No worries. I'd like to be more help but this is not my code so I'm as >>> familiar with it as you are. If you figure out a better approximation, a >>> pull request would be very welcome! =) >>> >>> Juan. >>> >>> -- >>> You received this message because you are subscribed to a topic in the >>> Google Groups "scikit-image" group. >>> To unsubscribe from this topic, visit >>> https://groups.google.com/d/topic/scikit-image/vjOMjwaWwg4/unsubscribe. >>> To unsubscribe from this group and all of its topics, send an email to >>> scikit-image+unsubscribe(a)googlegroups.com. >>> >>> For more options, visit https://groups.google.com/groups/opt_out. >>> >> >> -- >> You received this message because you are subscribed to the Google Groups >> "scikit-image" group. >> To unsubscribe from this group and stop receiving emails from it, send an >> email to scikit-image+unsubscribe(a)googlegroups.com. >> >> For more options, visit https://groups.google.com/groups/opt_out. >> > > -- > You received this message because you are subscribed to a topic in the > Google Groups "scikit-image" group. > To unsubscribe from this topic, visit > https://groups.google.com/d/topic/scikit-image/vjOMjwaWwg4/unsubscribe. > To unsubscribe from this group and all of its topics, send an email to > scikit-image+unsubscribe(a)googlegroups.com. > For more options, visit https://groups.google.com/groups/opt_out. >

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Re: Digitization errors in small circles
by Juan Nunez-Iglesias 20 Feb '14

20 Feb '14

I saw your post on the ImageJ list! =) imho that PR would be most welcome. On Fri, Feb 21, 2014 at 4:56 AM, Adam Hughes <hughesadam87(a)gmail.com> wrote: > Thanks. I suspect that the algorithm you guys have is probably a good > solution for the encoding, and the fact that it gets a bit fuzzy at very > low pixel count is just the price one pays for having a very applicable > encoding algorithm. I noticed that imageJ's encoding outputs the same area > and perimiter by the way, but they apply some sort of the correction before > outputting circularity. If I get a chance to see what the circularity > correction is; if it's not too hard, maybe I can put in a PR for a new > descriptor called circularity to circularity_adjusted. > > > > On Wed, Feb 19, 2014 at 10:17 PM, Juan Nunez-Iglesias <jni.soma(a)gmail.com>wrote: > >> On Thu, Feb 20, 2014 at 4:42 AM, Adam Hughes <hughesadam87(a)gmail.com>wrote: >> >>> Thanks Juan. Ya I had read that, sorry to make you post the source >>> link. I guess I just wanted to confirm that what I was seeing made sense >>> and was a product of the drawing routine rather than some sort of error or >>> misinterpretation. >>> >> >> No worries. I'd like to be more help but this is not my code so I'm as >> familiar with it as you are. If you figure out a better approximation, a >> pull request would be very welcome! =) >> >> Juan. >> >> -- >> You received this message because you are subscribed to a topic in the >> Google Groups "scikit-image" group. >> To unsubscribe from this topic, visit >> https://groups.google.com/d/topic/scikit-image/vjOMjwaWwg4/unsubscribe. >> To unsubscribe from this group and all of its topics, send an email to >> scikit-image+unsubscribe(a)googlegroups.com. >> >> For more options, visit https://groups.google.com/groups/opt_out. >> > > -- > You received this message because you are subscribed to the Google Groups > "scikit-image" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to scikit-image+unsubscribe(a)googlegroups.com. > For more options, visit https://groups.google.com/groups/opt_out. >

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Re: Digitization errors in small circles
by Adam Hughes 20 Feb '14

20 Feb '14

Thanks. I suspect that the algorithm you guys have is probably a good solution for the encoding, and the fact that it gets a bit fuzzy at very low pixel count is just the price one pays for having a very applicable encoding algorithm. I noticed that imageJ's encoding outputs the same area and perimiter by the way, but they apply some sort of the correction before outputting circularity. If I get a chance to see what the circularity correction is; if it's not too hard, maybe I can put in a PR for a new descriptor called circularity to circularity_adjusted. On Wed, Feb 19, 2014 at 10:17 PM, Juan Nunez-Iglesias <jni.soma(a)gmail.com>wrote: > On Thu, Feb 20, 2014 at 4:42 AM, Adam Hughes <hughesadam87(a)gmail.com>wrote: > >> Thanks Juan. Ya I had read that, sorry to make you post the source link. >> I guess I just wanted to confirm that what I was seeing made sense and was >> a product of the drawing routine rather than some sort of error or >> misinterpretation. >> > > No worries. I'd like to be more help but this is not my code so I'm as > familiar with it as you are. If you figure out a better approximation, a > pull request would be very welcome! =) > > Juan. > > -- > You received this message because you are subscribed to a topic in the > Google Groups "scikit-image" group. > To unsubscribe from this topic, visit > https://groups.google.com/d/topic/scikit-image/vjOMjwaWwg4/unsubscribe. > To unsubscribe from this group and all of its topics, send an email to > scikit-image+unsubscribe(a)googlegroups.com. > For more options, visit https://groups.google.com/groups/opt_out. >

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