Mailman 3 May 2014 - scikit-image

Re: Tutorials
by Juan Nunez-Iglesias May 21, 2014

May 21, 2014

Hi Stuart! This looks like a very good idea on first inspection -- iirc git will not clone/fork a gh-pages branch by default, so having the run notebooks (with a lot of images built-in as Stéfan was concerned about) on that branch should not matter? I'm not sure I have time to get something like this working in time for SciPy... Perhaps I can use my own repo for drafting the tutorial, then move it into the tutorials repo as time allows? On Wed, May 21, 2014 at 7:06 PM, Stuart Mumford <stuart(a)mumford.me.uk>wrote: > Hi, > > Astropy have a interesting tutorials repo ( > https://github.com/astropy/astropy-tutorials) we are planning on > implementing something similar using that for SunPy. There was some talk of > building this on a generic framework based on the Astropy repo, though I > don't think this has picked up much momentum. > > If you are interested in something like this as well then we all could try > and work together on a IPython notebook gallery / tutorials framework? > > Stuart > > > On 21 May 2014 08:14, Stéfan van der Walt <stefan(a)sun.ac.za> wrote: > >> Hey Juan >> >> On Wed, May 21, 2014 at 7:25 AM, Juan Nunez-Iglesias <jni.soma(a)gmail.com> >> wrote: >> > I'd like to have a repo for the tutorial Tony and I are doing at SciPy, >> and >> > all future scikit-image tutorials. I imagine it'll be a mix of markdown, >> > Python, and IPython notebooks. Do you think this is a good idea (say >> > github.com/scikit-image/skimage-tutorials), and if so, can you create >> it? >> > I'd suggest all core members should have write access to it. >> >> I think it's a great idea! >> >> https://github.com/scikit-image/skimage-tutorials >> >> With notebooks, I sometimes worry that the repository grows rapidly if >> you don't clear out the images before storing--what do you think is >> the best way to handle that? >> >> I could perhaps add a Travis config that runs all the notebooks (then >> one doesn't need to store the images because you are sure they can be >> generated). Also, another idea is to deploy to readthedocs upon merge. >> >> 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/d/optout. >> > > -- > 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/d/optout. >

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Re: Real-time interaction forum
by Stuart Mumford May 21, 2014

May 21, 2014

Hi, You may also be interested in gitter (http://gitter.im) which integrates well with GitHub, has a IRC beta module and generally looks quite cool. Stuart On 27 April 2014 11:04, Stuart Mumford <stuart(a)mumford.me.uk> wrote: > Hello, > > > https://github.com/Cadair/williemodules it is very basic but it works. >> >> That's really neat! >> > > There are at least two quite major feature missing at the moment, the main > one is rate limiting the notifications! The second is optionally turning > off the notification when the user is online. Also from my limited testing > I think that all the emails are being duplicated! > > >> Thanks, that's very kind of you. I think a lot of people would >> appreciate having an IRC channel. Does the logger update a page in >> real-time so that a person could "watch" IRC via the web? >> > > Yes, it has a js front end that updates in "real time" there is a variable > delay, but it will update. Currently what the logger is missing is a decent > way of scrolling through the history more than about 100-200 messages in > the past (the js seems to go loopy). All the messages are in a MySQL > database so I want to code up a better flask-based front end to it, but you > know time is always a problem. (I also have a lovely little idea for > integrating the logger and the notification module.) > > Stuart >

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Re: Tutorials
by Stuart Mumford May 21, 2014

May 21, 2014

Hi, Astropy have a interesting tutorials repo ( https://github.com/astropy/astropy-tutorials) we are planning on implementing something similar using that for SunPy. There was some talk of building this on a generic framework based on the Astropy repo, though I don't think this has picked up much momentum. If you are interested in something like this as well then we all could try and work together on a IPython notebook gallery / tutorials framework? Stuart On 21 May 2014 08:14, Stéfan van der Walt <stefan(a)sun.ac.za> wrote: > Hey Juan > > On Wed, May 21, 2014 at 7:25 AM, Juan Nunez-Iglesias <jni.soma(a)gmail.com> > wrote: > > I'd like to have a repo for the tutorial Tony and I are doing at SciPy, > and > > all future scikit-image tutorials. I imagine it'll be a mix of markdown, > > Python, and IPython notebooks. Do you think this is a good idea (say > > github.com/scikit-image/skimage-tutorials), and if so, can you create > it? > > I'd suggest all core members should have write access to it. > > I think it's a great idea! > > https://github.com/scikit-image/skimage-tutorials > > With notebooks, I sometimes worry that the repository grows rapidly if > you don't clear out the images before storing--what do you think is > the best way to handle that? > > I could perhaps add a Travis config that runs all the notebooks (then > one doesn't need to store the images because you are sure they can be > generated). Also, another idea is to deploy to readthedocs upon merge. > > 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/d/optout. >

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Re: Tutorials
by Stéfan van der Walt May 21, 2014

May 21, 2014

Hey Juan On Wed, May 21, 2014 at 7:25 AM, Juan Nunez-Iglesias <jni.soma(a)gmail.com> wrote: > I'd like to have a repo for the tutorial Tony and I are doing at SciPy, and > all future scikit-image tutorials. I imagine it'll be a mix of markdown, > Python, and IPython notebooks. Do you think this is a good idea (say > github.com/scikit-image/skimage-tutorials), and if so, can you create it? > I'd suggest all core members should have write access to it. I think it's a great idea! https://github.com/scikit-image/skimage-tutorials With notebooks, I sometimes worry that the repository grows rapidly if you don't clear out the images before storing--what do you think is the best way to handle that? I could perhaps add a Travis config that runs all the notebooks (then one doesn't need to store the images because you are sure they can be generated). Also, another idea is to deploy to readthedocs upon merge. Thanks! Stéfan

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Tutorials
by Juan Nunez-Iglesias May 21, 2014

May 21, 2014

Hey Stéfan, I'd like to have a repo for the tutorial Tony and I are doing at SciPy, and all future scikit-image tutorials. I imagine it'll be a mix of markdown, Python, and IPython notebooks. Do you think this is a good idea (say github.com/scikit-image/skimage-tutorials), and if so, can you create it? I'd suggest all core members should have write access to it. Thanks! Juan.

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Re: Hisotry of scikit-image in a 5min video.
by Juan Nunez-Iglesias May 17, 2014

May 17, 2014

Very cool! Needs an epic soundtrack from John Williams, though. =P On Sat, May 17, 2014 at 2:05 AM, Stéfan van der Walt <stefan(a)sun.ac.za>wrote: > Hi Vighnesh > > On May 16, 2014 5:07 PM, "Vighnesh Birodkar" <vighneshbirodkar(a)gmail.com> > wrote: > > > > I can generate a high resolution ( 1920 x 1080 ) one. Should I ? > > That would be nice, although perhaps even more handy would be the script > used to do it so we can generate it ourselves, also in the future... > > Regards > 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/d/optout. >

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Re: Hisotry of scikit-image in a 5min video.
by Vighnesh Birodkar May 16, 2014

May 16, 2014

Hello Stéfan I can generate a high resolution ( 1920 x 1080 ) one. Should I ? Thanks Vighnesh On Friday, May 16, 2014 4:04:46 AM UTC+5:30, Stefan van der Walt wrote: > > On Thu, May 15, 2014 at 11:56 PM, Vighnesh Birodkar > <vighnesh...(a)gmail.com <javascript:>> wrote: > > code_swarm is a organic visualizer for source code history. I managed to > > create one for scikit-image. Do have a look. > > I've never seen a code-swarm of skimage before--but I recognise each > and every one of those movements ;) > > Do you happen to have a higher resolution version of this available? > > Thanks! > Stéfan >

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Hisotry of scikit-image in a 5min video.
by Vighnesh Birodkar May 15, 2014

May 15, 2014

Hello Everyone code_swarm is a organic visualizer for source code history. I managed to create one for scikit-image. Do have a look. scikit-image code_swarm<https://www.youtube.com/watch?v=E1bJPP38ueE&feature=youtu.be> See Also code_swarm project page <https://code.google.com/p/codeswarm/> Other awesome code swarms <http://vis.cs.ucdavis.edu/~ogawa/codeswarm/> Thanks Vighnesh

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Re: I/O infrastructure
by Stéfan van der Walt May 15, 2014

May 15, 2014

On Thu, May 15, 2014 at 4:11 PM, Juan Nunez-Iglesias <jni.soma(a)gmail.com> wrote: > I'm behind this 100%. (Though I want to make sure that imread supports 3D > tiffs, as Christoph Gohlke's tifffile does.) I thought imread already supports that, but if it doesn't we should contribute a patch. > Do we want to add a paragraph about this to the paper? It seems like a > fairly trivial detail, but it also seems perverse having information there > that we know will quickly be obsolete... Sure, I'll add it to the future roadmap. Stéfan

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Re: I/O infrastructure
by Juan Nunez-Iglesias May 15, 2014

May 15, 2014

I'm behind this 100%. (Though I want to make sure that imread supports 3D tiffs, as Christoph Gohlke's tifffile does.) Do we want to add a paragraph about this to the paper? It seems like a fairly trivial detail, but it also seems perverse having information there that we know will quickly be obsolete... On Thu, May 15, 2014 at 9:10 PM, Stéfan van der Walt <stefan(a)sun.ac.za>wrote: > Hi all, > > Juan recently again brought to my attention the dismal state of the > scikit-image I/O infrastructure. This needs to be fixed for 0.11 > (0.10 is almost out the door--this weekend, I hope!). > > We are currently relying on other libraries to do the job, and while > it allows you to do "from skimage import io; io.imread(anything)" on > almost any platform, it's just not working--we need reproducible > backends. > > My current thinking is thus: make Luis's "imread" [0] a dependency, > and remove all plugins from scikit-image. Users can, of course, still > load data using mpl, imread, astropy or whatever suits them. In the > documentation, we may provide recipes for handling files like ITK, > gdal etc. if that proves useful. > > What do you think? > > Stéfan > > [0] https://github.com/luispedro/imread > > -- > 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/d/optout. >

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