| --- Log opened Fri Oct 25 00:00:56 2013 | ||
| shogun-buildbot | build #80 of clang34 - thread analysis is complete: Failure [failed test] Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20thread%20analysis/builds/80 blamelist: Fernando Iglesias <fernando.iglesiasg@gmail.com> | 00:11 |
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| shogun-buildbot | build #99 of clang34 - static analysis is complete: Failure [failed analyse] Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20static%20analysis/builds/99 blamelist: Fernando Iglesias <fernando.iglesiasg@gmail.com> | 00:53 |
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| @sonney2k | shogun-buildbot, force build --branch=develop precise | 06:36 |
| shogun-buildbot | no such builder 'precise' | 06:36 |
| @sonney2k | shogun-buildbot, force build --branch=develop 'precise - libshogun' | 06:36 |
| shogun-buildbot | build forced [ETA 19m47s] | 06:36 |
| shogun-buildbot | I'll give a shout when the build finishes | 06:36 |
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| @HeikoS | r?ln s?lm | 06:40 |
| shogun-buildbot | build #245 of precise - libshogun is complete: Success [build successful] Build details are at http://buildbot.shogun-toolbox.org/builders/precise%20-%20libshogun/builds/245 | 06:53 |
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| @wiking | ookeeey | 07:43 |
| @wiking | we have docker image for shogun | 07:43 |
| @wiking | https://index.docker.io/u/vigsterkr/shogun/ | 07:43 |
| @wiking | but this is a simple shogun image | 07:44 |
| @wiking | i'll make soon the python modular image as well | 07:44 |
| @HeikoS | whooo :) | 07:53 |
| @sonney2k | wiking, nice :) | 07:53 |
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| @wiking | just try this | 08:09 |
| @wiking | sudo docker pull vigsterkr/shogun | 08:09 |
| @wiking | and i thought that this only distributes the Dockerfile, i.e. how to create the image... | 08:10 |
| @wiking | but not | 08:10 |
| @wiking | it is actually distributing the fs | 08:10 |
| @wiking | so the binaries... | 08:10 |
| @wiking | let's hope today we get the fedora stuff and that it runs the latest open stack | 08:10 |
| @wiking | because then we can play with the new docker images :P | 08:10 |
| @wiking | i'll have to keep updating both of the images... | 08:12 |
| @wiking | i suppose it'll be done by a nightly script | 08:12 |
| @wiking | ;) | 08:12 |
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| shogun-notifier- | shogun: Soeren Sonnenburg :develop * 2fb5664 / src/interfaces/modular/SGBase.i: https://github.com/shogun-toolbox/shogun/commit/2fb5664754ac1ad37ff14bdd8863d94391b9e650 | 08:15 |
| shogun-notifier- | shogun: fix hdf5 / ascii pickle deserialization | 08:15 |
| @wiking | besser82: ping | 08:43 |
| besser82 | wiking: pong :D | 08:44 |
| @wiking | besser82: any news? | 08:45 |
| besser82 | wiking: storage for cloud-appliance is nearly finshed ;) | 08:45 |
| @wiking | meaning? :) | 08:46 |
| @wiking | or ETA? | 08:46 |
| @sonney2k | wiking, well rather one per *final* release :) | 08:47 |
| @sonney2k | wiking, except for the demos we are in release shape now | 08:48 |
| @sonney2k | wiking, if you can do anything about matlab / the usr/local install'd issue that would be good | 08:48 |
| besser82 | wiking: just need to format and mount the storage.... | 08:49 |
| besser82 | wiking: any preference? Filesystem? Mountpoint? | 08:50 |
| @wiking | sonney2k: well i though to have shogun:latest (that is following the develop repo) | 08:51 |
| @wiking | sonney2k: and i thought like shogun:<release version> | 08:51 |
| @wiking | so people can choose ;P | 08:52 |
| @wiking | sonney2k: docker supports tagging... so that's a good thing ;) | 08:52 |
| @wiking | besser82: simple ext4 should be fine | 08:52 |
| @wiking | besser82: or is this a ramfs? | 08:52 |
| besser82 | wiking: but running version of openStack, doesn't yet :( | 08:52 |
| besser82 | wiking: no, real hdd storage | 08:53 |
| @wiking | besser82: ah then simple ext4 should be fine | 08:53 |
| @wiking | and just mount it for /mnt | 08:53 |
| @wiking | besser82: you mean the running version of openstack doesn't support docker? | 08:53 |
| @wiking | besser82: it's not that big a deal... | 08:53 |
| besser82 | wiking: ahh, ok :) | 08:54 |
| besser82 | wiking: are you sure with mounting in /mnt? | 08:54 |
| @wiking | besser82: can u copy paste `uname -a` ? | 08:54 |
| @wiking | besser82: where else? | 08:54 |
| besser82 | wiking: I'd propose /srv/$somewhat | 08:54 |
| @wiking | besser82: fine... | 08:54 |
| besser82 | wiking: by meanings of SElinux contexts that would be safer | 08:54 |
| @wiking | it's good for me basically | 08:55 |
| @wiking | anything would be fine ;) | 08:55 |
| @wiking | just let's have it running already | 08:55 |
| besser82 | wiking: kernel on the machine is 3.11.X | 08:55 |
| @wiking | besser82: ah ok then we can haz docker by our own | 08:55 |
| @wiking | ;) | 08:55 |
| @wiking | it needs 3.8 | 08:55 |
| @wiking | but just put it together and let's see if we can ssh ; | 08:56 |
| @wiking | :P | 08:56 |
| besser82 | wiking: 3.8 is old-school by fedora means :-P | 08:56 |
| besser82 | wiking: no even in officail repos anymore for F18+ ;) | 08:56 |
| besser82 | wiking: so, I'll setup c-a after my next coffee && cig | 08:57 |
| besser82 | sonney2k: I'm on that problems with cmake, but unfortunately some stuff is _really_ problematic, e.g. correctly building the SWIG'ed java-bindings | 08:58 |
| @wiking | besser82: why is that a problem? | 08:58 |
| besser82 | sonney2k: Actually it fails for me by any meanings | 08:59 |
| besser82 | wiking: ^^^ | 08:59 |
| @wiking | why? | 08:59 |
| @wiking | i mean it worksforme status now :P | 08:59 |
| @wiking | so that's why i wonder what's your issue with java modular | 08:59 |
| besser82 | wiking: at first javac complains about not finding ....*.java | 08:59 |
| besser82 | wiking: got that fixed then | 08:59 |
| besser82 | wiking: then it fails on building Loader.class | 09:00 |
| @wiking | besser82: u r talking now about your new cmake scripts or with current cmake files? | 09:00 |
| besser82 | wiking: no package org.shogun... | 09:00 |
| besser82 | wiking: current | 09:00 |
| @wiking | besser82: and which java r u trying to use | 09:00 |
| besser82 | wiking: openJDK 1.7.0 | 09:00 |
| @wiking | oracle java or some opejdk | 09:00 |
| @wiking | aaah | 09:00 |
| @wiking | well i guess you have your answer ;) | 09:00 |
| besser82 | wiking: WTF?!? | 09:01 |
| @wiking | yeps | 09:01 |
| besser82 | wiking: Who used the oracle sh*t? | 09:01 |
| @wiking | openjdk is really not the best shit for java | 09:01 |
| @wiking | well everybody who uses java | 09:01 |
| @wiking | i mean openjdk is a nice dream | 09:01 |
| @wiking | but it's really bad | 09:01 |
| @wiking | regardless of shogun | 09:01 |
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| besser82 | wiking: even hadoop, mesos && mahout are running fine with it | 09:02 |
| @wiking | besser82: i had problem both with mahout and solr | 09:02 |
| besser82 | wiking: no, problems here on the redhat/fedora-front ;) | 09:03 |
| @wiking | besser82: that's unrelated of the distro | 09:04 |
| besser82 | wiking: I know, but we actually got it working ;) | 09:05 |
| besser82 | wiking: by no means ready for production, but it runs... | 09:05 |
| besser82 | wiking, sonney2k: but if you wouldn't mind, I can get some folks from the fedora-java-sig to make it running ;) | 09:08 |
| shogun-buildbot | build #80 of clang34 - undefined behaviour analysis is complete: Failure [failed test] Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20undefined%20behaviour%20analysis/builds/80 blamelist: Soeren Sonnenburg <sonne@debian.org> | 09:19 |
| @wiking | besser82: sure... get the c-a runnning ;) | 09:25 |
| * wiking off 4 a c&c break as well | 09:25 | |
| shogun-buildbot | build #81 of clang34 - thread analysis is complete: Failure [failed test] Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20thread%20analysis/builds/81 blamelist: Soeren Sonnenburg <sonne@debian.org> | 09:33 |
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| shogun-buildbot | build #100 of clang34 - static analysis is complete: Failure [failed analyse] Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20static%20analysis/builds/100 blamelist: Soeren Sonnenburg <sonne@debian.org> | 10:15 |
| @wiking | besser82: y | 10:21 |
| @wiking | y0 | 10:21 |
| besser82 | wiking: wassup? | 10:24 |
| @wiking | besser82: mkfs.ext4 status? | 10:28 |
| @wiking | :) | 10:28 |
| besser82 | running ;) | 10:34 |
| @wiking | cool | 10:35 |
| @wiking | ssh ip? :) | 10:35 |
| besser82 | will setup in few minutes... | 10:39 |
| @wiking | ok w8ing | 10:43 |
| @wiking | i'm finalizing the docker image for shogun + ipython | 10:43 |
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| @wiking | ok shogun + ipython docker image is done | 11:15 |
| @wiking | i'm just pushing it atm | 11:15 |
| @wiking | mmm i think there's still a problem with it but i'll fix after commit | 11:17 |
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| @wiking | tada: https://index.docker.io/u/vigsterkr/shogun-python/ | 11:42 |
| @wiking | besser82: ping? | 12:03 |
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| @wiking | besser82: no news? | 14:17 |
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| @wiking | oookeey so instructions has been sent to the mailing list | 14:35 |
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| @iglesiasg | wiking, hey! I just read the mail. It sounds pretty awesome. I will spend some time with it during the weekend | 14:38 |
| @iglesiasg | looking forward to it | 14:38 |
| @wiking | iglesiasg: it's pretty cool | 14:38 |
| @wiking | no need for compilation | 14:38 |
| @wiking | nada | 14:38 |
| @wiking | just get the docker binary working and then it's running out of box | 14:38 |
| @wiking | and it's really cool that they provide a repository for sharing images ;P | 14:39 |
| @iglesiasg | nada haha | 14:39 |
| @wiking | iglesiasg: we'll use this for the cloud arch | 14:39 |
| @wiking | as this is a pretty good way of jailing an ipython notebook server | 14:40 |
| @wiking | for each ipython session a new docker container will fired up | 14:40 |
| @wiking | and then basically when the session is over the container is destroyed ;P | 14:40 |
| @wiking | the good thing is that this doesn't involve any VM stuff... i.e. it runs natively on the system | 14:41 |
| @wiking | of course there's no native client for it atm on OSX | 14:41 |
| @wiking | but for that they prepared a vagrant image | 14:41 |
| @wiking | ;P | 14:41 |
| @iglesiasg | neat | 14:42 |
| @wiking | but you should be able to have it on archlinux | 14:42 |
| @wiking | only thing is that u have to take care of the right kernel settings | 14:42 |
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| parijat | hi, I wanted to know that if I make changes in the shogun cpp files, how can I put these changes into effect? do i have to run cmake and make in the root directory again? | 14:57 |
| thoralf | parijat: Just recompile everything and run the unit tests (in case you broke something). | 14:59 |
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| thoralf | wiking: Comments to you're email: Why do I have to run ipython as root? | 15:05 |
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| parijat_ | thanks @thoralf. Just to make sure recompile everything means to run cmake and then make in the root directory (ie shogun-develop) right?) | 15:05 |
| thoralf | parijat_: Yes. "make -j<#processes> (all|shogun-unit-test|unit-tests|install)" | 15:08 |
| parijat_ | ok thanks. let me try. | 15:11 |
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| @wiking | thoralf: doh? | 15:13 |
| @wiking | thoralf: i mean it's chrooted | 15:13 |
| @wiking | thoralf: so it's not that big of a deal | 15:14 |
| thoralf | wiking: That's true, but if I'm trying to play around on a system on which I'm not sudoer? | 15:15 |
| @wiking | thoralf: aaah wait... you are now talking about docker commands? | 15:16 |
| thoralf | wiking: Sorry, missing context. Yes. ;) | 15:16 |
| @wiking | thoralf: that's out of my scope... talk with docker developers | 15:16 |
| @wiking | why do u need sudo | 15:16 |
| @wiking | but imo it's all about the kernel apis it's using | 15:16 |
| @wiking | and that they are not available by default for simple users | 15:16 |
| @wiking | but then again i'm not sooo familiar with docker internals | 15:17 |
| @wiking | i'm just following the official docker documentation | 15:17 |
| @wiking | which uses sudo everywhere for docker | 15:17 |
| @wiking | if u wanna know more: /join #docker or write to mailing list | 15:18 |
| thoralf | Thanks. | 15:18 |
| thoralf | http://docs.docker.io/en/latest/use/basics/#why-sudo | 15:19 |
| thoralf | Yeah. ;) | 15:19 |
| @wiking | there u go... it depends on your docker setup... but then again by default it shoudl be sudo... :P | 15:21 |
| @wiking | thoralf: "Just to make sure recompile everything means to run cmake and then make in the root directory (ie shogun-develop) right?)" | 15:56 |
| @wiking | that was actually wrong... | 15:57 |
| @wiking | not in the root but in the build... | 15:57 |
| thoralf | root directory (ie shogun-develop) <-- I thought shogun-develop is his build dir. | 15:57 |
| thoralf | Not clear. | 15:57 |
| thoralf | Hmm. | 15:57 |
| thoralf | Btw. rebuilding everything shouldn't be neccessary any more, right? | 15:58 |
| @wiking | hehe yeh i hope so :D | 15:58 |
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| shogun-notifier- | shogun-web: Soeren Sonnenburg :master * cac1ff4 / templates/home.html: https://github.com/shogun-toolbox/shogun-web/commit/cac1ff45a24e1fab7553294e2bc8c0833083950d | 16:27 |
| shogun-notifier- | shogun-web: link screenshots | 16:27 |
| @sonney2k | alright guys | 16:28 |
| @sonney2k | iglesiasg, wiking, lisitsyn, thoralf besser82 - release sprint! | 16:28 |
| @iglesiasg | let's do it | 16:29 |
| lisitsyn | sonney2k: good catch I am more or less available | 16:29 |
| lisitsyn | though have a bus in 2 hrs | 16:29 |
| lisitsyn | iglesiasg: how can we make that notebook | 16:30 |
| lisitsyn | :D | 16:30 |
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| @iglesiasg | lisitsyn, do you have any idea about it written down so far? | 16:30 |
| lisitsyn | no I was a bit stucked | 16:30 |
| @wiking | besser82: ping ping ping | 16:31 |
| @sonney2k | heiko is writing long blog posts currently | 16:31 |
| @sonney2k | buildbots are all green | 16:31 |
| @sonney2k | and I will do demos | 16:31 |
| @wiking | sonney2k: no they are not | 16:31 |
| @wiking | sonney2k: there's at least one major concurency error | 16:31 |
| lisitsyn | iglesiasg: lets join some google doc then | 16:31 |
| @iglesiasg | lisitsyn, sure | 16:32 |
| @sonney2k | wiking, well next release we can do better then | 16:32 |
| @iglesiasg | lisitsyn, I have time to work on this this evening after dinner and during the weekend | 16:32 |
| @wiking | sonney2k: you can run the demos in docker image | 16:32 |
| lisitsyn | iglesiasg: uhmm I guess sonney2k wants it asap :D | 16:32 |
| @sonney2k | wiking, well they are running already but we can switch later | 16:32 |
| lisitsyn | iglesiasg: when is your dinner? | 16:32 |
| @wiking | sonney2k: where r they running atm? | 16:33 |
| @sonney2k | wiking, fatbot.shogun-toolbox.org/regression/svr | 16:33 |
| @sonney2k | etc | 16:33 |
| @iglesiasg | lisitsyn, long to come still | 16:33 |
| @iglesiasg | lisitsyn, like in about 4-5 hours | 16:33 |
| @wiking | ok so fatbot | 16:33 |
| lisitsyn | hah | 16:33 |
| @sonney2k | so if you see sth to polish please do it | 16:33 |
| @sonney2k | I mean documentation | 16:33 |
| @sonney2k | READMEs | 16:33 |
| lisitsyn | okay I'll start and pass it over to you | 16:33 |
| @sonney2k | website | 16:33 |
| @wiking | sonney2k: there's heaps of issues still.. | 16:33 |
| @iglesiasg | lisitsyn, sounds good! | 16:33 |
| @sonney2k | wiking, which? | 16:34 |
| @wiking | sonney2k: https://github.com/shogun-toolbox/shogun/issues?milestone=3&state=open | 16:34 |
| @wiking | first 4 could be closed by 1 fix | 16:34 |
| @sonney2k | wiking, well we won't have workshop videos | 16:34 |
| @sonney2k | so what lets move them to 3.1 | 16:34 |
| lisitsyn | iglesiasg: I think I want to cover just 5 methods | 16:35 |
| @wiking | sonney2k: what's the sudden rush? | 16:35 |
| @iglesiasg | lisitsyn, we can get the theory from tapkee's website | 16:35 |
| @sonney2k | nothing release critical | 16:35 |
| lisitsyn | yes iglesiasg | 16:35 |
| lisitsyn | sonney2k: agree, these data races are not major | 16:35 |
| @wiking | sonney2k: we have a thread sync error, and that's not critical? | 16:35 |
| @sonney2k | wiking, no | 16:35 |
| @wiking | who's a data race not critical? | 16:35 |
| @sonney2k | it is just one bug among many | 16:35 |
| @iglesiasg | lisitsyn, so probably there is not much cost including many methods | 16:36 |
| lisitsyn | wiking: I think it is not | 16:36 |
| @wiking | lisitsyn: and how is it not a critical? | 16:36 |
| @wiking | :D | 16:36 |
| @iglesiasg | lisitsyn, so we could present a couple of figures with embeddings | 16:36 |
| @sonney2k | and it is 'minor' | 16:36 |
| lisitsyn | wiking: no I get your message but we have other bugs as well | 16:36 |
| lisitsyn | we won't release any day if we approach to fix everything | 16:36 |
| lisitsyn | just lower your threshold ;) | 16:36 |
| @wiking | lisitsyn: not eveyrthing we've moved quite some stuff already to 3.1 | 16:36 |
| @iglesiasg | lisitsyn, any idea how could we compare the results of different methods applied to the same data set? | 16:37 |
| lisitsyn | iglesiasg: not yet | 16:37 |
| @sonney2k | wiking, if you have time fix as much as you can and then we will release with that | 16:37 |
| @iglesiasg | lisitsyn, maybe for some labelled data set we apply knn in the original space | 16:37 |
| @iglesiasg | lisitsyn, and then the same using the data after dim red | 16:37 |
| @sonney2k | wiking, we just have to release *very soon* or we will never | 16:37 |
| @iglesiasg | lisitsyn, and we make a table or a bar plot of classification accuracy using different dimred methods and that's pretty much it. What do you think? | 16:38 |
| @wiking | sonney2k: ok then at least give this weekend | 16:38 |
| lisitsyn | iglesiasg: sounds good but no idea what the outcome would look like | 16:38 |
| @iglesiasg | haha me neither | 16:38 |
| @sonney2k | wiking, we will prepare everything today - if you can fix (the critical cmake erros) ws videos - that is much more important than some function crashing sometimes | 16:40 |
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| @iglesiasg | oh | 16:41 |
| @iglesiasg | sonney2k, so release today?! | 16:41 |
| @sonney2k | iglesiasg, I am on the plane with heiko today so we try to get everything blog / release post like in shape | 16:42 |
| @wiking | sonney2k: can we have the release on monday? | 16:42 |
| @iglesiasg | ok | 16:42 |
| @sonney2k | iglesiasg, and I will write some shell script to do the release tgz | 16:42 |
| @sonney2k | wiking, what exactly do you still want to do / fix? | 16:42 |
| @sonney2k | wiking, cmake with matlab? cmake with /usr/local/* or ws videos? | 16:42 |
| @wiking | and other static interfaces | 16:42 |
| @wiking | yes | 16:42 |
| @sonney2k | wiking, I mean why delay? these issues are open for months | 16:43 |
| @wiking | sonney2k: yeas | 16:43 |
| @wiking | but this weekend i have time | 16:43 |
| @wiking | unlike other weekends... | 16:43 |
| @wiking | i mean i'm not fulltime working on shogun (not like during summer) | 16:43 |
| @sonney2k | wiking, ok then we will prepare everything then so we just have to push a button | 16:43 |
| @sonney2k | wiking, fix what you can / want to | 16:44 |
| @sonney2k | wiking, but we *will* release monday latest | 16:44 |
| @wiking | ok monday 12:00 UTC | 16:44 |
| lisitsyn | monday would be better for me cause I can prepare better notebook | 16:44 |
| @wiking | i'll have things ready by sunday night | 16:44 |
| @wiking | or at least as much as i can | 16:44 |
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| @sonney2k | lisitsyn, well the sooner the better | 17:08 |
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| @iglesiasg | lisitsyn, hey | 22:40 |
| @iglesiasg | lisitsyn, what's up | 22:40 |
| lisitsyn | iglesiasg: hey | 22:40 |
| lisitsyn | iglesiasg: I haven't managed to write anything interesting yet :) | 22:40 |
| @iglesiasg | lisitsyn, no problem. I was thinking about starting an script to check this knn after dim red idea | 22:41 |
| lisitsyn | oh would be nice! | 22:41 |
| @iglesiasg | lisitsyn, are you ok with it? | 22:41 |
| @iglesiasg | cool | 22:41 |
| lisitsyn | yes totally | 22:41 |
| @iglesiasg | any idea for the data set to use? | 22:41 |
| @iglesiasg | if not, I will take this portion of MNIST I used for the LMNN notebook | 22:41 |
| @iglesiasg | or I could go with the metagenomics data set | 22:42 |
| @iglesiasg | sort of high dimensional, so it can be interesting in this case | 22:42 |
| lisitsyn | iglesiasg: yeah metagenomics one sounds more interesting | 22:44 |
| @iglesiasg | lisitsyn, 85 examples with 1472 features, 3 classes | 22:46 |
| lisitsyn | good! | 22:46 |
| @iglesiasg | http://nbviewer.ipython.org/6576096 | 22:46 |
| @iglesiasg | there is the result applying td-sne | 22:46 |
| lisitsyn | iglesiasg: pretty big stuff | 23:14 |
| lisitsyn | :0 | 23:14 |
| lisitsyn | :) | 23:14 |
| --- Log closed Sat Oct 26 00:00:57 2013 | ||
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