IRC logs of #shogun for Tuesday, 2014-02-25

--- Log opened Tue Feb 25 00:00:13 2014
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shogun-notifier-shogun-web: Kevin Hughes :master * d8a0099 / pages/views.py: https://github.com/shogun-toolbox/shogun-web/commit/d8a00994f48f314a2fb85d100f14641fb5e75a7303:54
shogun-notifier-shogun-web: make missing pages 404 not raise03:54
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ustcHello, Sorry to bother you. Recently I tried to use the Shogun toolbox and met some problems.When I used the command 'result=sg('classify');'I can get the predict label of test samples.But in order to see the overall performance, I want to draw an ROC curve,so the score of each sample is needed. Could you please tell me how to get the score and where can I find the instruction of the function 'sg'where I can see the detials of its input08:32
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sonne|workustc: why don't you use a modular interfaces and not the legacy sg('') crap?09:10
ustccould you give me an example?09:11
sonne|workustc: http://www.shogun-toolbox.org/doc/en/3.0.0/python_modular_examples.html09:23
lambdaysonne|work: hi..09:24
lambdaysonne|work: I want to add automagic tests for clone with CSGObjects...09:24
lambdayfor vector and matrices for which there was a bug09:25
sonne|worklambday: I thought we had that?!09:27
@wikingwe had that09:28
sonne|worklambday: look at the jinja2 files09:28
sonne|workwiking: but?09:28
@wikingi mean clone() autogen09:28
lambdaysonne|work: we have it for just the objects - https://gist.github.com/lambday/899622309:28
@wikingi dont know if there's any but09:28
lambdaysonne|work: wiking yeah so this is what I want to add  -for all SGObject classes09:28
@wiking{% set ignores = ['Set', 'ParseBuffer', 'TreeMachine'] %}09:28
@wikingonly these are in ignore...09:29
@wiking+GUI*09:29
lambdaywiking: yeah...09:29
@wikingso i dont understand what you are talking about09:29
lambdaywiking: please have a look at the gist.. when we create a vector of SGObjects, we had this bug (which caused any class having a CDynamicObjectArray filled with objs failed in clone)09:30
lambdaysonne|work: wiking: the 'calloc' thing that we talked about - after talking to Heiko I changed it09:31
lambdaysonne|work: wiking: and I am planning to add unit-test for that... so shall I just modify the jinja file to have this test too?09:32
@wikinglambday: well apparently this has nothing to do with jinja09:32
@wikingas it's not in jinja209:32
@wikingsonne|work: SGVector is not in class_list.cpp ?09:33
lambdaywiking: I think not - only 'C' classes are there I guess09:33
lambdaywiking: and this is about CDynamicObjectArray - filled with objects - when its empty it copies just fine09:34
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lambdaywiking: like in the gist I tested for an array of CStatistics class, I wanted to make sure it works for all C-classes!09:35
@wikingheh yeah SGVector nor SGMatrix is in not in class_list but it's no wonder because they are inherited fro SGReferencedData and not from SGObject...09:35
@wikingso actually SGVector.clone() should be some custom function in SGVector09:35
@wikingindeed it is09:36
@wikingSGVector.cpp:26309:36
lambdaywiking: ummm.. I am not talking about SGVector clone :(09:36
@wikinglambday: well you cannot have other clone of SGVector...09:36
@wikingit's not a CSGObject...09:37
lambdaywiking: I am talking about CDynamicObjectArray.clone when the array *has* some elements already09:37
lambdayin fact any array for that matter which has CSGObject type objects inside it09:37
@wiking[ RUN      ] SGObject.clone_equals_DynamicObjectArray09:38
@wiking[       OK ] SGObject.clone_equals_DynamicObjectArray (9 ms)09:38
@wiking[ RUN      ] SGObject.equals_DynamicObjectArray_equal09:38
@wiking[       OK ] SGObject.equals_DynamicObjectArray_equal (7 ms)09:38
@wiking[ RUN      ] SGObject.equals_DynamicObjectArray_equal_after_resize09:38
@wiking[       OK ] SGObject.equals_DynamicObjectArray_equal_after_resize (872 ms)09:38
@wiking[ RUN      ] SGObject.equals_DynamicObjectArray_different09:38
@wiking[       OK ] SGObject.equals_DynamicObjectArray_different (6 ms)09:38
@wikingso if these tests are not covering it09:38
lambdaywiking: yeah but its for empty arrays09:38
@wikingthen you can add your own tests09:38
@wikingbut it has nothing to do with jinja209:38
@wikingnor automagic testing09:38
lambdaywiking: well the thing I had in mind is to check for Parameter::copy() for an array of CSGObject types for *all* CSGObjects there - which easily covers the DynamicObjectArray case here!09:42
lambdaywiking: kind of like the one I have here for CStatistics - https://gist.github.com/lambday/899622309:43
lambdayafk09:44
lambdayre09:48
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sonne|worklambday: well maybe you can extend the tests to make them work with non-empty data so they do 'proper' testing10:11
lambdaysonne|work: yes.. but all these tests are generated using jinja2 - so, if we want to make sure the array thing works for all 'C' classes, we gotta add test in the jinja2 file, no?10:14
lambdaysonne|work: but since it says its auto generated from a template, I am afraid to make any changes to it! I cannot find the template10:15
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@besser82sonne|work: do you have any constructive idea about this? ---> http://ur1.ca/gp1mc11:33
sonne|workbesser82: no idea - hushell would know11:36
@besser82sonne|work: unfortunately he isn't here  :(11:37
@besser82sonne|work: we definetively need to run testsuite on iX86 as well...11:54
@besser82sonne|work: during development...11:54
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lambdaysonne|work: added automatic test for DynamicObjectArray for all classes....12:09
lambdaysonne|work: could you please check to see if this fits - sending a PR..12:12
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shogun-notifier-shogun: lambday :develop * eaa2d2d / examples/undocumented/python_modular/kernel_ssk_string_modular.py: https://github.com/shogun-toolbox/shogun/commit/eaa2d2d98cdb43f1569ff08a629ce0ba42095aab14:16
shogun-notifier-shogun: fix mistake in ssk kernel example14:16
shogun-notifier-shogun: lambday :develop * 1d45e03 / / (3 files): https://github.com/shogun-toolbox/shogun/commit/1d45e032d4efef90446a3611ca02a65a9bd191a114:16
shogun-notifier-shogun: fix uninitialized memory bug in TParameter::copy14:16
shogun-notifier-shogun: Heiko Strathmann :develop * e171a2b / / (4 files): https://github.com/shogun-toolbox/shogun/commit/e171a2b9582d4e6fea8b32b3687579a570f21ceb14:16
shogun-notifier-shogun: Merge pull request #1892 from lambday/develop14:16
shogun-notifier-shogun:14:16
shogun-notifier-shogun: fix uninitialized memory in TParameter::copy and added unit-test14:16
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pickle27sonney2k: can you deploy the site15:33
pickle27added 2 fixes15:33
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pramslisitsyn: der..? need a little help..16:26
pramswhat is the difference between SGMatrix and MatrixXd..?16:28
sonne|workprams: MatrixXd is an eigen3 matrix, SGMatrix is a reference count enabled matrix of shogun16:50
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pramsthanks sonne|work . but i cant find its implementation in eigen3.h . where should i look..?16:52
sonne|workprams well eigen3 documentaion in the web16:52
pramshttp://www.shogun-toolbox.org/doc/en/current/eigen3_8h.html its not here. am i looking in the wrong place..?16:55
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siddharth_sharmahello all, i am interested in participation in gsoc in shogun and i have seen  problems statements but i am confused on whether to learn about problems in detail first or i should first try to compile , configure and get hang of the code first18:15
HeikoS1siddharth_sharma: hi there18:43
HeikoS1siddharth_sharma: welcome here and thanks for your interest18:44
HeikoS1siddharth_sharma: read the howto that we wrote in order to get started18:44
siddharth_sharmaHeikoS1: thank you for your help i will follow the first steps from guide18:48
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@iglesiasgsonney2k, wiking, besser82, HeikoS1, lisitsyn do we have to fill in this form to request a mentor role?19:01
@iglesiasghttp://www.google-melange.com/gsoc/profile/register/org_member/google/gsoc201419:01
@besser82iglesiasg: yes  ;)19:01
@iglesiasgI thought that was for the whole organization19:01
@iglesiasgbesser82, all right, thank you man!19:01
@besser82iglesiasg: np, welcome  :)19:02
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lisitsyn1getting dense!19:22
@iglesiasglisitsyn1, haha yeah19:23
lisitsyn1iglesiasg: how can you dare to ask for mentor connection19:25
lisitsyn1:D19:25
@iglesiasglisitsyn1, I like to live to the limit ÑP19:25
@iglesiasgooops wrong map, :P19:25
lisitsyn1iglesiasg: you go beyond!19:25
lisitsyn1iglesiasg: http://www.youtube.com/watch?v=07So_lJQyqw19:26
@iglesiasglisitsyn, haha wtf19:26
naywhayareHeikoS asked me to make a mentor connection (for the benchmarking project I assume), so I submitted a connection with a Nigerian email scam as text.  it seemed like the reasonable thing to do.19:34
HeikoS1naywhayare: thats exactly what I had in mind ;)19:36
lisitsyn1naywhayare: you managed to get into the spam folder! yaah!19:48
naywhayarelisitsyn1: did I really?  excellent.  :)19:48
lisitsyn1naywhayare: I'll call you wumi from now on19:49
naywhayarefine by me, I'll have to add it to the list of things my IRC client highlights19:50
lisitsyn1naywhayare: what's up with HASSAN?19:50
naywhayareI have no idea -- I didn't actually read what I pasted before I sent it19:51
naywhayarebut I figured there might be a chance that one of you would wire me some large amount of money or something, so hey, worth a shot, right?19:51
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HeikoS1naywhayare: I almost sent you my parents house20:12
naywhayaredamn! so close!20:12
lisitsyn1naywhayare: yeah it is worth the thing20:12
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@besser82sonney2k: around?!?20:42
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vijay05_Hi lisitsyn21:01
vijay05_I'm interested to know more about dictionary learning project in shogun. Could you please elaborate on this?21:02
HeikoS1lisitsyn, lisitsyn1 it would also be great if you could update the project description and make it more detailed in fact ;)21:02
lisitsyn1HeikoS1: true21:02
lisitsyn1vijay05_: you may start with checking what scikit-learn has http://scikit-learn.org/stable/modules/decomposition.html21:03
vijay05_I'm little bit aware of sparse coding and dictionary learning21:04
@besser82HeikoS1: how do I add another project for GSoC on the list?21:04
lisitsyn1vijay05_: oh then you can elaborate on this ;)21:04
@besser82HeikoS1: I wanted to do some buildsys / cmake action, too  :)21:04
HeikoS1besser82: write a nice proposal on the googledoc, ask people to proofread, and then kindly ask fernando to add it to the site, he know how to do that21:05
HeikoS1besser82: that would be great. Improve cmake in general, what do you have in mind?21:05
@besser82HeikoS1: buildspeed, modularization, many more21:05
HeikoS1besser82: keep in mind some things might be redundant with lisitsyn modularisation project21:06
HeikoS1besser82: but yeah, good stuff!21:06
@besser82HeikoS1: thx :D21:06
vijay05_Lisitsyn1, I basically worked on image denoising and documenrt restoration using dictionary learning algorithms. I improved upon the approach introduced by Julian Mairal and Michal Elad. http://www.cs.technion.ac.il/~elad/publications/journals/2006/KSVD_Color_IEEE_TIP.pdf21:07
lisitsyn1vijay05_: good to know!21:07
vijay05_Lisitsyn1, they even have opensource implementation of dictionary learning http://spams-devel.gforge.inria.fr21:08
@besser82HeikoS1: but i think the modularizaion thing can be somehow go hand in hand with lisitsyn21:08
lisitsyn1vijay05_: looks good! we can actually think of adding an interface to this think21:09
lisitsyn1thing*21:09
vijay05_Cool21:09
vijay05_Thats what. It does not make much sense to code again when they have open sourced21:10
lisitsyn1vijay05_: absolutely21:10
lisitsyn1no intention to recode anything yet21:10
lisitsyn1only if it is really necessary21:10
vijay05_So could you elaborate on what is the expectation here?21:10
lisitsyn1vijay05_: sure - it makes sense to make shogun able to do at least some basic dictionary learning21:11
lisitsyn1vijay05_: mostly for features - not some reconstruction or whatever21:12
vijay05_Sure.21:12
vijay05_I'm interested to work on this.21:12
lisitsyn1vijay05_: that's good to know21:12
vijay05_How do I get started on this?21:12
lisitsyn1vijay05_: lets think about it21:12
HeikoS1besser82: yeah, push sergey, he is lazy :D21:12
@besser82HeikoS1: I know :-P21:13
@besser82HeikoS1: me, too  ;)21:13
lisitsyn1HeikoS1: I wasn't before :D21:13
lisitsyn1and one day I woke up21:13
lisitsyn1and hey what the heck21:13
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HeikoS1lisitsyn1:  I know, that why we should kick you ;)21:13
HeikoS1as in kick your ass21:13
lisitsyn1kick me out :D21:14
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lisitsyn1vijay05_: okay21:16
lisitsyn1vijay05_: so what about thinking how do we design basic classes for that21:16
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lisitsyn1so basically how would you like if you try to design some api for this thing21:16
lisitsyn1it should be quite general I think - not just about dictionary learning but some process of learning features21:17
vijay05_Ok.21:18
vijay05_I look at this feature learning basically as a matrix factorization problem Y=AX under some conditions21:19
lisitsyn1yeah so21:19
lisitsyn1we get X from Y21:19
lisitsyn1we have CConverter for that21:19
vijay05_So this feature learning api basically can perform all kinds of feature learning including PCA, LDA, NMF, dictioanry learning, etc.21:20
vijay05_end user can select the method he/she wants based on his requirement.21:20
vijay05_since, all these approaches are inter-related.21:21
lisitsyn1vijay05_: this matches what shogun 'converter' does21:23
lisitsyn1vijay05_: you can also forward things and just implement some code interfacing some NMF implementation21:24
vijay05_Sorry I didnot get you21:26
vijay05_lisitsyn1: Do you want me to implement the interface for Spams library NMF implementation?21:28
lisitsyn1vijay05_: I mean you could start with writing some class that fits shogun but delegates real implementation to some library21:28
vijay05_Ok. Thanks. I will get started on this. I will ask you if I have any doubts.21:29
vijay05_Thanks a lot21:29
lisitsyn1vijay05_: we would need to solve the dependency thing somehow though21:30
lisitsyn1vijay05_: are you versed with cmake things?21:30
vijay05_not really. have used it for just buliding things. but do not know to play around with it21:31
lisitsyn1vijay05_: so basically we'd need some detection code21:32
lisitsyn1which tests whether we have spams somewhere in path21:32
lisitsyn1vijay05_: could you please also check if it has proper C++ interface21:32
lisitsyn1I see it has matlab interface but not sure about C++21:32
lisitsyn1it could be wrapped up way too much - I have seen crazy things like that before :) so just to be sure21:33
vijay05_lisitsyn1: You are right. It has a matlab wrapper.21:35
vijay05_lisitsyn1: But can't we reuse the source code. Sorry if my question sounds stupid.21:36
lisitsyn1vijay05_: I glanced over code - looks it would be feasible21:36
lisitsyn1vijay05_: you mean just copy and paste it?21:36
lisitsyn1yeah sure21:36
vijay05_ya21:36
vijay05_cool21:36
vijay05_where did you find the source code?21:38
vijay05_I see only matlab files21:38
lisitsyn1vijay05_: the only issue I see - we wanted to start a process of moving to bsd license21:39
lisitsyn1it is less restrictive and is appreciated in the community21:39
lisitsyn1growing codebase if we can avoid it would not be that good21:40
lisitsyn1vijay05_: if we could avoid putting liblinear to shogun we'd do it I think :D21:40
lisitsyn1but it is patched21:40
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lisitsyn1vijay05_: there is a bunch of .h and .cpp around in various folders21:41
@besser82lisitsyn1, vijay05_: NOOOOOOOOO!!!!  Don't bundle more libs into shogun. \o/21:41
@besser82lisitsyn1, vijay05_: that will make the next rpm update / release another horible fight for me21:41
lisitsyn1besser82: yeah sure21:41
@besser82lisitsyn1: many thx  :D21:43
vijay05_besser82, lisitsyn1: Ok21:51
@sonney2kguys look at our crappy description!21:53
@sonney2khttp://www.google-melange.com/gsoc/org2/google/gsoc2014/shogun21:53
@sonney2khorrible excellente!21:53
* sonney2k starts a massacre in this21:53
@besser82sonney2k: no response from heise-guys, yet...21:54
@besser82sonney2k: I'll ping thl tommorow in the early morning ;)21:55
@besser82sonney2k: perhaps he knows what will be...21:55
@besser82sonney2k: btw. we need some urgent work on porting the testsuite to different arches21:56
@besser82sonney2k: some tests fail on iX86, but pass on ARM and vice-versa && all pass on x86_64 :S21:56
@sonney2kbesser82, well figure out which tests fail and file bug reports with some link so someone can look at them21:58
@besser82sonney2k: will do  ;) bugreport? you mean gh-issues?!?21:59
@besser82sonney2k:22:00
vijay05_lisitsyn1: So, I will install/build and shogun. I will try to do fixes from https://github.com/shogun-toolbox/shogun/issues. Whats the best way to increase my acceptance chances?22:02
@sonney2ksomebody please read the blurp here http://www.google-melange.com/gsoc/org2/google/gsoc2014/shogun22:03
@sonney2kvijay05_, the more contributions you do the more likely you are in22:03
@sonney2kvijay05_, it is really as simple as that22:04
@sonney2kvijay05_, when lisitsyn was a GSoC student he was hyper active...22:04
vijay05_:-) Good to know that.22:05
@sonney2kHeikoS1, please read http://www.google-melange.com/gsoc/org2/google/gsoc2014/shogun and edit this if unhappy22:05
@sonney2kHeikoS1, we need some kind of shogun in education - task for that IMHO and put the baseline ML algorithms in there and again demos and teaching22:06
HeikoS1sonney2k: ok, will update22:06
@besser82sonney2k: that reads much better, now  :D22:06
HeikoS1sonney2k: ok I can write that, in fact already started thinking about it22:06
HeikoS1sonney2k: but I dont really know where its going apart from having a huge list of algorithms to demo22:07
HeikoS1sonney2k: whats with this guy from zurich?22:07
@sonney2kHeikoS1, I will ping them again tomorrow22:07
@sonney2kHeikoS1, but yes we need that huge list of demos and then we can put structure on top of that later (as some kind of tutorial...)22:08
HeikoS1sonney2k: its just a bit uncoordinated as a project I mean22:08
@sonney2kHeikoS1, some with notebooks... for me demos / notebooks are pretty similar in that respect. demos are to wet appetite and notebooks to learn the real thing22:08
HeikoS1ok22:09
HeikoS1mmh22:09
@sonney2kHeikoS1, true it needs an enumeration of algorithms22:09
@sonney2kbut for example hierarchical clustering is missing altogether22:09
HeikoS1so we want a guy who writes really nice text & examples22:09
@sonney2kGPs don't work22:09
HeikoS1but this is not about implementing22:09
@sonney2kit is22:09
@sonney2kimplement demos22:09
HeikoS1yeah ok22:10
HeikoS1but no algorithms22:10
HeikoS1ok good, I will write that now22:10
HeikoS1sonney2k: pls feedback the packaging project22:10
@sonney2kno use what shogun has and implement $demo22:10
HeikoS1ok22:10
HeikoS1so two parts22:10
HeikoS1web-demos in a nice way22:10
HeikoS1and notebooks22:10
* sonney2k ZZzzzz22:14
HeikoS1sonney2k: GOOOD NIIIGHT22:14
@besser82sonney2k: sleep tight!  :D22:14
* besser82 needs some Zzzzzzz, too.22:15
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HeikoS1lisitsyn1: around=?22:48
lisitsyn1HeikoS1: now yes22:49
HeikoS1lisitsyn could you please add all the core developers to the http://www.shogun-toolbox.org/page/contact/contacts22:49
HeikoS1and also all our nicknames?22:49
HeikoS1in irc22:49
HeikoS1lisitsyn1: and possible webpages?22:49
lisitsyn1HeikoS1: oh your fancy tasks again :D22:49
HeikoS1lisitsyn1: I am writing project descriptions22:50
HeikoS1lisitsyn1: thanks ! :)22:50
@wikingooooh yeeeah it's gsoc TIME! we are 10+ on the channel :)22:59
lisitsyn1wiking: lol22:59
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HeikoS1wiking: whooo :)23:01
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lisitsyn1HeikoS1: dear respected sir I have completed your assignment23:09
--- Log closed Wed Feb 26 00:00:15 2014

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