IRC logs of #shogun for Monday, 2011-03-28

--- Log opened Mon Mar 28 00:00:14 2011
--- Day changed Mon Mar 28 2011
sonney2ksergey_lisitsyn, it will be via git & github00:00
sergey_lisitsynnice, I like github, thank you00:00
sonney2kyoh and me are just doing the final touches to the repository - so svn -> git conversion is still ongoing but expected to finish rather soon00:01
sergey_lisitsynabout open source experience - is it necessarily to take a part in shogun ideas?00:01
yohsonney2k: ;) about deletes -- do not be greedy ;)00:01
yohfetch all your students daily -- you will get it forever00:01
sonney2ksergey_lisitsyn, no but it is a plus / I similar experience can be as good though!00:02
sonney2kyoh, yes clones at shogun-toolbox.org of course :D00:02
yohsomething funny... either majority of size comes from other heavy files or something... size of .git didn't drop after my 'filtering' :-/00:03
sergey_lisitsynsonney2k: I'm a bit uneasy with it, I had't take part in 'serious' open source projects00:03
sergey_lisitsynyoh: приятно видеть здесь и говорящих на русском :)00:04
yohsergey_lisitsyn: где тут по русски говорятьс? ;-)00:05
sergey_lisitsynyoh: погуглил, если в человек МФТИ учился, то он явно по-русски говорит :)00:05
sonney2kyoh - did you check that now git log --name-only | grep .bz2 is empty00:05
sergey_lisitsynв человек = человек00:05
sergey_lisitsynтьуф блин, наоборот00:05
sonney2kI wonder how you guys type those letters....00:06
yohyeah yeah00:06
yohbut .git stays at 118M00:06
sergey_lisitsynsonney2k: but on your homepage there is a notion about basic russian? :)00:06
sonney2ksergey_lisitsyn, IIRC I had russian for 10.5 years at school00:07
sonney2kbut hey I forgot *everythin*00:07
sonney2kg00:07
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sergey_lisitsynsonney2k: I had similar with german00:07
sergey_lisitsynsonney2k: learnt for 3 years, don't remember anything00:08
yohI guess due to all those:  just run git log --stat | grep bytes00:08
skydivercan anybody help with error while running python examples: "ImportError: No module named sg"00:08
yohsonney2k: I guess due to all those:  just run git log --stat | grep bytes00:08
sonney2kerr but wait, before it was 203M00:10
yohwhat abour prunning compiled materials which you rmeoved later on ( */sg/inst/doc/{sg,manual}.pdf )00:10
sonney2kso 118M is a big improvemnt00:10
yohwell -- I told ya that simply with repack you could get to 120M00:11
sonney2kthere is also some .cpp.o crap00:11
yohmy aim was to bring it down to 20-30 ;)00:11
sonney2kwhich is strange00:11
yohyeah00:11
yohsaw it00:11
sergey_lisitsynsonney2k: in the description there are "Report success on the mailing list or IRC" after "Set up your platform to build a shogun snapshot ". what kind of success I should report?00:11
sonney2ksergey_lisitsyn, that you have managed to compile git head and run whatever toy example / minimal implementation of sth. that is the baseline for what you intend to do - we just want to make sure that it won't take you 1 month to get your environment to set up.00:13
yohsonney2k: would you be interested in pruning all data/* at once as well? ;)00:14
sergey_lisitsynsonney2k: I have already tried to develop a parzen window classifier :)00:14
sonney2ksergey_lisitsyn, that qualifies as a success story :D00:14
sonney2k(if done within shogun)00:14
sergey_lisitsynsure in shogun :)00:15
yohand for tarballs of dependencies... why do you keep them around (especially as tarballs)?00:15
sonney2ksergey_lisitsyn, that's a big plus then, just attach the patch00:15
sergey_lisitsynsonney2k: tried but not complete! should I complete it?00:16
sonney2kyoh, not my code (I would never do this)00:16
sergey_lisitsynsonney2k: just getting used with shogun interfaces, etc00:16
sonney2ksergey_lisitsyn, well would be cool...00:16
sonney2kyoh, I don't think this will help a lot00:17
sergey_lisitsynsonney2k: so I could do it during this week, and then will send an application00:17
yohsolely tracking of changes in applications/ocr/data/ocr.svm.gz probably brought around a megabyte00:17
sergey_lisitsynsonney2k: I already have in touch with C. Widmer about idea of implementing algos00:17
sonney2kyoh, seriously the .bz2 files are ~100MB in size. Removing them *must* save lots of space00:17
yohheh00:18
sergey_lisitsynsonney2k: have this problem with one dataset from UC Irvine - faces and non-faces, SVM files was a ~150 mb, but all the rest was 3 mb00:18
sergey_lisitsynhad*00:18
skydiversergey, where r u from?)00:19
sergey_lisitsynskydiver: Togliatty, Russia00:19
skydiverhello from SPb00:19
yohTogliatty -- didn't know it is spelled like that ;)00:20
sergey_lisitsynyoh: how else?00:20
skydivermaybe Toliatty?00:20
sergey_lisitsynskydiver: 'italian' spelling00:20
sergey_lisitsynlike Spaghetti00:20
sergey_lisitsyn:)00:20
skydiveroh, i see00:20
sergey_lisitsynI don't know, I thought it's a common spelling00:21
sergey_lisitsynin wiki - Tolyatti00:21
sonney2kyoh, so what now?00:22
yohpatience ;)00:22
sergey_lisitsynin deutsch wiki even Togliatti00:22
sergey_lisitsynsame thing with my name, I don't know how right it is :)00:22
sergey_lisitsynskydiver: what idea do you like to 'work' for?00:23
skydiveri mostly like kernel feature analysis00:25
sonney2kyoh, could it be that some references are still lying around and you should do this here http://dound.com/2009/04/git-forever-remove-files-or-folders-from-history/00:25
skydiverand you?00:25
yohsonney2k: I will check but I already pruned reflog and other obvious victims00:25
yohto no effect00:25
sergey_lisitsynskydiver: implementing missing algorithms, mentor: Christian Widmer00:25
sonney2kyoh, *grmpf*00:26
sergey_lisitsynskydiver: had you write to Conrad Rieck? I asked him for some details week ago00:26
sergey_lisitsynsonney2k: btw, is Christian using IRC?00:27
skydiverhas he replyed?00:27
sergey_lisitsynskydiver: Rieck? Sure00:27
* sonney2k hopes that we get enough slots from google00:27
yohwtf -- original is still there ;)00:27
sonney2kyoh, hah!00:27
skydiversergey_lisitsyn: Konrad00:28
sergey_lisitsynsonney2k: do you already have many candidates?00:28
sonney2ksergey_lisitsyn, so far not. I guess I will have to send an encouraging mail to the mentors to also idle here at least00:28
sergey_lisitsynskydiver: yeap, he answered00:28
sergey_lisitsynsonney2k: what kind of idle?00:28
sergey_lisitsynskydiver: write me to 237338803, why we speak english there :)00:29
sonney2ksergey_lisitsyn, well I cannot know how many will apply but I am spending a lot of time answering emails...00:29
yohI think I know00:29
skydiversergey_lisitsyn: so why have you chosen another idea?00:29
yohbecause those other branches are stand-alone and had no proper common root, they weren't rewritten/filtered at all00:30
sergey_lisitsynsonney2k: my email to Chris was sent to you with answer, do you read all the 'appliers' mail? :)00:30
sonney2kyoh, I am listening...00:30
skydiver237338803 - what is it?00:30
yohand they would need to go through the same procedure manually00:30
sergey_lisitsynskydiver: icq, what could it be else00:30
sonney2kyoh, you mean the structure etc branches?00:30
sonney2kSo it is easy to fix right?00:30
sonney2kjust some for loop around all of the branches?00:31
yohthose genefinder etc00:31
sonney2kyoh, yes00:31
skydiversergey_lisitsyn: oh, i've forgotten when i had used icq... maybe jabber?00:31
sergey_lisitsynskydiver: oh, that way :) minute00:31
sonney2ksergey_lisitsyn, so far yes. I sometimes don't respond when it is likely that the mentor will00:32
sergey_lisitsynskydiver: sergey.lisitsyn@jabber.ru00:33
sergey_lisitsynskydiver: I forgot it :D00:33
sergey_lisitsynsonney2k: had I bored you? I have a few questions more00:34
yohsonney2k: and because tags are dangling, i.e. not belonging to any branch -- not sure if they get rewritten properly...00:34
sonney2kyoh, but tags are just pointers to some checkout state? So there should not be a problem...00:35
sonney2kIMHO00:35
yohsonney2k: yeah yea... but what was probably missing is " --tag-name-filter cat -- --all "00:35
yohwithout it, filter-branch traversed only the space of commits reachable from master branch00:36
sonney2kyoh, o_O00:36
yohsince those release tags  are off the master branch, they didn't get rewritten00:36
sonney2kmakes sense00:36
sonney2ksergey_lisitsyn, don't ask to ask just ask...00:37
sergey_lisitsynsonney2k: trying to be polite :) should I make a parzen classifier for shogun and then (after that) send an application and mention there that I already familiar with shogun interfaces, etc00:38
sergey_lisitsyn?00:38
yohyoh: initiated clean filter again also pruning those few .pdf and .o files00:39
sonney2kI don't expect the few .pdf's to really help... but lets see if the big humps are now gone00:40
sonney2ksergey_lisitsyn, if you can afford it yes - I mean there is probably no one that applies for GSoC who has contributed to shogun yet00:41
yohok ... dinner atm... will be back in 10-15 min00:41
sonney2kit is 1am by then - I gotta go sleeping. It is only 5hrs until I have to get up.00:42
sergey_lisitsynsonney2k: okay, I'll try to make it, it seems simple, parzen is like the kNN00:42
sergey_lisitsynsonney2k: oh, okay, good night00:43
sonney2ksergey_lisitsyn, I really hope that we get enough slots - would be bad having to make some unfair dice-roll based decisions.00:44
sonney2kyes good n800:44
sonney2kl8r00:44
sergey_lisitsynsonney2k: I hope too :)00:44
yohsonney2k: what??? going to sleep already??? come on -- it is monday already, time to work! ;)00:52
skydiversonney2k: maybe you can advice algo i can implement now for shogun - i've got about week to dive into shogun code :)00:54
skydiversonney2k: i think it is better way to learn toolbox using (or extending) it00:56
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sergey_lisitsynyoh: а ты вроде не контрибьютор, просто помогаешь проекту?01:07
sergey_lisitsynили я ошибаюсь?01:07
yohsonney2k: since you left it on -- ufff! so, upon my last refiltering attempt -- did everything sweet, all tags/branches got rewritten BUT now it refuses to compress the archive into a single pack... so there is 20MB pack and then bulk of objects totalling to 153MB ... WTF?01:09
yohsergey_lisitsyn: типа того01:10
yohхотя я кажись когда то пару фиксов закомиттил01:10
sergey_lisitsynyoh: понятно :)01:10
yohмы его исплользуем (частично) в www.pymvpa.org01:10
skydiverкстати вопрос по поводу shogun01:10
sergey_lisitsynвсё, исчезла аглицкая речь)01:11
skydiverкем будут ревьювится коммиты?01:11
yohsonney2k: the ultimate rewrite command was git filter-branch --tree-filter 'rm -rf `cat /home/yoh/proj/shogun/shogun-remastering/files2delete.txt `; find -iname *.bz2 -delete; find -iname *.o -delete; ' --tag-name-filter cat -- --all01:11
skydiverт.е. вообще насколько сложен процесс попадания патча в trunk01:11
yohwhere that files2delete contained the actual files to be removed01:11
skydiverпомнится в прошлом году некотоыре ребята в рассылку gsoc писали что бывает жесть в этих вопросах01:11
sergey_lisitsynyoh: адский агрегат. вы в придачу к pymvpa тянете сёгун?01:12
yohskydiver: ну это Вы Soerena спрашиваете01:12
yohесли вы его беднягу не завалите то думаю он выберется -- с GIT после того как разберется то должно пойти всё легче01:13
yohособенно  с прибамбасами что github даёт (pull requests, code review etc)01:13
yohsergey_lisitsyn: а чего его тянуть? он сам идёт ;-)01:13
yohя ещё по совместительсву Debian developer, so in my world installing shogun for pymvpa is just a matter of adding shogun-python-module into Recommends: of pymvpa package ;)01:14
sergey_lisitsynyoh: ну ты вообще. :)01:15
yohsonney2k: I will email you my COMPLETE protocol of struggle + minimalistic set of commands which should have theoretically done it01:15
yohmay be fresh minds of monday will be more git-cooperating ;)01:16
yohsergey_lisitsyn: well, сонядветыщи тоже дебианоид -- все мы такия I guess ;)01:17
yohsonney2k: meanwhile -- kids are already all around ;-)01:17
yohпока ребяты -- удачи с GSOC!01:18
sergey_lisitsynспасибо :)01:18
sergey_lisitsynудачи01:18
skydiverthnx01:18
yohkstati   а вы то дебианоиды?01:27
skydiverа что значит сей термин?)01:29
sergey_lisitsynyoh:  я к сожалению этот самый, убунтунутый01:29
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yohsergey_lisitsyn: nu znachit debianoid ;) pochemu zhe k sozhaleniyu?01:48
sergey_lisitsynyoh: ну типа не pure дебиан :)01:48
yohskydiver: user of www.debian.org... well you left already ;)01:48
yohsergey_lisitsyn: nu u kazhdogo svoi grehi01:49
yohi nedostatki01:49
yoh;-)01:49
sergey_lisitsynблин а за что такие мучения с этой рассылкой?01:50
sergey_lisitsynпочему не гугл группы или ещё что-нибудь01:50
yohnu u menya s googlegroups kak raz mucheniya obychno ;)01:51
yohladno -- poshel dityov ukladivat'01:51
sergey_lisitsynда я тут чуть крышей не поехал пока не нашёл последние сообщения01:52
sergey_lisitsynyoh:    from shogun.Features import RealFeatures, Labels ImportError: No module named shogun.Features01:57
sergey_lisitsynyoh: не знаешь что с такой бедой сделать? :) ставлю первый раз01:57
sergey_lisitsynотбой, ядибил02:01
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blackburnперекантовался :)02:07
blackburnyoh: у вас вечереет, наверное, поэтому доброй ночи :)02:14
blackburngood night everyone02:14
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yohsonney2k: ha -- not sure what went wrong last time, now .git is just 23MB ;)02:30
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alesis-novikAnyone from Shogun around to talk about GSoC?05:07
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heatkernelhello06:42
heatkernelI had an inquiry regarding the google "summer of code" projects06:43
heatkernelI am writing the contacts listed for invidual06:45
heatkernelproject ideas06:45
siddharthHello07:28
siddharthIn Student Application for Shogun,its written "Set up your platform to build a shogun snapshot"07:29
siddharthSo what do we have to provide in application?07:29
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sonney2kyoh, then please provide it to me...08:14
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Tanmoy@sploving has ur R bugs been fixed08:48
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sploving hello, not yet08:49
Tanmoyhmmm lets try it once more08:49
splovingThe bugs are because of SWIG08:50
Tanmoydid u copy all the .so files correctly08:50
Tanmoyactually i get it08:50
Tanmoythe swig seems to be working fine for me08:50
Tanmoyare ur test suites running fine08:50
splovingSwig does not support R very well08:51
Tanmoyyup08:51
Tanmoytryin to fix tht08:51
Tanmoysurprisingly the static moduels r kinda easy08:51
splovingyep.08:51
splovingI have not dived into why r modular has such bug08:52
Tanmoyyup looking for it08:52
splovingI am not sure how long time it takes. I also need time to write the proposal.08:53
Tanmoyu mean the one on integrating Lua ? i did read tht08:53
splovingyep.08:54
Tanmoywld be happy to c it after Gsoc08:54
sonney2kregarding R modular08:58
sonney2ksploving, Tanmoy: you should pass --disable-reference-counting to configure08:59
splovingI know that.09:00
Tanmoyhmm did try tht yday09:00
splovingsucceed?09:00
sonney2kthen it all works but you have memory leaks :-/09:01
Tanmoysurprisingly in the configure it says its checked for python python modular r09:02
Tanmoybut not for r modular09:02
sonney2kthere seems to be something wrong in swig's R module regarding reference counting, i.e. we call ref() to increment reference counts for objects and unref() to decrease /destroy them09:02
Tanmoyyup09:02
sonney2kTanmoy, well it is disabled by default (for that reason...)09:02
Tanmoyi think in the mailing list thts what @sploving was trying to say09:02
sonney2kso just specify it: --interfaces=libshogun,r_modular09:03
splovingalso with --disable-reference-counting09:04
sonney2ksploving, yes09:04
splovingsonney2k, have you concated with swig r developer?09:04
splovingabout this bug09:04
splovingdo they know?09:05
sonney2ksploving, yes but I think he needs a small test case to reproduce09:05
sonney2kshogun is too big for that...09:05
sonney2khard to isolate what the problem really is then09:05
splovingyou mean that in swig r testsuite it works well, but for shogun, it produce such problem09:06
sonney2ksploving, I don't know if swigs-R test suite contains such tests...09:07
sonney2kI would be surprised...09:07
sonney2kbut there is another bug in swig that affects us09:07
sonney2kfor octave_modular.09:07
splovingexit on crash?09:07
sonney2kit will crash on exit...09:07
sonney2kyes09:07
Tanmoycrash on exit09:08
sonney2kthis could be worked around though by just creating a single shogun.so09:08
sonney2kerr shogun.oct09:08
sonney2kwill all the modules inside.09:08
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sonney2kand it was actually a bug in octave09:08
sonney2kbut devels have fixed that in their development branch09:09
blackburnhi there09:09
sonney2k...but the swig octave developer hasn't yet09:09
splovingyou mean single modle is OK, more than one has bug09:09
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sonney2khi...09:10
sonney2ksploving, single module yes. modules that depend on each other can be dangerours (when one unloads the other...)09:11
blackburnsonney2k: last night we discussed a little contribution of me for shogun, I'd like to get familiar with interfaces through writing a similar to kNN classifier. where should I send it? I mean I have no access to repo09:12
splovingsonney2k, i know that.09:13
sonney2kblackburn, send a patch to the mailinglist...09:14
blackburnsonney2k: oh, this way, thank you, I'll try09:14
sonney2kblackburn, note that shogun's repository will soon be on github09:16
sonney2k(well it is actually but I will reset it soon)09:16
blackburnsonney2k: may be I should send it to github? :)09:17
sonney2kblackburn, no the mailinglist ist the right place but yes you can fork it when I am ready (later today)09:17
blackburnsonney2k: I'm confused with all this mailinglists and SVN :) never used either09:18
sonney2kblackburn, then it is about time :D09:19
sonney2kblackburn, these things are the reasons open source works :)09:19
blackburnsonney2k: I mean I always worked with mercurial. there is no problem with it at all09:20
blackburnsonney2k: if I will have a questions with sending patch, I'll write to you there, okay?09:20
sonney2kblackburn, well I am way older I guess... used CVS before...09:20
sonney2kblackburn, just do svn diff and email it to the mailinglist09:21
sonney2k(as attachment)09:21
blackburnsonney2k: oh, I see09:21
blackburnsonney2k: thank you09:21
blackburnsonney2k: is there a difference with time of application sent? I mean should I sent it earlier to get09:22
blackburn'slot'09:22
sonney2kblackburn, no not at all09:22
blackburnsonney2k: ok, thank you once more :)09:22
sonney2kblackburn, and we don't really decide how many slot we will get - google does ...09:23
blackburnsonney2k: may it be less than ideas count?09:23
sonney2kI guess 2-5 (though I would love to have 10 slots)09:24
blackburnoh09:24
blackburnit seriously less than ideas count09:25
blackburnmany ideas could 'disappear', yeap?09:25
sonney2kblackburn, postponed then yes and maybe some tasks are easier than thought so ideas could merge09:25
blackburnsonney2k: if it isn't a secret, how many students applying now?09:26
sonney2kblackburn, I don't know09:26
blackburneven roughly? you said much of emails is sent to you, etc09:27
sonney2kthere have been many questions though - but that doesn't mean nr_applicants++09:27
* blackburn calculating chances :)09:27
sonney2kat GSoC students can apply for up to 20 projects09:27
blackburnI think I will try only for 'my' idea, discussed with mentor. or it isn't a right way?09:28
sonney2kso even if a student applies for shogun he might not want it because he might got accepted for some oter thing.09:28
blackburnsonney2k: I see, I hope to get into 'accepted' list :)09:30
sonney2kI think that is the right way. If we have clashes to sort out we will probably also talk to everyone involved individually09:30
blackburnsonney2k: leaving now, thank you for all of this information, good luck09:31
blackburngoodbye everyone09:32
sonney2kl8r09:32
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splovingsonney2k, you said in the email, support a new language is more important in fixing these bugs?09:36
sonney2ksploving, no but it is a good way to get into shogun's swig / typemaps09:37
sonney2kand I cannot mentor fixing these bugs - they might be really really tough to fix09:37
splovingI think so. So if write a proposal supporting lua, I am not sure if I write the plans for fixing these bugs, as I am not sure of them09:38
sonney2ksploving, well just write that you intend to do java first and put it in good shape, then do ruby,lua  or attempt bug fixes for swig-r / octave09:41
splovingso many~//109:43
splovingI just intended to interface lua09:44
splovingas lua is my most like languge09:44
sonney2ksploving, I see09:45
sonney2kbut it is really easy09:46
sonney2kif you can do one language I think the others take you 1-3 days09:46
sonney2kit is really only about writing the typemaps09:46
splovingdocs and exmples, testsuites these all take time09:47
sonney2ksploving, examples - right. I forgot about the examples09:48
sonney2kdocs and testsuite are automagically done (from the examples)09:48
sonney2ksploving, we write examples as functions and dump what the functions return - this way we can re-use them for the test suite09:49
sonney2kalso we write documentation for examples just once09:49
sonney2ksome script merges then the example with its doc09:49
splovingoh that is good09:50
sonney2kalso the website will automagically have the documented examples listed09:50
splovingthen in the plan, i do not spent time on the doc and testsuite09:51
sonney2kwell maybe 8hrs for docs per language - to just write how you should call configure and how to start shogun in that language09:51
sonney2kand a pointer to the minimal example09:51
sonney2k(it should take less but hey...conservative planning is better)09:52
sonney2ksploving, but really if you can please start with java - I think that language has the biggest demand and the best numerical libraries...09:53
splovingsonney2k, ok. I learned java before, and it is not a problem for me.09:53
splovingso i think java + lua, if time permit, i will attemp to fix bugs09:54
sonney2ksploving, I don't mind all your lua etc plans and will support you09:54
sonney2ksploving, regarding the bug fixes - you coud make a plan: small examples to test for the problem, connect with swig/octave/R maintainers and then bug hunt :)09:55
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splovingsonney2k, ok~ when i am familiar with shogun, i will have a try09:57
sonney2ksploving, I think I will prepare shogun's configure to get you all the languages lua, ruby, java and you just do what you manage to do with java #1 prio and then it is up to you.09:57
sonney2kk09:57
splovingok09:58
splovingsonney2k, Now I need prepare for the proposal, when i have question, i will ask you again.09:59
sonney2ksploving, k09:59
sonney2kthanks and good luck!09:59
splovingyou are welcom.:)09:59
Yinhi Soeren10:32
Yini am reading libsvm integration part now.10:32
Yinit seems that the main input is a kernel matrix.10:32
Yinso that you changed the svm_node data structure.10:32
sonney2kYin, yes10:33
Yinorginally it contains index and value. now it only contains a index.10:33
sonney2kand then some minor things like I can enable bias now etc10:33
sonney2kerr disable10:33
Yini see. thanks.10:35
Yinanother question. regarding the sgd and vw. the current framework seems does not support stream input. ( i am not sure about this, I am just exploring the classes now)10:36
sonney2kwell it is something new to implement10:38
Yinis on-deman testing supported? suppose i have a big testing dataset, the testing will go one by one without the need to load all the test data into the memory.10:39
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sonney2kYin, this only depends on the OnlineFeature object to be implemented10:46
sonney2kYin: data is accessed example by example for most methods10:46
sonney2kso yes10:46
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sonney2kyoh, alrighty, the new git repository is both on github / shogun-toolbox.org. That will really save some bandwith :)11:10
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Tanmoythe project on latent variable SVM's12:46
Tanmoyis the key to solve the bundle method as described in the ICML paper12:46
Tanmoyor is there some other solvers u have in mind12:47
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jabbok#topic12:56
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aifargonosHi!13:46
aifargonosI have found some email address on the old GSoC page for shogun. But I did not find it on melange page ...13:47
aifargonosI wrote an email with question to it .. can I expect answer ??13:48
aifargonosthe address was .: sonne@debian.org13:49
aifargonosis anybody answering on this address ??13:50
blackburnaifargonos: it shoud be Sören, sonney2k13:52
aifargonosI guessed this ...13:52
aifargonosbut I did not receive the answer so far ... seems like writing questions here is faster ..13:53
aifargonosso the question was .: Do you have any preferences among the project ideas on your idea page ??13:58
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aifargonosI mean: Which projects are more important for shogun ??13:59
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aifargonoswould some projects be more benefical for shogun than others ??14:00
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* rieck 's back14:42
sonney2k...in da house14:42
rieckwuzzup witg +o?14:42
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yohsonney2k: so I guess the script worked just fine, right? ;)14:44
sonney2kyoh, yes :)14:46
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aifargonossorry for spam, but I'll ask again .:14:47
aifargonosDo you have any preferences among the project ideas on your idea page ??14:47
aifargonoswould some projects be more benefical for shogun than others ??14:47
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@sonney2kaifargonos, well it is best to choose a (set of) topics you like most14:49
aifargonossonney2k: that is true, but I like (more or less) a lot of them, so I am looking for other criteria :-) ..14:51
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knrrrdpwned14:54
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blackburnsonney2k: need your opinion: KLR vs. dimensionality reduction. what do you think is prior?14:59
blackburni mean there is an idea of implementing algos14:59
blackburnexactly nobody can implement all the things, so I have to choose14:59
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jabbokhi all, I was thinking that some feature maps such as these http://berkeley.intel-research.net/arahimi/random-features/ could be useful together with the integration of liblinear you mentioned in the proposed ideas could make a good project for GSoc, what do you think?15:02
@sonney2kjabbok, makes a  lot of sense!15:03
@sonney2kblackburn, up to you? cwidmer ...15:04
blackburnsonney2k: we talked about it and he adviced me to ask you about your opinion15:04
cwidmerI think dim reduction could nicely complement what we have in shogun15:05
* sonney2k agrees15:05
@sonney2kwe have some PCACut / kPCA in there but no more...15:05
blackburnso, my application will contain dim reduction + KLR (optional)15:05
jabbokI didn't have enough time to scan all of shogun's features, are there any feature maps such as vedaldi's recent work or something like that implemented?  http://www.vlfeat.org/~vedaldi/assets/pubs/vedaldi11efficient.pdf15:05
blackburnsonney2k: cwidmer: thank you15:06
@sonney2kjabbok, we have something very related15:07
jabboksonney2k: could you recomend a paper?15:09
@sonney2kjabbok, it is COFFIN http://sonnenburgs.de/soeren/item/coffin/15:10
@sonney2kjabbok, idea is very simple:15:10
@sonney2kyou have a few basic operations that a linear SVM needs. We implement these very abstractly in http://www.shogun-toolbox.org/doc/classshogun_1_1CDotFeatures.html and thus we can use string kernels etc in primal solvers15:11
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jabboksonney2k: ok, thanks a lot, I'll take a closer look at COFFIN's internals. Are there any chances for such a project random-feature-maps + liblinear + coffin to be accepted, should I pursue with the application and the rest?15:20
@sonney2kjabbok, sure ... in the worst case we have to push you into slightly other directions (like onlinefeatures or so) - but I am happy15:21
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jabboksonney2k: thanks, I'll continue with the standard application procedure and if I'll have any other questions I'll use both mail and IRC15:22
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knrrrdops?15:47
knrrrdyou are not running any autoop scripts?15:47
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@knrrrdCool15:56
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-!- knrrrd changed the topic of #shogun to: Shogun Machine Learning Toolbox | We have been accepted for GSoC 2011 | Check out our ideas list http://bit.ly/gM05O0 | GSoC Timeline http://bit.ly/gy7Pdi | How to apply http://bit.ly/i0ThO816:01
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sonney2kin case you haven't noticed - we have switched to git - just now18:56
sonney2ksee https://github.com/shogun-toolbox/shogun18:56
sonney2kthanks to yoh we have a tiny ~20MB repository with all the changes for the source code18:57
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serialhextanmoy, are you awake?19:40
serialhex...ok, either you are awake and not paying attention, or asleep and not able to type and sleep at the same time :P  either way i'm on and will be checking back periodically so we can get this problem with python support not compiling fixed19:42
serialhex...and it's pretty sweet that you're on github now, i just forked the source.  this should make it MUCH easier to code for the GSoC!  thanks to whoever did that!!19:43
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Tanmoyserialhex20:02
Tanmoyim here20:02
Tanmoylets go on with the work20:02
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serialhexyou back tanmoy?20:17
Tanmoyyup20:18
serialhexok, it said your ping timed out... i just got your message a little while ago20:18
Tanmoyu seem to be away20:18
serialhex...hmm, i'm still getting used to irc, but i'm here20:19
serialhexanyway, i just forked the github repo, and downloaded it & ran ./configure on it, but it still tells me that it's not finding the python/numpy developer files, yet yast tells me i have them20:20
Tanmoyok20:20
serialhexeverything else seems to work fine20:20
Tanmoyfirst u need python-dev20:20
Tanmoyso can u get tht20:21
Tanmoyfrm synaptic package manager20:21
Tanmoyi have sent u a message20:21
serialhexok20:21
serialhex...yeah, yast says i have it :-/  going to refresh it, and numpy20:22
Tanmoyyup20:22
Tanmoyi thin ur using ubuntu 10.0420:22
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Tanmoys/thin/think20:23
serialhexopensuse 11.420:23
Tanmoyk20:23
serialhexok... thats finished... testing now...20:24
serialhexsame: Checking for Python/Python Numpy Developer Files ... no20:24
serialhexmaybe just get the source myself & install that way?20:25
Tanmoyyeah20:25
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Tanmoyseems better20:26
serialhexok... uninstall from yast first to prevent conflicts?20:26
Tanmoyyes20:27
Tanmoywhich python version20:27
Tanmoy2.7 right ?20:27
serialhexok... 2.7 or 3?  i'm not sure if numpy supports 3 yet...20:27
serialhexthats what i was going with20:27
Tanmoyyup 2.720:27
serialhexok20:28
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serialhex...bunches of packages depend on python... :-/20:31
Tanmoy? like20:31
serialhex...almost too many to list, i'm just going to remove them all and not worry too much about it20:32
Tanmoynd u dnt have the dependencies reqd ?20:32
Tanmoywell yeah just get the package20:33
Tanmoywell slowly c what happens20:33
serialhexok... np20:33
serialhex...do i need to do anything special to get the dev files set up?  or simply b/c i'm using the source it'll install them?20:40
Tanmoynothng special is reqd20:41
Tanmoyi normally do it frm synaptic package manager20:41
serialhexyeah... it's easier, but you dont get to see the coolness that is ./configure; make; sudo make install that you cant see in windows :P20:42
Tanmoy:)20:43
Tanmoylets get shogun running20:43
Tanmoythn u can do it the cool way20:43
serialhexpython is make-ing right now... i'll let you know when it's done (it may be a bit, i'm running a 3ghz p4)20:45
Tanmoyk20:47
serialhexpython is done... numpy next20:48
Tanmoyget plain numpy20:49
serialhexok20:50
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serialhex...shit, i think that broke chrome :-/  i'll see if it can be fixed later tho, using firefox (backups rock!)20:55
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Tanmoyis it done ?21:03
serialhexcompiling now21:04
serialhexdone! trying shogun ./configure21:07
* sonney2k feels the tense in the air21:07
serialhexffs!21:07
serialhexChecking for Python numpy support ... 1.6.0b121:08
serialhexChecking for Python/Python Numpy Developer Files ... no21:08
serialhexyeah, i want to kick it, can i kick it?21:08
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Tanmoyjust try make and make install and see if any errors are coming21:09
sonney2kserialhex, please run configure with the option --interfaces=libshogun,python_modular21:09
sonney2kthen when it fails look at configure.log21:09
sonney2kwell post the last lines21:09
serialhexok...21:09
Tanmoysonney2k his python-dev is not being found21:09
sonney2kTanmoy, maybe paths are just wrong?21:09
sonney2kOr did you forget to add some enable-shared thingy?21:10
sonney2k(when compiling python)21:10
Tanmoyhe downloaded frm the source if i am right21:10
serialhexyep, right from source...21:11
serialhexsry, late lunch21:11
serialhex...how much of the log file do you want?  though it seems to be looking in the right spot for the files now :-/21:13
sonney2kthe last 10-30 lines not sure21:13
serialhexPyMODINIT_FUNC initsg(void);21:13
serialhexcc -I. -I..  -fPIC -g -Wall -O9 -fexpensive-optimizations -frerun-cse-after-loop -fcse-follow-jumps -finline-functions -fschedule-insns2 -fthread-jumps -fforce-addr -fstrength-reduce -funroll-loops -march=native -mtune=native -pthread ./configure-5679-14378.c -o ./configure-4865-14378.o  -Xlinker --no-undefined -fno-strict-aliasing -fPIC -I/usr/local/include/python2.7 -I/usr/local/lib/python2.7/site-packages/numpy/core/21:13
serialhexinclude -lutil -ldl -shared -L/usr/local/lib/python2.7/config -lpython2.721:13
serialhex./configure-5679-14378.c: In function ‘initsg’:21:13
serialhex./configure-5679-14378.c:11:12: warning: unused variable ‘outArray’21:13
serialhex./configure-5679-14378.c: At top level:21:13
serialhex/usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1532:1: warning: ‘_import_array’ defined but not used21:13
serialhex/usr/local/lib/python2.7/config/libpython2.7.a(signalmodule.o): In function `timeval_from_double':21:13
serialhex/home/serialhex/Downloads/Python-2.7.1/./Modules/signalmodule.c:112: undefined reference to `floor'21:13
serialhex/home/serialhex/Downloads/Python-2.7.1/./Modules/signalmodule.c:112: undefined reference to `floor'21:13
serialhex/home/serialhex/Downloads/Python-2.7.1/./Modules/signalmodule.c:113: undefined reference to `fmod'21:13
serialhex/home/serialhex/Downloads/Python-2.7.1/./Modules/signalmodule.c:113: undefined reference to `fmod'21:13
serialhex/usr/local/lib/python2.7/config/libpython2.7.a(floatobject.o): In function `float_divmod':21:13
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/floatobject.c:740: undefined reference to `fmod'21:13
serialhex/usr/local/lib/python2.7/config/libpython2.7.a(floatobject.o): In function `float_rem':21:13
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/floatobject.c:718: undefined reference to `fmod'21:14
serialhex/usr/local/lib/python2.7/config/libpython2.7.a(floatobject.o): In function `float_pow':21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/floatobject.c:902: undefined reference to `pow'21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/floatobject.c:853: undefined reference to `fmod'21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/floatobject.c:878: undefined reference to `fmod'21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/floatobject.c:843: undefined reference to `fmod'21:14
serialhex/usr/local/lib/python2.7/config/libpython2.7.a(floatobject.o): In function `_Py_double_round':21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/floatobject.c:1123: undefined reference to `fmod'21:14
serialhex/usr/local/lib/python2.7/config/libpython2.7.a(longobject.o): In function `PyLong_FromString':21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/longobject.c:1851: undefined reference to `log'21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/longobject.c:1851: undefined reference to `log'21:14
serialhex/usr/local/lib/python2.7/config/libpython2.7.a(complexobject.o): In function `_Py_c_pow':21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/complexobject.c:139: undefined reference to `hypot'21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/complexobject.c:140: undefined reference to `pow'21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/complexobject.c:141: undefined reference to `atan2'21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/complexobject.c:145: undefined reference to `sincos'21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/complexobject.c:144: undefined reference to `exp'21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/complexobject.c:145: undefined reference to `log'21:14
serialhex/usr/local/lib/python2.7/config/libpython2.7.a(complexobject.o): In function `_Py_c_abs':21:14
serialhex/home/serialhex/Downloads/Python-2.7.1/Objects/complexobject.c:210: undefined reference to `hypot'21:14
serialhexcollect2: ld returned 1 exit status21:14
serialhexno object file created21:14
serialhexResult is: no21:14
serialhex##########################################21:14
serialhex38 :P21:14
sonney2kserialhex, I think it indeed is not configured with shared library support21:14
sonney2ksee the libpython2.7.a?21:15
sonney2kit should be libshogun2.7.so21:15
serialhex...ok cause i'm looking at the files it's saying it cant find :P21:15
serialhexerr... undef ref :-/21:16
serialhexhow do i compile that??  i just compiled python from src21:16
sonney2kserialhex, go to the python dir and issue ./configure --help21:17
sonney2kis there some shared option in there?21:17
serialhexok21:17
serialhexbunches of opts, one min...21:18
sonney2kserialhex, well ./configure --help 2>&1 | grep share21:19
sonney2k--enable-shared21:19
sonney2kthat is what you need21:19
serialhexyep, thats it :D21:19
serialhexbuilding now21:20
sonney2kI am pretty sure that this will solve your problem.21:20
serialhexthen all i have to do is fix my broken crhome :-/21:20
-!- ChanServ changed the topic of #shogun to: Shogun Machine Learning Toolbox | We have been accepted for GSoC 2011 | Check out our ideas list http://bit.ly/gM05O0 | GSoC Timeline http://bit.ly/gy7Pdi | How to apply http://bit.ly/i0ThO8 | This channel is logged.21:21
sonney2kserialhex, not sure what chrome has to do with that?21:22
serialhex...it requires python, and i uninstalled the pyton from yast so i wouldnt have conflicts...  apparently it somehow broke chrome (i'v still got firefox, but i prefer chrome)21:23
serialhexwould i have to re-build numpy too?21:29
-!- aifargonos [~aifargono@46.18.27.35] has joined #shogun21:30
serialhex...it dosnt matter, apparently that broke python :-/21:33
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serialhexffs!21:39
serialhexhow would i uninstall it & start from scratch?21:40
sonney2kmake uninstall?21:46
serialhexok...  i figured its something like that...21:47
Tanmoymake clean21:50
serialhexahh, ok :)21:52
Tanmoysorrie missed some thngs21:52
Tanmoywhere r we know21:52
Tanmoy@cwidmer u thr ?21:52
serialhex...i tried to ./configure --enable-shared & make and it broke python... trying with a clean slate21:53
serialhexffs... i get finished compiling python and i get this:22:04
serialhexserialhex@livecd:~/Downloads/Python-2.7.1> python22:04
serialhexTraceback (most recent call last):22:04
serialhex  File "/usr/local/lib/python2.7/site.py", line 62, in <module>22:04
serialhex    import os22:04
serialhex  File "/usr/local/lib/python2.7/os.py", line 398, in <module>22:04
serialhex    import UserDict22:04
serialhex  File "/usr/local/lib/python2.7/UserDict.py", line 83, in <module>22:04
serialhex    import _abcoll22:04
serialhex  File "/usr/local/lib/python2.7/_abcoll.py", line 11, in <module>22:04
serialhex    from abc import ABCMeta, abstractmethod22:04
serialhex  File "/usr/local/lib/python2.7/abc.py", line 8, in <module>22:04
serialhex    from _weakrefset import WeakSet22:04
serialhex  File "/usr/local/lib/python2.7/_weakrefset.py", line 5, in <module>22:04
serialhex    from _weakref import ref22:04
serialhexImportError: No module named _weakref22:04
Tanmoyhmmm22:08
Tanmoynow it seems python does not work22:08
serialhexyeah... i'm just trying a vanilla ./configure & make to see if that fixes it :-/22:09
serialhex& at the same time trying to find out how to uninstall if need be22:10
sonney2kserialhex, try looking for __weakref22:10
Tanmoydo chk the log with ./configure22:10
sonney2kit is no use to uninstall and retry22:10
sonney2kI suspect your PYTHONPATH / LD_LIBRARY_PATH are wrong22:10
alesis-novikAnyone here willing to talk about general expectations of students for GSoC?22:12
serialhexffs!  vanilla make is now broken :(22:13
serialhexi gtg to a class... i'll be back in ~3 hours to re visit this... :-/22:13
Tanmoyk22:13
Tanmoyill prolly be off to sleep22:13
Tanmoybut do keep me posted22:14
serialhexok... i'll be on all day tomorrow too, so we can work on it more then22:14
serialhexwill do!22:14
Tanmoyyup22:15
sonney2kalesis-novik, I am not sure what to you want to hear?22:16
sonney2kprogram mostly without a lot of guidance of course :)22:17
alesis-novikWell, I'm interested in the implementation of EM idea. While the idea, states the final goal, what is expected during the pre-summer period, for on22:18
alesis-noviks/on/one22:18
sonney2kalesis-novik, I think you have to ask vojtech about this - looks like he is not only so via email...22:18
alesis-novikI'll do that, thanks. Another thing: were the projects ideas on the web-site generally suggested with GSoC being a full-time job in mind (or is this mentor specific)?22:22
sonney2kalesis-novik, they are all intended to be full-time jobs yes.22:24
sonney2kthough it can be that some ideas can be done faster there are always 'extensions'22:25
alesis-novikAs I thought.22:28
alesis-novikThanks for the answers. I wish I would have found this toolbox 3 months ago...22:29
-!- dvevre_ is now known as dvevre22:30
sonney2kalesis-novik, why so?22:34
alesis-novikHad a data mining course which I could have used this in22:36
sonney2kI see...22:36
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--- Log closed Tue Mar 29 00:00:36 2011

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