IRC logs of #shogun for Friday, 2016-03-04

« Thursday, 2016-03-03 Index Saturday, 2016-03-05 »
--- Log opened Fri Mar 04 00:00:22 2016
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travis-ciit's Heiko Strathmann's turn to pay the next round of drinks for the massacre he caused in shogun-toolbox/shogun: https://travis-ci.org/shogun-toolbox/shogun/builds/11347265101:22
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travis-ciit's Heiko Strathmann's turn to pay the next round of drinks for the massacre he caused in shogun-toolbox/shogun: https://travis-ci.org/shogun-toolbox/shogun/builds/11347265106:57
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shogun-buildbotbuild #453 of trusty - libshogun - viennacl is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/trusty%20-%20libshogun%20-%20viennacl/builds/453  blamelist: Heiko Strathmann <heiko.strathmann@gmail.com>, Viktor Gal <viktor.gal@maeth.com>08:45
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@wikinggsoc madness has just begin! :)09:05
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@wikinglisitsyn: awake in moscow already?10:17
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@wikinglambday: why dont we have pow, exp etc in linalg?10:17
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@lambdaywiking: matrix pow/exp or element-wise pow/exp?10:19
@wikingboth10:21
@lambdaywiking: I added element-wise things a few days back.. but matrix pow/log etc things are not there yet10:23
@lambdaywiking: btw  we'd love to hear your comments on this issue - https://github.com/shogun-toolbox/shogun/issues/303210:24
@lambdayI agree with HeikoS that it might be an overkill.. but it would have its own benefits as well I assume10:24
@lambdaywiking: check this : https://github.com/shogun-toolbox/shogun/blob/develop/tests/unit/mathematics/linalg/ElementwiseOperations_unittest.cc10:25
@lambdaywiking: this one is cool - https://github.com/shogun-toolbox/shogun/blob/develop/tests/unit/mathematics/linalg/ElementwiseOperations_unittest.cc#L30110:26
@wikingbtw10:30
@wikingwe are leaking10:30
@wikingin linalg10:30
@wikinghttp://buildbot.shogun-toolbox.org/memcheck/20160303-0040.html10:30
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@lambdaywiking: serialization?10:32
@lambdayoh I see10:35
@lambday==10313==    at 0x4C2AD10: calloc (vg_replace_malloc.c:623) ==10313==    by 0x4010F91: allocate_dtv (dl-tls.c:296) ==10313==    by 0x401169D: _dl_allocate_tls (dl-tls.c:460) ==10313==    by 0x7A6EC27: allocate_stack (allocatestack.c:589) ==10313==    by 0x7A6EC27: pthread_create@@GLIBC_2.2.5 (pthread_create.c:495) ==10313==    by 0xB7CEC56: ??? (in /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0) ==10313==    by 0xB7CA7D9: GOMP_parallel (10:36
@lambdayare you talking about this one?10:36
shogun-buildbotbuild #454 of trusty - libshogun - viennacl is complete: Success [build successful]  Build details are at http://buildbot.shogun-toolbox.org/builders/trusty%20-%20libshogun%20-%20viennacl/builds/45410:39
@wikingno i'm talking about the element wise operations10:42
@lambday<b>MPK</b> ==10313== 2,464 bytes in 7 blocks are possibly lost in loss record 498 of 503 ==10313==    at 0x4C2AD10: calloc (vg_replace_malloc.c:623) ==10313==    by 0x4010F91: allocate_dtv (dl-tls.c:296) ==10313==    by 0x401169D: _dl_allocate_tls (dl-tls.c:460) ==10313==    by 0x7A6EC27: allocate_stack (allocatestack.c:589) ==10313==    by 0x7A6EC27: pthread_create@@GLIBC_2.2.5 (pthread_create.c:495) ==10313==    by 0xB7CEC56: ??? (10:44
@lambdayargh10:44
@lambdayhttp://pastebin.com/pVgtUa4m10:45
@lambdaywiking: ^10:45
@wikingfor example yes10:46
@lambdaywiking: that's the only thing I can see there.. and IIRC it's a well known issue with omp and valgrind.. it says "possibly" lost.. so not exactly a memory leak I suppose..10:50
@lambdayanyway I'll check some more10:50
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@wikingmmm10:53
@wikingthere are ways to silent valgrind about this10:53
@wikingsee shogun/configs/valgrind.supp10:53
@lambdayokay10:54
@wikingbtw based on that10:54
@wikingsome omp stuff are silenced already10:54
@lambdayseems like it should be suppressed with this.. it already has this pthread_create@@GLIBC_* thingi10:56
@lambdaybut it didn't10:56
@lambdayand I can see the same error but originated at somewhere else... so maybe the suppression didn't work10:57
@lambdaye.g. FITCInferenceMethod_get_marginal_likelihood_derivatives_Test::TestBody() (FITCInferenceMethod_unittest.cc:542) --> shogun::CInferenceMethod::get_negative_log_marginal_likelihood_derivatives(shogun::CMap&lt;shogun::TParameter*, shogun::CSGObject*&gt;*) (InferenceMethod.cpp:241)10:58
@HeikoSwiking: hey, can you explain me how this eigen3 thing got merged?10:59
@lambdayHeikoS: hey11:00
@HeikoSlambday: hi11:00
@HeikoSlambday: kind of late for you isnt it? ;)11:00
@HeikoSlambday: all good?11:00
@lambdayHeikoS: this is the middle of the day.. I'm at office :D11:00
@lambdayyeah..11:00
@HeikoSlambday: ah really, I see11:00
@wikingHeikoS: it's a feature branch11:01
@wikingthat doesn't require PR11:01
@wikingi squashed it11:01
shogun-buildbotbuild #2773 of deb3 - modular_interfaces is complete: Failure [failed python modular]  Build details are at http://buildbot.shogun-toolbox.org/builders/deb3%20-%20modular_interfaces/builds/2773  blamelist: Bj?rn Esser <me@besser82.io>11:01
@wikingand merged it by hand11:01
@HeikoSwiking: I see you used the upstream feature/eigen3 thing?11:02
@wikingi used the latest feature/eigen3...11:02
@wikingtested it with travis11:02
@HeikoSvia github ?11:02
@HeikoSor locally?11:02
@wikingall green -> squashed11:02
@wikingand merged11:02
@wikingwhat do you mean github?11:02
@wikingfeature branch11:02
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@wikingfeature branch do not go via PR11:02
@HeikoSgithub can merge feature branches11:02
@wikinglol no sorry11:03
@wikingi use console11:03
@HeikoSyou you checkout the feature branch11:03
@wikingi dont need a webui to merge a branch in11:03
@wikinggit11:03
@HeikoSthen go to develop, suqash and merge it, and then push to develop?11:03
@wikingno11:03
@wikingyou go the feature branch11:03
@wikingsquash it11:03
@wikingthen go to develop11:03
@wikinggit merge <branch>11:03
@wikingthis is 101 git11:03
shogun-buildbotbuild #335 of trusty - libshogun is complete: Success [build successful]  Build details are at http://buildbot.shogun-toolbox.org/builders/trusty%20-%20libshogun/builds/33511:04
@HeikoSthats what I just said11:04
@HeikoSyeah all good, just wanted the PR for discussion in src code11:04
@wikingno11:04
@wikingyou didn't say that11:04
@wikingyou said11:04
@wikinggo to develop, suqash and merge it,11:04
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@wikingthat's very different11:04
@wikingHeikoS: you can have discussion over a branhc11:04
@wikingno need for pr11:04
@wikingPRing branches11:04
@wikingwill cause double compile in travis11:05
@wikingbecause it'll test it as a PR11:05
@wikingand it will test is as a branch11:05
@wikingbtw https://git-scm.com/book/en/v211:05
@HeikoSok I see11:05
@HeikoSthanks11:05
wanderer_have a little doubt here with the build process, can anybody help me?11:05
@HeikoSanyway goo that it is in11:05
@HeikoSwiking: these have eigen3 things were annoying11:05
@wikingyep11:05
@wikingnow it's done11:05
@HeikoSsaw all the code I deleted? all these hand implemented matrix multiplications11:05
@wikinganswer for my email11:06
@HeikoSjust reading11:06
wanderer_how do you enable c++11 while building?11:07
wanderer_in shogun cmake11:07
@wikingwanderer_: cmake will autodetect your compiler11:07
@wikingif you wanna use a different compiler11:07
@wikingjust set CC and CXX11:07
@wikingenv vars11:07
@wikingjust as in any configure script11:07
wanderer_yeah, but is there a way to do that in cmake itself?11:08
@wikingwhat?11:08
@wikingto do what?11:08
wanderer_force use of g++/gcc-4.911:08
@wikingCC=gcc-4.9 CXX=g++-4.9 cmake ...11:09
@HeikoSwiking: so about cookbook11:09
@wikingdone11:09
@HeikoSwiking: the -DBUILD_COOKBOOK is legacy11:09
@HeikoScurrently, it is being built whenever its dependencies are met11:09
wanderer_cool, thanks!11:09
@wikingok but in case of travis11:09
@HeikoSwhich is sphinx is installed, and BUILD_META_EXAMPLES is set11:09
@HeikoSfind_package(Sphinx)11:09
@HeikoSIF(BUILD_META_EXAMPLES AND SPHINX_FOUND)11:09
@HeikoS    SET(BUILD_COOKBOOK 1)11:09
@HeikoSENDIF()11:09
@wikingthat's *always*11:09
@wikingright?11:09
@HeikoSyes, needs change11:09
@wiking...11:09
@wikingputana11:10
@HeikoSwhat about re-introducing the switch? -DBUILD_COOKBOOK?11:10
@HeikoSand then only one travis build does it11:10
@wikingyeah ok i dont care11:10
@wikinganswer for the rest11:10
@HeikoSdevelop should be fixed upload that is overwritten on merge11:11
@wikingwhat do you mean on merge?11:11
@wikingyou do understand that travis runs11:11
@wikingAWLAYS11:11
@wikingany commit in develop11:11
@HeikoSanything changed in develop11:11
@wikingor in any other branch11:11
@HeikoSso I would like two things11:11
@HeikoS1.11:11
@HeikoSbeing able to look at the cookbook from PRs from pppl11:11
@HeikoS2.11:11
@HeikoShave the latest cookbook of "develop" somewhere11:12
@wikingok both is possible11:12
@HeikoS3. have a release coobkook just like doxygen11:12
@HeikoSbut 1. is most important11:12
@HeikoS2-3 can be cominbed in "nightly"11:12
@wikingno nightly11:12
@HeikoSwiking: question: is it ok if cookbook is always build when dependencies ar emet?11:12
@wikingforget that now11:13
@wikingno11:13
@wikingthat's not ok11:13
@wikingis it part of ALL11:13
@wiking?11:13
@HeikoSok then Ill add switch11:13
@HeikoSyes11:13
@wikingin that case no11:13
@wikingbut if you remove from all11:13
@wikingthen it's cool11:13
@HeikoSok will do11:13
@wikingwhy does it have to be part of all?11:13
@wikingit's doc for god sakes11:13
@HeikoSyes its part of doc11:13
@HeikoSjust saw :D11:14
@wikingwhen you do11:14
@wikingmake all11:14
@wikingwill it build?11:14
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@HeikoSyes11:14
@wikingok why?11:15
@HeikoSI dont know11:15
@HeikoShave this11:16
@HeikoSLIST(APPEND DOC_DEPENDENCIES cookbook)11:16
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@HeikoSAH11:16
@HeikoSnow it doesnt anymore11:16
@HeikoSpushing11:16
@HeikoSah its a bit weird11:20
@HeikoSwiking: cookbook depends on meta_examples11:20
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@HeikoSwiking: pushed, it is now part of doc11:22
@HeikoSwiking: removed the travis flag11:22
@HeikoSwiking: I don't think travis runs make doc right?11:22
@HeikoSwiking: so you can do make cookbook and then upload11:23
@HeikoSwiking: all questions answered?11:23
@HeikoSwiking: dont know about the build. Now make doc depends on cookbook and therefore on  meta_examples, which depend on the linked shogun lib11:24
@HeikoSwiking: there are more problems in the build now,11:25
lisitsynwhere is the irc notification?11:25
@HeikoSlisitsyn:  hey11:26
lisitsynhey11:26
@HeikoSlisitsyn: how to make 'make cookbook' part of 'make doc' but not part of 'make all'11:26
@HeikoSchange: add_custom_target(cookbook ALL ....11:27
@HeikoSinto11:27
@HeikoSadd_custom_target(cookbook doc ?11:27
@HeikoSnope11:27
lisitsynhow did it happen that cookbook is part of all?11:28
@HeikoSlisitsyn: I have no idea, think you integrated it ?11:28
lisitsynok let me check11:28
lisitsynadd_custom_target(cookbook doc11:28
lisitsynshould work11:29
@HeikoSno doesnt11:29
lisitsynHeikoS: did you remove the cache?11:29
lisitsyni.e. build dir11:29
@HeikoSlisitsyn: good point11:29
@HeikoSdoing now11:29
@HeikoSah11:29
@HeikoSok so cookbook is definitely part of make all11:30
lisitsynstill/11:30
lisitsyn?11:30
@HeikoSnow changing to doc and it is not anymore11:30
@HeikoSbut now make cookbook errors11:31
@HeikoS[100%] Cookbook Sphinx building HTML11:31
@HeikoS/bin/sh: 1: doc: not found11:31
@HeikoSthis is the one in feature branch11:31
@HeikoSyou can try it11:31
@HeikoSfor wiking, we want to only build cookbook as part of make doc, then he will do the html upload from PRs11:32
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travis-ciit's Heiko Strathmann's turn to pay the next round of drinks for the massacre he caused in shogun-toolbox/shogun: https://travis-ci.org/shogun-toolbox/shogun/builds/11362229012:44
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lisitsynhttps://github.yandex-team.ru/crypta-yt-packages/yandex-crypta-ext-dmp-segments-yt/pull/113:09
lisitsynlol13:09
lisitsynforget that13:09
ach__Hi everyone13:18
ach__I am planning to participate in Gsoc16 and the idea of framework for plugin-based architecture seems to interest me. What is the best way to get an understanding of the messy codebase thats there .13:20
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anjanI searched in the github repo of Shogun.But  I am not able to find whihc one is for beginers14:55
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--- Log closed Sat Mar 05 00:00:23 2016
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