IRC logs of #shogun for Saturday, 2015-12-19

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--- Log opened Sat Dec 19 00:00:35 2015
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doomshi everyone02:54
doomsI'm trying to install shogun02:54
doomsbut not ith so much results02:54
dooms* not with02:55
doomshere is the problem:02:55
dooms:info:configure ./configure-11619-9060.cpp:1:10: fatal error: 'Eigen/Dense' file not found02:55
dooms:info:configure #include <Eigen/Dense>02:56
doomsI've read that using #include "Eigen/Dense" might work02:57
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doomsany idea how can I change the cpp file ?03:23
doomsls /opt/local/include/eigen3/03:24
doomsEigen, unsupported, signature_of_eigen3_matrix_library03:25
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doomshi12:39
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shogun-notifier-shogun: Sergey Lisitsyn :feature/sphinxdoc * 2b9c6e7 / / (49 files): https://github.com/shogun-toolbox/shogun/commit/2b9c6e72f33debf1f0061b274accc80cddb8125f18:31
shogun-notifier-shogun: Create some sandbox for automatically built examples18:31
shogun-notifier-shogun: Sergey Lisitsyn :feature/sphinxdoc * d364602 / / (14 files): https://github.com/shogun-toolbox/shogun/commit/d3646028e9f4bd3f7cafa427c3d002e73c865f4018:31
shogun-notifier-shogun: Store generated examples in the build directory18:31
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@HeikoSbesser82: around?19:04
@HeikoSlisitsyn:19:04
@besser82HeikoS, here, sir!19:04
@HeikoSbesser82: hey I get a really weird error19:05
@HeikoSwhen compiloing shogun examples by hand19:05
@HeikoSmaybe you know a quick fix19:05
@HeikoSg++  -I /home/heiko/git/shogun/shogun_develop/shogun/src/:/home/heiko/git/shogun/shogun_develop/shogun/third_party -L /home/heiko/git/shogun/shogun_develop/shogun/build/src/shogun/ shogun-test.cpp -lshogun  -o shogun-test19:05
@HeikoS/tmp/ccKaz43q.o: In function `main':19:05
@HeikoSshogun-test.cpp:(.text+0x26e): undefined reference to `shogun::SGRefObject::unref()'19:05
@HeikoSshogun-test.cpp:(.text+0x29b): undefined reference to `shogun::SGRefObject::unref()'19:05
@HeikoScollect2: error: ld returned 1 exit status19:05
@HeikoSmake: *** [shogun-test] Error 119:05
@HeikoSbesser82: any idea?19:06
@HeikoSnote that its the only undefined reference19:06
@besser82HeikoS, try to place "-lshogun" before the source-file...19:06
@HeikoSthen all undefined references pop up19:07
@HeikoSfor all calls19:07
@besser82g++  -I /home/heiko/git/shogun/shogun_develop/shogun/src/:/home/heiko/git/shogun/shogun_develop/shogun/third_party -L /home/heiko/git/shogun/shogun_develop/shogun/build/src/shogun/ -lshogun -o shogun-test shogun-test.cpp19:09
@besser82HeikoS, ^ should work19:09
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travis-ciit's Sergey Lisitsyn'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/9786292719:09
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@HeikoSbesser82: nope19:09
@HeikoSall undefined references19:10
@besser82If you run the binary?  Or during ld?19:10
@HeikoSld19:10
@HeikoScompiling works19:10
@besser82g++  -I /home/heiko/git/shogun/shogun_develop/shogun/src/:/home/heiko/git/shogun/shogun_develop/shogun/third_party -L /home/heiko/git/shogun/shogun_develop/shogun/build/src/shogun/ -lshogun -Wl,-rapth /home/heiko/git/shogun/shogun_develop/shogun/build/src/shogun/ -o shogun-test shogun-test.cpp19:11
@HeikoSand my ld library path is empty19:11
@besser82g++  -I /home/heiko/git/shogun/shogun_develop/shogun/src/:/home/heiko/git/shogun/shogun_develop/shogun/third_party -L /home/heiko/git/shogun/shogun_develop/shogun/build/src/shogun/ -lshogun -Wl,-rpath /home/heiko/git/shogun/shogun_develop/shogun/build/src/shogun/ -o shogun-test shogun-test.cpp19:11
@HeikoSnope19:11
@HeikoSI mean, it is inly the UNREF undefined references in my case19:12
@HeikoSall other references are found19:12
@HeikoSso the path and the setup must be correct19:12
@HeikoSonly the UNREF call is missing in the .so file somehow19:12
@HeikoSbesser82: weird19:12
@HeikoSI dont really understand how that can be19:12
@HeikoSam I forgetting a library?19:13
@besser82HeikoS, me neither...  none, that _I know of...19:13
@HeikoShow can I see the command that is executed from cmake?19:13
@HeikoSbecause this works19:13
@HeikoSfor compiling the examples19:13
@besser82Wait...  I can look it up19:14
@HeikoSthanks19:15
@besser82g++  -I /home/heiko/git/shogun/shogun_develop/shogun/src/:/home/heiko/git/shogun/shogun_develop/shogun/third_party -L /home/heiko/git/shogun/shogun_develop/shogun/build/src/shogun/ -rdynamic -lshogun -Wl,-rpath,/home/heiko/git/shogun/shogun_develop/shogun/build/src/shogun/ -o shogun-test shogun-test.cpp19:22
@besser82HeikoS, ^ it adds rdynamic19:22
@HeikoSbesser82:  it still give s the error :(19:24
@HeikoSin the form you pasted all references are undefined, but if I change the order, the two are still undefined19:24
@HeikoSwtf19:25
@HeikoScan I tell cmake somehow to output its commands?19:25
@HeikoSso that I see the exact g++ command that it executes?19:25
@HeikoScmake . make VERBOSE=119:25
@HeikoSbesser82: mmh19:30
@HeikoSthe command that is executed by cmake, adjusted to my example, also fails19:31
@HeikoSbut when cmake runs it19:31
@HeikoSit works19:31
@HeikoSpuzzled......19:31
@besser82HeikoS, me, too...  :S19:33
shogun-notifier-shogun: Wu Lin :develop * e99ef4e / src/shogun/optimization/AdaDeltaUpdater.h: https://github.com/shogun-toolbox/shogun/commit/e99ef4eeb237308ee53ba8df222666ea5619b97119:34
shogun-notifier-shogun: added comments for the AdaDelta method19:34
@HeikoSmaybe its some artifact of git and the recent SGRefobject patch19:34
shogun-notifier-shogun: Wu Lin :develop * 211f84d / src/shogun/optimization/ (2 files): https://github.com/shogun-toolbox/shogun/commit/211f84d274b25cc6f9b4f1787205fcbe923f7e9f19:34
shogun-notifier-shogun: added comments for the AdaGrad method19:34
shogun-notifier-shogun: Wu Lin :develop * 4d8dd3a / src/shogun/optimization/ (2 files): https://github.com/shogun-toolbox/shogun/commit/4d8dd3a5971f30bafad65ce04bccd54aa4536fa519:34
shogun-notifier-shogun: Merge pull request #2954 from yorkerlin/develop19:34
shogun-notifier-shogun:19:34
shogun-notifier-shogun:  Fix python_modular warnings by adding API documentation19:34
@HeikoSbesser82: recompiling with fresh source19:36
@HeikoS besser82 still same error gnaaa19:39
shogun-buildbotbuild #396 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/396  blamelist: Wu Lin <yorker.lin@gmail.com>19:39
shogun-buildbotbuild #3526 of deb1 - libshogun is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/deb1%20-%20libshogun/builds/3526  blamelist: Wu Lin <yorker.lin@gmail.com>19:41
@besser82HeikoS, I'm puzzeled too...  No idea19:41
@HeikoSbesser82: what happens if you compile examples?19:41
@besser82Lemme try...19:41
@HeikoSI got the same error when I manually try to compile19:42
@HeikoSso cmake must change something else that the g++ command19:42
@HeikoSsince that does not work either19:42
@besser82HeikoS, manually compiling works fine for me here19:46
@HeikoScommand?19:46
@besser82g++ -std=c++11 -I /usr/include/shogun-4.0.1/ -I /usr/include/eigen3/ -lshogun classifier_bagging_liblinear.cpp -o test19:46
@HeikoSweird19:48
@HeikoSdoes make install do something to the so file?19:48
@HeikoSsince I haven't called make install19:49
@HeikoSbut use the dir straigt19:49
@HeikoSbut no19:49
@HeikoScmake also does that19:49
@besser82there is nothing altered by make install, afaik19:49
@HeikoSbesser82: only thing I see is if USE_REFERENCE_COUNTING was false19:51
@HeikoSthen preprocessor ignores the unref19:51
@HeikoSbut it is ON19:51
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travis-ciit's Wu Lin'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/9786919120:12
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@HeikoSGuest7414: ok20:28
@HeikoSgot it20:28
@HeikoScompiles AND fixed the serialisation bug20:29
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besser82_HeikoS, Yay!  =)20:29
besser82_HeikoS, PR is opened?20:29
lisitsynHeikoS: abend!20:39
@HeikoSlisitsyn: jojo20:39
@HeikoSbesser82_: coming20:39
lisitsynalready back?20:39
lisitsynHeikoS: i've got some question we'd need to resolve20:40
lisitsynapparently we should have generated examples in the build directory20:40
@HeikoSlisitsyn:  not yet20:40
@HeikoSflying later20:40
lisitsynthis seem to be right20:40
lisitsynalthough20:40
@HeikoSlisitsyn: ok?20:40
lisitsyndo we need to have it elsewhere?20:40
@HeikoSif they are copied over in installation20:40
@HeikoSthen ok20:40
lisitsynlike in base examples20:40
lisitsynyes20:40
lisitsynthey would be20:41
@HeikoSlisitsyn: is that really important?20:41
lisitsyndepends :)20:41
lisitsynanyway as I've got them in the build dir20:41
lisitsynit would be easier to get them when generating sphinx20:41
@HeikoSok then20:41
@HeikoSfine with me20:42
lisitsynokie20:42
@HeikoSbesser82_: PR sent20:51
besser82_HeikoS, will review it in short20:51
@HeikoSbesser82_: feel free to merge it and close the old one20:52
@HeikoSI will go to airplane soon20:52
besser82_HeikoS, have nice flight!  =)20:52
besser82_HeikoS, going to Deutschland?20:52
@HeikoSbesser82_: yes20:53
@HeikoSah no20:53
@HeikoSsry20:53
@HeikoSLondon20:53
besser82_HeikoS, no x-mas @ home this year?20:54
@HeikoSbesser82_: London is my home20:54
@HeikoSlisitsyn: when will the patch be ready? :)21:01
lisitsynHeikoS: you mean whole pr?21:02
lisitsynworking atm21:02
@HeikoSyeah the docs21:02
@HeikoSI want to get my hands on this soon21:02
@HeikoSso even if not 100% complete, at least push it to the feature branch21:02
lisitsynit is already21:02
@HeikoSthen I can have a look and think how to structure the pages more etc21:02
@HeikoSlisitsyn: ah is it sent?21:02
lisitsynI think mostly yes21:02
lisitsynI don't have any changes yet21:03
lisitsynI will push some parameters forwarding for our sgexample extension21:03
lisitsynthen it should work21:03
besser82_HeikoS, I thought Cologne was?21:04
@HeikoSlisitsyn: yes cool21:04
@HeikoSbesser82_: I grew up there but it is not my home anymore21:04
besser82_HeikoS, Ok, I see21:05
shogun-notifier-shogun: Heiko Strathmann :develop * b6a6e6d / src/shogun/base/SGObject.cpp: https://github.com/shogun-toolbox/shogun/commit/b6a6e6dc08f10defffc5b83cc776d6a9bb69275721:11
shogun-notifier-shogun: fix serialisation again by re-adding accidentially remove "load" command21:11
shogun-notifier-shogun: Heiko Strathmann :develop * 80d0362 / src/shogun/base/Parameter.cpp,src/shogun/base/Parameter.h: https://github.com/shogun-toolbox/shogun/commit/80d03627c67ef3c770aee2b21e7a18078e29379621:11
shogun-notifier-shogun: re-introduce Parameter::load as migration framework is removed, remove more migration related methods21:11
shogun-notifier-shogun: Heiko Strathmann :develop * 5999609 / examples/undocumented/libshogun/ (9 files): https://github.com/shogun-toolbox/shogun/commit/599960901fca85a12e0ae0cee1e336aaa473d01621:11
shogun-notifier-shogun: remove old migration examples/tests from blacklist and files21:11
shogun-notifier-shogun: Heiko Strathmann :develop * af8c1df / / (12 files): https://github.com/shogun-toolbox/shogun/commit/af8c1df859ed3d5780bbea5615a5c523e5651db921:11
shogun-notifier-shogun: Merge pull request #2955 from karlnapf/develop21:11
shogun-notifier-shogun:21:11
shogun-notifier-shogun: Fix serialisation segfaults21:11
shogun-buildbotbuild #397 of trusty - libshogun - viennacl is complete: Failure [failed compile]  Build details are at http://buildbot.shogun-toolbox.org/builders/trusty%20-%20libshogun%20-%20viennacl/builds/397  blamelist: Heiko Strathmann <heiko.strathmann@gmail.com>21:13
shogun-buildbotbuild #3527 of deb1 - libshogun is complete: Failure [failed compile]  Build details are at http://buildbot.shogun-toolbox.org/builders/deb1%20-%20libshogun/builds/3527  blamelist: Heiko Strathmann <heiko.strathmann@gmail.com>21:14
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shogun-buildbotbuild #398 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/39821:21
shogun-buildbotbuild #3528 of deb1 - libshogun is complete: Success [build successful]  Build details are at http://buildbot.shogun-toolbox.org/builders/deb1%20-%20libshogun/builds/352821:31
shogun-buildbotbuild #2732 of bsd1 - libshogun is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/bsd1%20-%20libshogun/builds/2732  blamelist: Heiko Strathmann <heiko.strathmann@gmail.com>21:39
shogun-buildbotbuild #2721 of deb3 - modular_interfaces is complete: Failure [failed csharp modular]  Build details are at http://buildbot.shogun-toolbox.org/builders/deb3%20-%20modular_interfaces/builds/2721  blamelist: Heiko Strathmann <heiko.strathmann@gmail.com>21:56
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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/9787980121:57
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shogun-buildbotbuild #1098 of FCRH - libshogun is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/FCRH%20-%20libshogun/builds/1098  blamelist: Heiko Strathmann <heiko.strathmann@gmail.com>22:00
shogun-buildbotbuild #83 of FC22 - libshogun is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/FC22%20-%20libshogun/builds/83  blamelist: Heiko Strathmann <heiko.strathmann@gmail.com>22:00
shogun-notifier-shogun: Sergey Lisitsyn :feature/sphinxdoc * af2d9d9 / doc/CMakeLists.txt,doc/sphinx/source/conf.py,doc/sphinx/extensions/sgexample.py: https://github.com/shogun-toolbox/shogun/commit/af2d9d9887a01a95e0f6236699a83d73c2ee3c4d22:09
shogun-notifier-shogun: Pass paths to sgexample by parameter22:09
shogun-buildbotbuild #697 of deb4 - python3 is complete: Success [build successful]  Build details are at http://buildbot.shogun-toolbox.org/builders/deb4%20-%20python3/builds/69722:17
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travis-ciit's Sergey Lisitsyn'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/9788603623:14
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--- Log closed Sun Dec 20 00:00:36 2015
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