Open in new window / Try shogun cloud
--- Log opened Thu Sep 26 00:00:15 2013
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shogun-notifier-shogun: Heiko Strathmann :gp_notebook * d06ef61 / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/d06ef617d94bfcbceb65ce527e7cdbab8f03631b02:56
shogun-notifier-shogun: initial draft for gp notebook02:56
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * 0c672b6 / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/0c672b66d632eeae8a4de95ef33d40c061d1447102:56
shogun-notifier-shogun: some updates on binary classification02:56
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * dc26fe3 / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/dc26fe318341c93dcf8bf8e165833e84cbc84fce02:56
shogun-notifier-shogun: some more updates for likelihoods02:56
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * f6f1d39 / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/f6f1d394db930309cbcf2119467406573ec72edf02:56
shogun-notifier-shogun: another paragraph on inference for binary classification02:56
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * 13a5970 / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/13a597067a893e8c70c267de713e95f05d43b4ba02:56
shogun-notifier-shogun: some updates on inference and model-selection02:56
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * c3436ff / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/c3436ff2bb8d9021c22f8717652f25311b510e0602:56
shogun-notifier-shogun: some more things on model-selection with ML202:56
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shogun-buildbotbuild #467 of nightly_all is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/nightly_all/builds/46703:32
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travis-ci[travis-ci] it's Heiko Strathmann's turn to pay the next round of drinks for the massacre he caused in shogun-toolbox/shogun: http://travis-ci.org/shogun-toolbox/shogun/builds/1180512404:03
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sonne|worklisitsyn: around?09:23
wikingmmm when's the meeting then?09:24
sonne|workwiking: ?!09:26
sonne|workwiking: are we having any today even?09:26
wikingsonne|work: dunno09:26
wikingi've just filled out the doodle :P09:26
sonne|workwiking: man I don't even know the doodle lik09:26
sonne|worklink09:26
wikinghehehe funny09:27
wikinganyhow i'll cleanup the ipynbs now09:27
wikingand try to fix protoc09:27
sonne|workwiking: btw lisitsyn wrote the gdb test run when sth fails but he had to comment it again09:27
wikingwhere's the PR?09:27
wikingor is there a pr?09:27
sonne|workwiking: merged09:27
sonne|workwiking: let me show you the lines09:27
wikingok cool09:27
sonne|workI tried to debug it but didn't succeed yet09:28
wikingbrb i just gonna take my breaky now :P09:28
sonne|work:P09:28
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shogun-notifier-shogun: Viktor Gal :develop * 5f48173 / doc/ipython-notebooks/classification/svm_binary_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/5f481731af8a2fb05fac0456ab19804e3462ed8009:41
shogun-notifier-shogun: fix issue #161109:41
shogun-notifier-shogun: cleanup svm_binary_classification.ipynb09:41
wikingsonne|work: so what's the gdb line?09:41
wikingsonne|work: good news: http://googlemock.googlecode.com/files/gmock-1.7.0.zip09:49
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shogun-buildbotbuild #1547 of cyg1 - libshogun is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/cyg1%20-%20libshogun/builds/1547  blamelist: Viktor Gal <viktor.gal@maeth.com>10:30
sonne|workwiking: hurray!10:34
sonne|workwiking: ah sry got distracted10:34
sonne|workwiking:  check cmake/checkgdb.cmake10:35
sonne|workwiking: this is called from  tests/integration/python_modular/CMakeLists.txt10:36
sonne|workwiking: it seems gdb is run on each example when this is activated10:36
sonne|workno idea if the return code check is correct10:36
sonne|workwiking: but I need this for libshogun examples / unit tests10:37
sonne|workotherwise debugging cyg1 failures is too tough10:37
wikingok i'll check10:39
shogun-notifier-shogun: Viktor Gal :develop * 8e7b259 / cmake/external/GoogleTestNMock.cmake: https://github.com/shogun-toolbox/shogun/commit/8e7b2597e932a4e1ada6c945562ffd7d735b8fd010:43
shogun-notifier-shogun: Dump gmock version to 1.7.010:43
sonne|workwiking: so w/ gmock we can drop the shitty svn dependency right?10:44
sonne|workwiking: ahh btw I got the green light from json-c people that they would accept a patch for the nan / inf issue10:44
wiking?10:44
sonne|workwiking: well for gmock?10:44
wikingit's done10:44
wikingsee my last commit10:44
sonne|workwiking: didn't we have to svn checkout before10:44
sonne|workwiking: yes exactly10:44
wikingsonne|work: u didn't need to do anything...10:45
wikingit was automatic10:45
wikingbut now it doesn't use svn10:45
wikingbut the zip10:45
sonne|workyeah exactly10:45
wikingbut u never needed to svn checkout manually10:45
sonne|workit is great10:45
wikinglet's see what the bots say10:45
sonne|workwell we needed svn installed10:45
wikingyes for test10:45
sonne|workbut now no longer which is like ... great!10:46
wikingbut whoever did utest that it was highly likely that they had svn10:46
wikingas svn is not dead... yet10:46
wikingthere's a problem with hdf5 + floatmax...10:46
sonne|workno way to save it10:46
wikingthen we should just disable it i thnk10:46
sonne|workit should just err or save as double10:47
sonne|workdisable what?10:47
wikingH5T_NATIVE_LDOUBLE10:47
sonne|workahh cool10:47
wikingSerialization.Hdf5_scalar_equal_FLOATMAX10:47
sonne|workthen10:47
wikingbut still this sucks10:47
sonne|workwhat sucks?10:47
wikinghttp://pastebin.com/NkVuAdYf10:48
wikingand xml is even worse http://pastebin.com/5JUhE5js10:53
sonne|workwiking: lzma auto decoder?!11:38
wikingdunno11:40
wikingthis is what i get from valgrind11:40
sonne|workwiking: looks very much like a bug in libxml11:43
sonne|workwiking: but lbxml2_xzread ?!?11:43
sonne|workwe don't even use compression... looks like libxml2 supports this now11:43
wikingyeah11:44
wikingbut still it's loaded by libxml211:44
wikingit seems11:44
shogun-buildbotbuild #1548 of cyg1 - libshogun is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/cyg1%20-%20libshogun/builds/1548  blamelist: Viktor Gal <viktor.gal@maeth.com>11:44
sonne|workwiking: yeah maybe it needs to call some kind of cleanup11:47
sonne|workonce done11:47
sonne|workbut doesn't11:47
sonne|workor we need to...11:47
sonne|workno idea11:47
wikingyeah the funny thing is that xmlcleanup is being called11:52
wikingbut i'll try to figure it out11:52
shogun-buildbotbuild #47 of clang34 - static analysis is complete: Failure [failed analyse]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20static%20analysis/builds/47  blamelist: Viktor Gal <viktor.gal@maeth.com>11:56
wikingsonne|work: it's funny if i run the Serialization.Xml* test 1-by-1 then i only get12:07
wikingLEAK SUMMARY:12:07
wiking==12264==    definitely lost: 0 bytes in 0 blocks12:07
wiking==12264==    indirectly lost: 0 bytes in 0 blocks12:07
wiking==12264==      possibly lost: 0 bytes in 0 blocks12:07
wiking==12264==    still reachable: 76 bytes in 2 blocks12:07
wiking==12264==         suppressed: 0 bytes in 0 blocks12:07
wikingbut if i run the Serialization.Xml* at once i get that leak12:07
wikingit might be some xml/valgrind bug12:08
shogun-buildbotbuild #30 of clang34 - undefined behaviour analysis is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20undefined%20behaviour%20analysis/builds/30  blamelist: Viktor Gal <viktor.gal@maeth.com>12:08
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wikingok somebody even created a supression file for this12:09
wikinghttps://github.com/kitanda/hedgr/blob/master/build/valgrind/hedgr.supp12:09
lisitsyn1sonne|work: it looks we need to postpone meeting to next week12:09
lisitsyn1thoralf and heiko are out so12:10
wikingso i guess it's really some false positive error...12:10
wikingsonne|work: actually what happened with that valgrind supression file that thoralf created?12:10
wikingok so release only next week then i guess?12:11
wikingit sounds better as we still need some more time12:11
lisitsyn1wiking: deffs not this week12:11
wikingsonne|work: we need to change a bit how the notebooks are generated12:11
wikingsonne|work: as some of the notebooks use data12:12
wikingsonne|work: and if they are not present then the notebook is basically useless12:12
wikingi'll put this into issue12:12
wikingmmm12:16
wikingbtw doc/Doxyfile should not be in repo, or?12:16
wikingi mean because of the version number etc...12:17
wikingit should be generated with make doc12:17
wikingmmm maaaaybe we should port as well the doxygen doc generation to cmake :P12:23
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travis-ci[travis-ci] it's Viktor Gal's turn to pay the next round of drinks for the massacre he caused in shogun-toolbox/shogun: http://travis-ci.org/shogun-toolbox/shogun/builds/1181285112:23
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shogun-buildbotbuild #33 of clang34 - thread analysis is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20thread%20analysis/builds/33  blamelist: Viktor Gal <viktor.gal@maeth.com>12:26
shogun-notifier-shogun: Viktor Gal :develop * 28c40c6 / doc/Doxyfile_cn.in,doc/Doxyfile_en.in,tests/unit/io/Serialization_unittest.cc: https://github.com/shogun-toolbox/shogun/commit/28c40c686005327f0a013c4c3adb23ccab78bf7512:33
shogun-notifier-shogun: Fix typo in Serialization_unittest.cc12:33
shogun-notifier-shogun: fix issue #1677: use mathjax in doxygen for displaying mathematical formulas12:33
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shogun-buildbotbuild #48 of clang34 - static analysis is complete: Failure [failed analyse]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20static%20analysis/builds/48  blamelist: Viktor Gal <viktor.gal@maeth.com>13:25
shogun-buildbotbuild #39 of debian wheezy - memcheck is complete: Failure [failed memory check]  Build details are at http://buildbot.shogun-toolbox.org/builders/debian%20wheezy%20-%20memcheck/builds/39  blamelist: Viktor Gal <viktor.gal@maeth.com>13:31
shogun-buildbotbuild #31 of clang34 - undefined behaviour analysis is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20undefined%20behaviour%20analysis/builds/31  blamelist: Viktor Gal <viktor.gal@maeth.com>13:37
shogun-buildbotbuild #1549 of cyg1 - libshogun is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/cyg1%20-%20libshogun/builds/1549  blamelist: Viktor Gal <viktor.gal@maeth.com>13:37
sonne|workwiking: why should the data not be present?13:49
sonne|workwiking: it should always be there13:49
sonne|workwiking: the Doxyfile had a .in file13:50
sonne|workis it gone?13:50
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shogun-buildbotbuild #34 of clang34 - thread analysis is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20thread%20analysis/builds/34  blamelist: Viktor Gal <viktor.gal@maeth.com>13:51
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wikingsonne|work: nono it's fixed already14:18
wikingsonne|work: no i dont know... but the generated html file is broken for sure14:18
wikingi'm gonna check now the ipynb14:18
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wikingsonne|work: yeah no... something is wrong with the generated ipynb14:19
wikingsonne|work: the wav files are missing from that ipynb: http://nbviewer.ipython.org/url/www.shogun-toolbox.org/static/notebook/bss_jade.ipynb14:20
wikingsonne|work: i.e. something went wrong with reading from data...14:20
shogun-buildbotbuild #40 of debian wheezy - memcheck is complete: Success [build successful]  Build details are at http://buildbot.shogun-toolbox.org/builders/debian%20wheezy%20-%20memcheck/builds/4014:22
sonne|workwiking: maybe some python package is missing or it needs a newer scipy or so?14:23
wikingsonne|work: no idea... r u logging the ipynb generator somewhere?14:26
sonne|workwiking: sure just look at the buildbot output14:30
wikingsonne|work:14:33
wiking# change to the shogun-data directoy14:33
wikingimport os14:33
wikingos.chdir('../../../data/ica')14:33
wikingFailed to run cell:14:33
wikingTraceback (most recent call last):14:33
wiking  File "/usr/local/bin/ipynb_run_save.py", line 107, in test_notebook14:33
wiking    outs = run_cell(kc, cell)14:33
wiking  File "/usr/local/bin/ipynb_run_save.py", line 72, in run_cell14:33
wiking    raise Exception(out.traceback)14:33
wikingException: ['\x1b[1;31m---------------------------------------------------------------------------\x1b[0m\n\x1b[1;31mOSError\x1b[0m                                   Traceback (most recent call last)', "\x1b[1;32m<ipython-input-4-eaf8f3665f21>\x1b[0m in \x1b[0;36m<module>\x1b[1;34m()\x1b[0m\n\x1b[0;32m      1\x1b[0m \x1b[1;31m# change to the shogun-data directoy\x1b[0m\x1b[1;33m\x1b[0m\x1b[1;33m\x1b[0m\x1b[0m\n\x1b[0;32m      2\x1b[0m \x1b[1;32mimport\x1b[0m \x114:33
wikingthere14:33
wiking;)14:33
wikingi wonder why that does not return 1 but 014:34
wikinghence it's marked as green, i.e. it ran fine...14:34
wikingwhich is actually not the case if u look at the stdio: http://buildbot.shogun-toolbox.org/builders/nightly_default/builds/536/steps/notebooks/logs/stdio14:34
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wikingbesser82: here?14:48
besser82wiking: sure!14:48
besser82wiking: What's the beef?14:49
wikingbesser82: CTEST_MEMORYCHECK_SUPPRESSIONS_FILE14:49
besser82wiking: What precisely?14:50
wikingcan i set this from CMakeLists.txt?14:50
wikingi mean apparently not14:51
besser82wiking: What do you want to do exacly? can you be a bit more verbose, please?14:51
wikingbesser82: i want to set the valgrind suppression file for cmake14:52
wikingi mean ctest14:52
wikingi.e. when u run: ctest -D ExperimentalMemCheck14:53
wikingthen it'll add the suppression file that is under configs/14:53
wikingand there's a CTEST_MEMORYCHECK_SUPPRESSIONS_FILE but i dont know how it should be set properly14:53
besser82wiking: you should put that into CTestConfig.cmake14:56
wikingbesser82: tried... doesn't work14:56
besser82wiking: How did you set?14:56
wikingbesser82: SET(CTEST_MEMORYCHECK_SUPPRESSIONS_FILE ${CTEST_SOURCE_DIRECTORY}/configs/valgrind.supp)14:56
besser82wiking: that should be correct so far....14:57
besser82wiking: but it doesn't use it?14:58
wikingnoup14:58
wikingwhen i run this:14:58
wikingctest -D ExperimentalMemCheck -V -R unit14:58
wikingMemory check command: /usr/bin/valgrind "-q" "--tool=memcheck" "--leak-check=yes" "--show-reachable=yes" "--workaround-gcc296-bugs=yes" "--num-callers=50"14:59
wiking316: MemCheck command: /usr/bin/valgrind "-q" "--tool=memcheck" "--leak-check=yes" "--show-reachable=yes" "--workaround-gcc296-bugs=yes" "--num-callers=50" "/home/wiking/shogun/build/tests/unit/shogun-unit-test" "--gtest_filter=MultipleProcessors.*"14:59
wikingas u see suppression is not set at all14:59
besser82wiking: did you find_program(CTEST_MEMORYCHECK_COMMAND NAMES valgrind)  ?15:01
wikingbesser82: valgrind works...15:01
wikingit's not the problem15:01
wikingthe problem is that in DartConfiguration.tcl MemoryCheckSuppressionFile is still empty15:02
besser82wiking: have re-run cmake on an empty build-dir?15:02
besser82and treid?15:02
wikingyep15:02
wikingbeen there done that15:02
wikingok15:04
wikingit's totally different15:04
wikingfigured it out thnx15:04
wikingit's         file(TO_CMAKE_PATH "${CMAKE_SOURCE_DIR}/configs/valgrind.supp" MEMORYCHECK_SUPPRESSIONS_FILE)15:05
wikingin the CMakeLists.txt15:06
besser82wiking: ???15:07
besser82wiking: you need to set this im CMakeLists.txt ???15:07
wikingbesser82: yep15:08
wikingand it works15:08
besser82wiking: strange and weird  :S15:08
wikingwell still that's the way it actually sets the right file in DartConfiguration.tcl15:08
wikingok this is weird15:14
wikingthe MemoryCheckSuppressionFile is only set in DartConfiguration.tcl if i run cmake twice15:14
wikingafter the first run it's not set15:14
wikingah ok15:15
wikingi guess it needs to be in the cache15:15
wiking:P15:15
shogun-buildbotbuild #49 of clang34 - static analysis is complete: Failure [failed analyse]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20static%20analysis/builds/49  blamelist: Viktor Gal <viktor.gal@maeth.com>15:18
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wikingok caching did it's job...15:22
shogun-buildbotbuild #32 of clang34 - undefined behaviour analysis is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20undefined%20behaviour%20analysis/builds/32  blamelist: Viktor Gal <viktor.gal@maeth.com>15:28
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shogun-notifier-shogun: Viktor Gal :develop * 381280c / CMakeLists.txt,configs/valgrind.supp: https://github.com/shogun-toolbox/shogun/commit/381280cbddfed958cbb0082efa4becf04f1727c015:40
shogun-notifier-shogun: Add valgrind suppression file when running ctest memcheck15:40
shogun-notifier-shogun: add strange leaking errors of libxml2 to the suppression file15:40
shogun-buildbotbuild #35 of clang34 - thread analysis is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20thread%20analysis/builds/35  blamelist: Viktor Gal <viktor.gal@maeth.com>15:42
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gsomixhello15:46
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van51hello!16:14
gsomixvan51, yo16:29
wikingthis cmake gdb sucks man16:43
wikingthis is why actually travis timesout16:44
shogun-buildbotbuild #50 of clang34 - static analysis is complete: Failure [failed analyse]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20static%20analysis/builds/50  blamelist: Viktor Gal <viktor.gal@maeth.com>17:48
shogun-buildbotbuild #33 of clang34 - undefined behaviour analysis is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20undefined%20behaviour%20analysis/builds/33  blamelist: Viktor Gal <viktor.gal@maeth.com>18:01
shogun-buildbotbuild #36 of clang34 - thread analysis is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20thread%20analysis/builds/36  blamelist: Viktor Gal <viktor.gal@maeth.com>18:15
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travis-ci[travis-ci] it's Viktor Gal's turn to pay the next round of drinks for the massacre he caused in shogun-toolbox/shogun: http://travis-ci.org/shogun-toolbox/shogun/builds/1181465518:21
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travis-ci[travis-ci] it's Viktor Gal's turn to pay the next round of drinks for the massacre he caused in shogun-toolbox/shogun: http://travis-ci.org/shogun-toolbox/shogun/builds/1181715619:21
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@HeikoSwiking: around?20:00
@HeikoSwiking: how to list the latex errors in doxygen?20:00
wikingHeikoS: yeah i was wondering about that as well20:02
wikinghaven't come up with a solution yet20:02
@HeikoSwiking: ok since I wanted to fix a few ;)20:03
@HeikoSwiking: thanks for the mathjax, thats so much nicer20:05
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shogun-notifier-shogun: Heiko Strathmann :develop * 493d6a8 / src/shogun/statistics/QuadraticTimeMMD.h: https://github.com/shogun-toolbox/shogun/commit/493d6a8f24712eff8d77d31d41efac8b028ea3d320:06
shogun-notifier-shogun: fix latex error in doxygen20:06
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shogun-notifier-shogun: Evgeniy Andreev :develop * 1a937e9 / / (4 files): https://github.com/shogun-toolbox/shogun/commit/1a937e9794554f0497076403079e666f10a8660820:11
shogun-notifier-shogun: add randomized unit-tests for IO, increase precision for ASCII writers20:11
shogun-notifier-shogun: Soeren Sonnenburg :develop * 9e0668e / / (4 files): https://github.com/shogun-toolbox/shogun/commit/9e0668ef6e51c020ccf965ba9c2e549a987fb54420:11
shogun-notifier-shogun: Merge pull request #1679 from gsomix/feature/protobuf20:11
shogun-notifier-shogun:20:11
shogun-notifier-shogun: Unit-tests for IO20:11
gsomixsonney2k, thanks!20:16
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shogun-notifier-shogun: Heiko Strathmann :gp_notebook * ca29809 / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/ca298091156b1871327f864e5147f78d65bbd6d620:41
shogun-notifier-shogun: initial draft for gp notebook20:41
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * ee41942 / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/ee41942828a6baa2399724b47a9a9f8d5e8c035e20:41
shogun-notifier-shogun: some updates on binary classification20:41
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * 792ec82 / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/792ec8205d954614f78c97242b504a2c312097de20:41
shogun-notifier-shogun: some more updates for likelihoods20:41
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * 1ff81ab / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/1ff81ab0a310c5baff9ccc344542ff9fa54447e620:41
shogun-notifier-shogun: another paragraph on inference for binary classification20:41
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * 80ac579 / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/80ac579cc86c7e27da51a33e5b3bfd2301e31ef320:41
shogun-notifier-shogun: some updates on inference and model-selection20:41
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * 238470b / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/238470b99f6692070b02b96bacbf51031319236f20:41
shogun-notifier-shogun: some more things on model-selection with ML220:41
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * 6772bac / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/6772bac11e1d273b0c85f6c5881a543e627f06c620:41
shogun-notifier-shogun: wrote part on toy regression20:41
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * 7432de9 / doc/ipython-notebooks/gaussian_process/gaussian_process_classification.ipynb: https://github.com/shogun-toolbox/shogun/commit/7432de9179cb2d9e054e4bbff4f8182a2718532820:41
shogun-notifier-shogun: -use posterior GP methods that Romand just implemented20:41
shogun-notifier-shogun: -some more updates20:41
shogun-notifier-shogun: Heiko Strathmann :gp_notebook * 12af308 / src/shogun/lib/DataType.cpp: https://github.com/shogun-toolbox/shogun/commit/12af308973d5ff53b486b7d491a8a4e376771c8020:41
lisitsynromand :D20:41
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wikinghaha21:13
wikingwe should do something like this21:13
wikinghttp://www.kaggle.com/c/data-science-london-scikit-learn21:13
shogun-notifier-shogun: Viktor Gal :develop * 0de8b1a / src/shogun/ (3 files): https://github.com/shogun-toolbox/shogun/commit/0de8b1aa9d4299cac62f7e7f6070bd539c9f453f21:20
shogun-notifier-shogun: Fix leaking classes related issue #147721:21
shogun-buildbotbuild #1899 of deb3 - modular_interfaces is complete: Failure [failed test libshogun]  Build details are at http://buildbot.shogun-toolbox.org/builders/deb3%20-%20modular_interfaces/builds/1899  blamelist: Heiko Strathmann <heiko.strathmann@gmail.com>21:22
shogun-buildbotbuild #2286 of deb1 - libshogun is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/deb1%20-%20libshogun/builds/2286  blamelist: Viktor Gal <viktor.gal@maeth.com>21:25
shogun-buildbotbuild #1900 of deb3 - modular_interfaces is complete: Success [build successful]  Build details are at http://buildbot.shogun-toolbox.org/builders/deb3%20-%20modular_interfaces/builds/190021:43
shogun-notifier-shogun: Viktor Gal :develop * cbd2f82 / src/shogun/classifier/vw/VwRegressor.cpp,tests/unit/base/SGObject_unittest.cc: https://github.com/shogun-toolbox/shogun/commit/cbd2f823a0a8d9d3dfadc11667a8591f98640e2921:46
shogun-notifier-shogun: Revert changes in VwRegressor.cpp21:46
shogun-notifier-shogun: fix a small memleak in SGObject.ref_unref unit test21:46
shogun-buildbotbuild #2287 of deb1 - libshogun is complete: Success [build successful]  Build details are at http://buildbot.shogun-toolbox.org/builders/deb1%20-%20libshogun/builds/228721:51
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sonne|osxgsomix: hey there! how is it going?22:32
sonne|osxwiking: any news on anything?22:33
shogun-notifier-shogun: Viktor Gal :develop * eff23a5 / tests/integration/python_modular/CMakeLists.txt: https://github.com/shogun-toolbox/shogun/commit/eff23a5e8d18628eca8a10959aca7fe64430e6fb22:35
shogun-notifier-shogun: Fix typo in tests/integration/python_modular/CMakeLists.txt22:35
shogun-notifier-shogun: this should fix issue #166122:35
wikingsonne|osx: ^22:35
wikingsonne|osx: other than that i'm fixing bugs22:35
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sonne|osx_argh22:37
sonne|osx_this LTE connection sucks22:37
sonne|osx_onne|osx: wiking: and any thoughts - should we just change CSerialiableAsciiFile to write out with %.17g too?22:37
sonne|osx_wiking: how can we enable this check for the unit tests?22:37
sonne|osx_I want to get cyg1 to work22:38
wikingsonne|osx_: we need a macro for this... but i'll do it now22:38
sonne|osx_wiking: kthx22:38
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shogun-buildbotbuild #51 of clang34 - static analysis is complete: Failure [failed analyse]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20static%20analysis/builds/51  blamelist: Evgeniy Andreev <gsomix@gmail.com>22:40
sonne|osxwiking: where do we put the notebooks on the website? Under about / examples?22:43
wikingsonne|osx: imo the current place is good22:43
sonne|osxwiking: where are they currently?22:43
wikingsonne|osx: /static/notebook/...22:43
sonne|osxwiking: well yeah but we have to expose them somehow on the website22:44
wikingwe'll link to that somehow22:44
sonne|osxwiking: I mean they are totally hidden22:44
wikingyes22:44
wikingbut that's another sotry22:44
wiking*story22:44
sonne|osxso I thought About/Notebooks ?22:44
sonne|osxor About / Examples22:44
wikingwe still need to fix how they are generated22:44
wikingas they are buggy atm22:44
sonne|osxwiking: but only some right?22:44
sonne|osxnot all?22:44
wikinghttp://buildbot.shogun-toolbox.org/builders/nightly_default/builds/536/steps/notebooks/logs/stdio22:45
wikinga lot22:45
wikingsee the exceptions22:45
sonne|osxwiking: do we want the test to fail if a notebook generation fails?22:45
sonne|osxIMHO we should do that...22:45
wikingyes22:46
wikingdunno why it's not doing it22:46
sonne|osxwiking: I disabled that - there is a22:46
sonne|osx|| true in the script22:46
sonne|osxwiking: btw any idea how to strip of that crappy ansi stuff from the exception22:46
sonne|osxit makes it so hard to read22:46
wikingnowidea22:47
sonne|osxlooks like it is just dependencies22:47
sonne|osxQuadraticMMD not known22:47
wikingsonne|osx: and as well missing the data dir...22:48
wikingetc.22:48
sonne|osxno22:48
sonne|osxdata dir is there22:48
wikingsonne|osx: Exception: ['\x1b[1;31m---------------------------------------------------------------------------\x1b[0m\n\x1b[1;31mOSError\x1b[0m                                   Traceback (most recent call last)', "\x1b[1;32m<ipython-input-4-eaf8f3665f21>\x1b[0m in \x1b[0;36m<module>\x1b[1;34m()\x1b[0m\n\x1b[0;32m      1\x1b[0m \x1b[1;31m# change to the shogun-data directoy\x1b[0m\x1b[1;33m\x1b[0m\x1b[1;33m\x1b[0m\x1b[0m\n\x1b[0;32m      2\x1b[0m \x1b[1;32mimport22:49
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wikingcertainly not...22:49
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wikingas it cannot find ../../../data/ica22:49
sonne|osxgtg22:49
sonne|osxbrb22:49
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shogun-buildbotbuild #43 of debian wheezy - memcheck is complete: Failure [failed memory check]  Build details are at http://buildbot.shogun-toolbox.org/builders/debian%20wheezy%20-%20memcheck/builds/43  blamelist: Evgeniy Andreev <gsomix@gmail.com>, Soeren Sonnenburg <sonne@debian.org>22:50
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@iglesiasggood evening guys22:52
wikingo22:54
gsomixiglesiasg, yo22:55
gsomixsonney2k, am doing some things related to university22:56
@sonney2kwiking, ahh I get it!23:02
@sonney2kwiking, easy to fix23:02
@sonney2kwiking, btw do we want to reproduce the structure of the notebooks on the website?23:03
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@sonney2kwiking, I mean all in one dir or subdirs?23:03
wikingnono it's ok in one dir23:03
wikingno need to for the dir struct23:03
@sonney2kwiking, ok23:05
@sonney2kgsomix, don't forget to submit your eval!23:05
@sonney2kgsomix, otherwise no money23:05
gsomixsonney2k, already submitted23:06
@sonney2kwiking, ok I fix this and you please give me the gdb for the unit :)23:06
@sonney2kgsomix, excellent23:06
* sonney2k checks if sb else is still missing23:06
@sonney2kvojtakovr didn't23:07
@sonney2kohh man if he doesn't by end of tomorrow == no money23:07
wikingsonney2k: we'll see about that gdb... atm i'm not so convinced the way it is written... the cmake fil23:07
@sonney2kwiking, what is wrong? you can do a function if you prefer but the rest is OK no?23:13
wikingno23:15
wikingit's really not ok the way it's written...23:15
wikingif it would be ok it owuld be working...23:15
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gsomixgood night23:26
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@HeikoSwiking: around?23:28
shogun-buildbotbuild #52 of clang34 - static analysis is complete: Failure [failed analyse]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20static%20analysis/builds/52  blamelist: Soeren Sonnenburg <sonne@debian.org>23:30
wikingHeikoS: ye23:31
@HeikoSwiking: so whats with this weird time out issue23:32
@HeikoSwiking: In the logs, only a few tests took long23:32
wikingHeikoS: TRY TO RUN23:32
@HeikoSwiking: tester.py runs totally fine locally23:32
@HeikoSpython tester.ty23:32
wiking python_modular-modelselection_grid_search_krr_modular23:32
@HeikoSwiking: yeah I know, currently editing23:32
@HeikoSjust compute less things, is expensive to do this in debug mode23:32
wikingok other than that i've fixed the other problems i was writing about23:33
@HeikoSwiking: ok23:33
@HeikoSwhich other tests take too long?23:33
@HeikoSall grid-search ones?23:33
wikingwell i couldn't find out23:33
wikingthis one basically got stuck23:33
wiking10+ mins and it was still running23:33
@HeikoSwiking: ok23:35
@HeikoSpushing a fix ...23:35
@HeikoSwiking: mathjax is cool! btw23:36
shogun-buildbotbuild #34 of clang34 - undefined behaviour analysis is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20undefined%20behaviour%20analysis/builds/34  blamelist: Evgeniy Andreev <gsomix@gmail.com>, Soeren Sonnenburg <sonne@debian.org>23:40
hushellMay I ask a question guys? I refactored a class, but the python modular still look for a delete function: modshogunPYTHON_wrap.cxx: In function 'PyObject* _wrap_SOSVMHelper_add_primal(PyObject*, PyObject*)':23:42
@HeikoSwiking: no its not as you say it on my machines.23:42
@HeikoSwiking: make test runs fine and fast until nr. 97 from which every one takes 70 secs23:43
hushellI have 'make clean', but doesn't helpful23:43
@HeikoSbut python tester.py is fast23:43
@HeikoShushell: try deleting the file23:43
@HeikoShushell: build/src/interface/python_modular/modshogun*.cxx23:43
hushellHeikoS: I tried, rm modshogunPYTHON_wrap.cxx23:43
wikingHeikoS: have u pull the last commit?23:43
@HeikoShushell: and you might also have to delete /usr/local/include/shogun23:43
@HeikoShushell: thats a known issue https://github.com/shogun-toolbox/shogun/issues/165523:44
@HeikoSwiking: let me try23:44
@HeikoSwiking: when did you push?23:45
@HeikoSdo I need to re-run anything?23:45
hushellI thought might be it looks for system directory, so I first make without python_modular and make install23:45
@HeikoShushell: no its the local isntallation23:45
@HeikoShushell: remove it, and doa new build, then this will be gone23:45
hushellokay, let me try :)23:46
hushellHeikoS: Thanks!23:46
@HeikoSwiking: ah cool, your patch solved the form97 issue23:47
@HeikoSwiking: lol, the model-selection tests that take so long to run do not output anything, so the test always passes if the program doenst crash23:49
@sonney2kwiking, ok most notebooks run now23:50
wikingsonney2k: gr823:51
@sonney2k     44 # gradient descent on marginal likelihood23:51
@sonney2k---> 45 grad_search = GradientModelSelection(root, grad)23:51
@sonney2k     4623:51
@sonney2k     47 # Set autolocking to false to get rid of warnings23:51
@sonney2kNotImplementedError: Wrong number or type of arguments for overloaded function 'new_GradientModelSelection'.23:51
@sonney2k  Possible C/C++ prototypes are:23:51
@sonney2k    shogun::CGradientModelSelection::CGradientModelSelection()23:51
@sonney2k    shogun::CGradientModelSelection::CGradientModelSelection(shogun::CMachineEvaluation *,shogun::CModelSelectionParameters *)23:51
@sonney2k    shogun::CGradientModelSelection::CGradientModelSelection(shogun::CMachineEvaluation *)23:51
wikingsonney2k: NLOPT23:51
@sonney2kHeikoS,     notebook gp_regression fails23:51
@HeikoSsonney2k: delete it23:51
wikingsonney2k: we'll need to bundle it23:52
@sonney2kwiking, ahh ok23:52
@HeikoSsonney2k: will be replaced by the new all in one GP one23:52
@sonney2kwiking, well nlopt is in newer debian so we can fix it23:52
@sonney2kiglesiasg, LMNN fails too23:52
@sonney2kHeikoS, well then rather replace it yourself now23:55
@HeikoSsonney2k: not ready yet, but I can delete the old ones23:56
shogun-buildbotbuild #37 of clang34 - thread analysis is complete: Failure [failed test]  Build details are at http://buildbot.shogun-toolbox.org/builders/clang34%20-%20thread%20analysis/builds/37  blamelist: Evgeniy Andreev <gsomix@gmail.com>, Soeren Sonnenburg <sonne@debian.org>23:56
@sonney2kHeikoS, the old one - singular right?23:57
@HeikoSsonney2k: no, both the classification and the regression ones can go23:57
@sonney2kHeikoS, then remove them23:57
@sonney2kwiking, nlopt is installed on that machine btw23:58
@sonney2kHeikoS, is the logdet.ipynb yours?23:58
@sonney2kit says it is not valid JSON and is dying23:58
@HeikoSsonney2k: thats rahul's, why?23:59
@sonney2kIPython.nbformat.current.NotJSONError: Notebook does not appear to be JSON: u'{\n "metadata": {'23:59
@HeikoSsonney2k: no idea, will check in a bit23:59
--- Log closed Fri Sep 27 00:00:06 2013