Open in new window / Try shogun cloud
--- Log opened Wed May 17 00:00:33 2017
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@sukeyPull Request #3812 "Add global fixture with binary label data"  synchronized by MikeLing - https://github.com/shogun-toolbox/shogun/pull/381205:41
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mikelingwiking: ping08:34
@wikingpong08:35
mikelingwiking: what's this error for? https://ci.appveyor.com/project/vigsterkr/shogun/build/4.2.736/job/153p5yu4py10h3i8#L666008:36
mikelingand on Travis CI, I guess  it doesn't build with the latest commit08:49
mikelingthe format error is about f101fd9142e0eeeafeaff160456343821c4dcd5a https://travis-ci.org/shogun-toolbox/shogun/jobs/233082415#L531,08:50
mikelingbut the latest one is f2ec710cbd354d29bd68676d60bf5213a471c7ab08:51
mikelingand I had check my pr's format locally before I push it. I don't think there are any format issue08:51
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@wikingmikeling, i can try restarting it as it seem some internal error09:12
@wikingmmm there seems to be09:12
@wikinghttps://travis-ci.org/shogun-toolbox/shogun/jobs/233082415#L53609:12
@wikingwhich is this pr?09:13
@sukeyPull Request #3813 "Modify check_format.sh so that it can be used on local environments."  merged by vigsterkr - https://github.com/shogun-toolbox/shogun/pull/381309:14
@sukeyNew Commit "Merge pull request #3813 from geektoni/patch-1409:14
@sukeyModify check_format.sh so that it can be used on local environments." to shogun-toolbox/shogun by vigsterkr: https://github.com/shogun-toolbox/shogun/commit/a0da9f8f60d18c2954d886a42221f2610dec1dcc09:14
@sukeyPull Request #3815 "Minor fix to .clang-format."  merged by vigsterkr - https://github.com/shogun-toolbox/shogun/pull/381509:14
@sukeyNew Commit "Merge pull request #3815 from geektoni/patch-1609:14
@sukeyMinor fix to .clang-format." to shogun-toolbox/shogun by vigsterkr: https://github.com/shogun-toolbox/shogun/commit/929c1951d6213256611e0de5a047e11465a33eba09:14
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mikelingwiking:09:19
mikelingbut the latest commit is da7b06f29e8141ca9adf0ca08dc605add66a45cd09:19
@wikingchecking sorry09:19
mikelingit seems like Travis CI stop synchronizing the pr09:23
@wikingok but that one has again some formating error09:23
@wikingmmm lemme close open09:23
@wiking:)09:23
@sukeyPull Request #3812 "Add global fixture with binary label data"  closed by vigsterkr - https://github.com/shogun-toolbox/shogun/pull/381209:24
@sukeyPull Request #3812 "Add global fixture with binary label data"  reopened by vigsterkr - https://github.com/shogun-toolbox/shogun/pull/381209:24
@wikingmmm09:24
@wikingdidn't help the trigger09:24
@wikingok i'll do it manually on travis09:24
@wikingoh no it triggerd09:24
@wikingok rebuilding09:24
@wikingbut this is wrong no?09:25
@wikingah no09:25
@wikingit's ok09:25
mikelingwiking: thank you!09:25
@wikinglet's see09:25
@wikingnw09:25
@sukeyPull Request #3812 "Add global fixture with binary label data"  synchronized by MikeLing - https://github.com/shogun-toolbox/shogun/pull/381209:27
@wikingmm09:32
@wikingah you've just pushed something09:32
@wiking:)))09:32
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mikelingyep, because I found there are some conflict with the pr you just merged09:33
@wikingkk09:34
@wikingit's trying to build it09:34
mikelingnot actually a conflict09:34
mikelingnot actually a conflict09:34
mikelingbut it has some overlap part with the merged pr on clang-format09:35
mikelingso I just pull rebase and push it again :)09:35
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mikelingDo we need to retrigger it now? again?09:36
@wikingno09:37
@wikingit triggered itself09:37
@sukeyPull Request #3816 "Refactor Some<> to make it a bit more standalone. "  opened by geektoni - https://github.com/shogun-toolbox/shogun/pull/381610:20
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mikelingwiking: so it still doesn't work for the clang format :(11:03
mikelinghttps://travis-ci.org/shogun-toolbox/shogun/jobs/233127560#L53511:03
@wikingyes11:03
mikelingbut latest one is b8c08f24a787e19010bfe92b5ea8305ed870e901 https://github.com/shogun-toolbox/shogun/commit/3d4b581ac21def962499cc17616dd49bbf0ab26711:03
@wikingthe question is that have you ran that locally?11:03
@wiking??11:04
@wikingyour latest is this11:04
@wikinghttps://github.com/shogun-toolbox/shogun/pull/3812/commits/b8c08f24a787e19010bfe92b5ea8305ed870e90111:04
mikelingyep  https://pastebin.mozilla.org/902196611:04
@wikingfor me based on the error11:04
@wikingit looks as if you are using spaces maybe11:04
@wikinginstead of tab?11:05
@wikingbut actually11:06
mikelingI just check it and yes. But it's auto modified by clang-format :/11:06
@wikingyour formatting based on the eror11:06
@wiking*error is wrong11:06
@wiking:)11:06
@wikingthe diff clearly states it11:07
@wiking-protected:11:07
@wiking-    std::shared_ptr<BinaryLabelDatas> mBinaryLabelData;11:07
@wiking+protected:11:07
@wiking+std::shared_ptr<BinaryLabelDatas> mBinaryLabelData;11:07
@wiking };11:07
mikelingmmmm, so just use 'git clang-format-3.8 --commit  --binary /usr/bin/clang-format-3.8' wasn't necessary to fix the format error11:10
@wikingi mean what is required11:12
@wikingthat you run clang-format11:12
@wikingon your code11:12
@wikingand see if there's any error11:12
@wikingmikeling, have you seen this: https://github.com/shogun-toolbox/shogun/pull/3814/files11:16
@wiking./scripts/check_format.sh "feature/BRANCH_NAME" "develop"11:16
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@wikinganybody here worked with kalman filters in the past?11:20
@wikingi have some very simple questions :)11:21
@iglesiasgwiking: let's talk about it11:24
@wikingok so i'm wodnering that say you have 2 signals11:25
@wikingor random variables right11:25
@wikingand i wanna train a kalman filter11:25
@wikingfor that state space11:25
@wikingwhere11:25
@wikingthe states of the filter is going to be the parameters of the linear model no?11:26
@iglesiasgusually state refers to the hidden variables11:27
@wikingyeah11:27
@wikingbut those hidden vars11:27
@wikingare actually the params of a linear model11:27
@wikingno?11:27
@wikingi mean the kalman filter assumes linearity and gaussian noise11:28
@wikingright?11:28
@iglesiasgI think with parameters people normally refer to the transition and measurement models11:28
@iglesiasgso you have something like11:28
@iglesiasgx_k = F*x_{k-1} + v_k11:29
@iglesiasgy_k = G*x_k + w_k11:29
@wikingyeah11:29
@wikingv_k and w_k are the gaussian noise11:29
@wikingright?11:29
@iglesiasgcorrect11:29
@iglesiasgzero-mean Gaussian noise11:29
@wikingyeah11:29
@iglesiasgparameterized by covariance matrices11:29
@wikingF is the transition matrix right?11:30
@iglesiasgthose covariance matrices, together with the transition matrix F and the measurement matrix G are usually called model parameters11:30
@wikingso how do you transfer from state k-1 -> k11:30
@iglesiasgyes11:30
@iglesiasgI suppose if you want to apply learning in a Kalman filtering context so want to use some data to estimate F, G, and the covariance matrices of v and w11:31
@wiking mmmm for v and w i have ideas11:31
@iglesiasgok!11:31
@wikingbut yeah i'm just wondering about F and G11:31
@iglesiasgoh I see11:31
@wikingbut on the end of the story11:32
@wikingusing the learnt model/filter11:32
@wikingyou'll get x_k11:32
@wikingright?11:32
@wikingyour sate11:32
@wiking*state11:32
@wikingso i k time you have the kth state of x11:32
@iglesiasgin the standard filtering setting (Kalman is optimal in the linear-Gaussian case), all those are given (not to be estimated/learnt). The filtering algorithm estimates x over time based on y11:32
@iglesiasgyeah, right11:33
@iglesiasgthere are some methods that do the more complicated problem of filtering together with learning11:33
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@HeikoSEM11:36
@wikingyeah em11:36
@HeikoSworks well11:37
@HeikoSjust need to re-run a few times11:37
@iglesiasgparticle mcmc are very nice too, suitable for harder problems11:39
@HeikoSyou can even use kernel particle smc :D11:40
@HeikoSand cite my papers muhahahaha11:40
@HeikoSbut I would rather ran EM11:40
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@wiking:)11:43
@wikingHeikoS, so you resurrect day after tomorrow?11:43
@HeikoSsunday11:44
@HeikoSfirday evening is deadline11:44
@HeikoSsat I am away11:44
@HeikoSbut then :D11:44
@wiking:>>11:44
@wikingok11:44
@wikingHeikoS, godspeed11:44
@HeikoSthanks11:45
@HeikoSand sorry for long outtime11:45
@wikingHeikoS, dont https://www.youtube.com/watch?v=OR6jEdq2Bew11:45
@wiking:)11:45
@wikingmay 28th is the concert ... fly over :)11:45
@wiking(psy rock)11:46
@HeikoShaha ...11:46
@HeikoSIm in Berlin then :)11:46
@wikingbtw11:50
@wikingthis is from scijs:11:50
@wiking[07:15]  <Bondifrench> Hi, noob here at using javascript ndarrays11:50
@wiking[07:16]  <Bondifrench> to do pca (principal component analysis) using ndarray, what's the best procedure/package?11:50
@wikingi.e. we need JS wrapper :)11:50
@HeikoSjes!11:52
@HeikoSdefinitely!11:52
@HeikoSdid I ever mention how much python sucks ?11:52
@wiking:>>>>>>>>>>>>>>>>>>>>11:52
@HeikoSI am really sick of this11:53
@HeikoStime for a new language11:53
@HeikoSfor me11:53
@HeikoSbut dont know what11:53
@wikingjulia :)11:53
@wikingllvm is cool11:53
@HeikoSmaybe Ill do that11:54
@HeikoSsigh11:54
@HeikoSneed to write so much code from scratch then :/11:54
@wiking:<11:55
@HeikoSalso I have the feeling that this might be at the same point in a few years time11:56
@HeikoSgiven the package managment they do, and all the writing all the software from scratch again11:56
@HeikoSby scientists mostly11:56
@HeikoSok coffee break11:57
@HeikoSsee you later11:57
@wikingHeikoS, heheh but py and js packaging11:57
@wikingis like back in 1980s11:57
@wiking:)11:57
@iglesiasgHeikoS: return to matlab? ^_^11:58
@wiking:D11:59
@wikingthey dont even try to have packaging11:59
@wiking:))))11:59
@wikingit's either in matlab11:59
@wikingor you are fucked11:59
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@sukeyIssue #3817 "Thread safety with trace memory allocs" opened by iglesias - https://github.com/shogun-toolbox/shogun/issues/381713:11
@sukeyIssue #3817 "Thread safety with trace memory allocs" assigned to: iglesias by iglesias - https://github.com/shogun-toolbox/shogun/issues/381713:11
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@sukeyPull Request #3812 "Add global fixture with binary label data"  synchronized by MikeLing - https://github.com/shogun-toolbox/shogun/pull/381213:36
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@iglesiasgTingMiao: Hey!13:54
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@iglesiasgTingMiao: might be interesting for your project: https://twitter.com/imadali/status/86427730931401932913:55
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@sukeyIssue #3817 "Thread safety with trace memory allocs" assigned to: vigsterkr by iglesias - https://github.com/shogun-toolbox/shogun/issues/381714:10
@iglesiasgwiking: ^ it is beating me so far14:10
@wiking:)14:11
@sukeyPull Request #3812 "Add global fixture with binary label data"  synchronized by MikeLing - https://github.com/shogun-toolbox/shogun/pull/381214:35
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geektonihey! Does anybody here use Ubuntu to develop Shogun? :P15:38
@wikingyes15:38
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geektoniwiking: oh nice! :D which IDE do you usually use?15:39
@wikingvim15:39
@wikingno ide15:40
geektonihardcore developer? ;)15:40
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@wiking:D15:41
geektonihow can you be productive with THAT?15:42
geektoniI mean15:42
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geektoniVIM is *the* editor15:42
geektonibut I can't imagine to work on a huge project with it.15:43
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@wiking:)15:49
@wikingit's a matter of opinion15:49
@wikingso feel free to use some other tool of course :)15:49
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lisitsynYUUUUUGEEE15:50
@wiking:>>>>>>>>>>>>15:50
@wikinghuge15:50
@wiking:)15:50
lisitsynI can't imagine working on yuuuge project with IDE15:50
lisitsynporque they die :P15:50
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@wiking:D15:51
mikelinggeektoni: I use visual studio code BTW:)15:52
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geektoniI was searching for good code refactoring tools, actually. ;)15:59
@wikingcline16:00
@wikingor what16:00
@wikingtry that :)16:00
geektonimikeling: thanks! I'll take a look :D16:00
geektonilisitsyn: wat ? xD16:01
lisitsynrefactoring for C++?16:02
lisitsyn:P16:02
geektonilisistsyn: yes, since I will do mostly refactoring activities I would like to have a tool which can help me speed up the job.16:04
geektonilisitsyn ^16:04
lisitsynI am not optimistic about that16:05
lisitsynprobably all the available tools can do only trivial things16:05
geektoniyeah, sure.16:11
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olinguyenI have a question regarding development environment. The MIMIC database runs on a PostgreSQL server (it is quite large). I've got the server running independently, and Shogun working with Docker. [11:07] <olinguyen> Do you have any experience integrating the two?17:10
@HeikoSolinguyen: so the way to input data into shogun atm is via the features class17:11
@HeikoSwiking: how is the re-factored csv reader going?17:11
@HeikoSolinguyen: there are a few file formats shogun can read, but there was a problem I remember17:11
@HeikoSolinguyen: I guess you will have to write some gluing code17:11
@HeikoSi.e. extract data from your server, and store it either in files that shogun can read, or write a file-loader that can talk to such databases in shogun (much cooler)17:12
@HeikoSolinguyen: how much data are we talking about?17:13
olinguyenLet me double check17:13
olinguyenThe entire dataset (MIMIC-II) is over 100 GB.17:15
@HeikoSolinguyen: do you already have a plan what parts of that you want to use?17:16
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@HeikoSsince all might be a bit ambituous? ;)17:16
olinguyenYea, i have a rough idea. It will probably be simplest to take a subset of the data and store that in a easier to use format17:17
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@HeikoSolinguyen: I think that is a good start17:18
@HeikoSbut we might want to run some larger models on larger amounts of data (shogun can do some amount of streaming)17:19
@HeikoSso good to think about that17:19
olinguyenThanks! I'll start that way but keep that in mind17:19
@HeikoSolinguyen: it would be really useful if you could write a summary of the data you want to use for (a) proof of concept (b) during the project and (c) optionally more if time allows17:19
@HeikoSboth in terms of number of data and features to use17:19
olinguyenSounds good ;)!17:21
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@sukeyPull Request #3816 "Refactor Some<> to make it a bit more standalone. "  merged by vigsterkr - https://github.com/shogun-toolbox/shogun/pull/381619:01
@sukeyNew Commit "Merge pull request #3816 from geektoni/patch-1719:01
@sukeyRefactor Some<> to make it a bit more standalone." to shogun-toolbox/shogun by vigsterkr: https://github.com/shogun-toolbox/shogun/commit/1a24c625612aad0d74b0a8cac99265254293c4f419:01
lisitsynYAY19:01
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@wikinglet it rumble19:09
@wiking:)19:09
lisitsynwiking: this guy geektoni fixed it instead of blaming me :P19:09
@wikingsee19:10
@wikingamazing stuff :)19:10
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TingMiaoiglesiasg Thank you for the twitter!20:29
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