Open in new window / Try shogun cloud
--- Log opened Sat Nov 15 00:00:09 2014
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shogun-buildbotbuild #933 of nightly_default is complete: Failure [failed notebooks]  Build details are at http://buildbot.shogun-toolbox.org/builders/nightly_default/builds/933  blamelist: Esben Sorig <esben@sorig.eu>, Fernando Iglesias <fernando.iglesiasg@gmail.com>03:57
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@iglesiasgwiking: any idea if github.com/shogun-toolbox/shogun/issues/2619 can be related to swig 3?12:59
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yalcinmhello iglesiasg13:05
yalcinmhello iglesiasg, are you there now?13:06
yalcinmcan you help me to install python-modular with Cygwin64 Terminal13:09
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@iglesiasgyalcinm: hey, yep here I am13:18
@iglesiasgyalcinm: mm I have no idea about cygwin, weren't you using ubuntu?13:18
yalcinmyes, I'm using ubuntu on vmware / windows 813:19
yalcinmI taught cygwin might be easier13:19
yalcinmok13:19
@iglesiasgyalcinm: ubuntu should be easiest13:19
@iglesiasgyalcinm: all right, so you did a git clone of shogun somewhere, right?13:20
yalcinmyes13:20
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yalcinmlets make it clear, you mean if I have latest shogun files on my computer right?13:20
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yalcinm..13:21
@iglesiasgyalcinm: well, I put it as clear as possible :-)13:21
yalcinm..13:21
@iglesiasgdid you do13:21
yalcinmyes13:21
@iglesiasggit clone <repository where shogun is>13:21
@iglesiasgit can be the main shogun repo, or a fork you may have done in github13:21
@iglesiasgyalcinm: http://git-scm.com/book/en/v2/Git-Basics-Getting-a-Git-Repository. What I am asking you about corresponds to the part under "clining an existing repository"13:22
@iglesiasgcloning*13:22
yalcinmclone in desktop button you mean :)13:23
@iglesiasgnot really13:24
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yalcinm$ git clone https://github.com/libgit2/libgit213:25
yalcinmwill I type this in the ubuntu terminal?13:26
@iglesiasgyou should substitute that url by the one corresponding to Shogun's repository13:26
yalcinmof cource, ok13:26
@iglesiasgwhich you can find here: github.com/shogun-toolbox/shogun13:26
@iglesiasgyou may have your own fork of that though, and prefer to use that one. If you don't know what a fork is, never mind for the moment and read about it later13:27
yalcinmok13:28
yalcinmgit clone https://github.com/shogun-toolbox/shogun13:32
yalcinmok I made it13:32
yalcinmshogun is cloned13:32
yalcinmiglesiasg: now?13:33
@iglesiasgyalcinm: I understand you already installed the packages that Esben mentioned: github.com/shogun-toolbox/shogun/issues/2617#issuecomment-6306691313:34
yalcinmyes13:35
@iglesiasgyalcinm: thus, you should be ready to follow github.com/shogun-toolbox/shogun/wiki/QUICKSTART#compile-and-install-shogun-toolbox-into-home-directory13:35
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@iglesiasgsubstitut shogun-3.1.1 by the name of the directory created by git clone13:35
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@iglesiasgyalcinm: include the -DPythonModular=ON if you want so (or any other interface for that matter)13:36
yalcinmiglesiasg: cmake -DPythonModular=ON -DCMAKE_INSTALL_PREFIX="$HOME/shogun-install" ..13:36
yalcinmis this enough?13:36
yalcinmI will create a directory named build then I will use this command13:37
yalcinmright?13:37
yalcinmiglesiasg: ?13:37
@iglesiasgI think you should be good to go like that, yes13:37
@iglesiasgmkdir build13:37
@iglesiasgcd build13:37
yalcinmyes13:37
@iglesiasgcmake -DPythonModular=ON -DCMAKE_INSTALL_PREFIX="$HOME/shogun-install" ..13:37
yalcinmwhat is isfinite13:38
@iglesiasga function13:38
yalcinmI remember that last time I cmake, it was saying it is not found13:38
yalcinmhow can I install it13:38
@iglesiasgshold be fine13:38
yalcinmthere is no need to install it?13:38
@iglesiasgcopy somewhere the output of cmake and let me see it if you are unsure whether it went all right13:38
yalcinmok13:39
@iglesiasgwith somehwere I mean either gist or pastebin13:39
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yalcinmiglesiasg: http://pastebin.com/NWEVB6AV13:41
yalcinmiglesiasg: this is the result13:41
yalcinmiglesiasg: is it okay?13:42
@iglesiasgyalcinm: it seems you don't have swig installed13:42
@iglesiasgnot python either...13:42
@iglesiasgwell, python libraries13:42
@iglesiasgI am copy+pasting from the quickstart, look13:43
@iglesiasgDepending on the enabled interfaces you may need: swig 2, r-base-dev, liboctave-dev, openjdk-6-jdk/openjdk-7-jdk, jblas, jblas-dev, python2.7-dev, python-numpy13:43
@iglesiasgsince you have done PythonModular=ON13:43
yalcinmiglesiasg: I have it,13:44
yalcinmuser@ubuntuvm:~/shogun/build$ sudo apt-get install swig2.0 Reading package lists... Done Building dependency tree        Reading state information... Done swig2.0 is already the newest version. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.13:44
@iglesiasgthat means you need swig 2 (swig is the program we use so that our C++ code can be used from e.g. Python, Java, Lua, etc), python2.7-dev, python-numpy13:44
yalcinmiglesiasg: when type sudo apt-get install swig2.013:44
@iglesiasgyalcinm: what?13:44
yalcinmiglesiasg: when type sudo apt-get install swig2.013:45
yalcinmiglesiasg: it says swig2.0 is already the newest version.13:45
@iglesiasgcan you execute swig.20 from your terminal?13:45
@iglesiasgjust to check that it is properly installed and visible in your path13:45
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yalcinmhow can I check it?13:45
yalcinmwhat should I type in the terminal?13:46
@iglesiasgswig2.013:46
@iglesiasgand press enter13:46
yalcinmswig2.013:46
yalcinmiglesiasg: it says "Must specify an input file. Use -help for available options."13:46
@iglesiasggood sign13:46
@iglesiasgall right13:46
@iglesiasgcd ..13:46
@iglesiasgrm -rf build13:46
@iglesiasgmkdir build13:46
@iglesiasgcd build13:46
@iglesiasgcmake -DPythonModular=ON -DCMAKE_INSTALL_PREFIX="$HOME/shogun-install" ..13:47
@iglesiasgbut install the other python packages I told you about before, please13:47
@iglesiasgthe ones mentioned in the quickstart13:47
yalcinmok13:47
yalcinmiglesiasg: sudo apt-get install cmake gcc g++ clang  ldd wget curl tar bzip2 bash grep test sed cut awk ldd uname cat python-2.713:49
yalcinmiglesiasg: will this work?13:49
@iglesiasgno13:49
@iglesiasgpython2.7-dev, python-numpy13:50
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yalcinmsudo apt-get install cmake gcc g++ clang  ldd wget curl tar bzip2 bash grep test sed cut awk ldd uname cat python-2.7-dev python-numpy lapack3-dev atlas3-headers atlas3-base-dev libeigen3-dev r-base-dev liboctave-dev openjdk-6-jdk openjdk-7-jdk jblas jblas-dev13:51
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yalcinmiglesiasg: sudo apt-get install cmake gcc g++ clang  ldd wget curl tar bzip2 bash grep test sed cut awk ldd uname cat python-2.7-dev python-numpy lapack3-dev atlas3-headers atlas3-base-dev libeigen3-dev r-base-dev liboctave-dev openjdk-6-jdk openjdk-7-jdk jblas jblas-dev13:52
yalcinmiglesiasg: ?13:53
yalcinmiglesiasg: ?13:55
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@iglesiasgyalcinm: man, haven't you already installed like half of those libraries already?13:55
yalcinmyes I did13:56
@iglesiasgtry to think about what each of the things you type do, that will save you some time when things go wrong13:56
@iglesiasgbefore, I meant you only had to install python-numpy python-2.7-dev13:57
@iglesiasgso, sudo apt-get install python-numpy python-2.7-dev13:58
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yalcinmthey are already installed14:01
yalcinmsudo apt-get install ldd14:01
yalcinmwhat is wrong with this? sudo apt-get install ldd14:01
yalcinmiglesiasg: it says E: Unable to locate package ldd14:02
@iglesiasgyalcinm: the package that contains ldd is not called ldd14:05
@iglesiasgI am guessing it is build-essential or any of those14:05
@iglesiasgnot sure why are you worried about that right now though14:05
@iglesiasgcan you use ldd? Type ldd on your terminal14:05
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yalcinmiglesiasg: yes I can use ldd14:06
yalcinmiglesiasg: what about E: Unable to locate package python-2.7-dev E: Couldn't find any package by regex 'python-2.7-dev'14:06
@iglesiasgyalcinm: that I spelled it wrong, it is python2.7-dev14:07
yalcinmiglesiasg: Package lapack3-dev is not available, but is referred to by another package. This may mean that the package is missing, has been obsoleted, or is only available from another source  E: Package 'lapack3-dev' has no installation candidate14:08
@iglesiasgfor these things, it is useful to use apt-cache search <terms to search for>14:08
@iglesiasgyalcinm: before installing lapack (or any other optinal dependency for that matter), I'd think if I need it14:09
@iglesiasgyalcinm: what do you want use Shogun for? Does that part you want it for depend on lapack?14:10
yalcinmI'm trying to install them because they are stated in the quickstart14:10
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@iglesiasgOptional libraries to improve performance: lapack3-dev, atlas3-headers, atlas3-base-dev, libeigen3-dev14:10
yalcinmI will use shogun for mutiple kernel learning iglesiasg14:10
yalcinmyes14:11
@iglesiasg**optional**14:11
@iglesiasganyway, never mind14:11
yalcinmok14:11
yalcinm:)) I want it to work this time14:11
yalcinmiglesiasg:14:11
@iglesiasgthe lapack3-dev package thing can be because the package name has changed, it is called in a different way in yor distro, whatever other reason14:11
yalcinmok should I continue with cmake ....14:12
@iglesiasgapt-cache search lapack-dev gives me liblapack-dev14:12
@iglesiasgyalcinm: in any case, if you look at your cmake log, the one you pasted before, you can see that lapack is under libraries found14:12
@iglesiasgwhich makes me wonder why are you still concerned about installing it14:13
yalcinmsudo apt-get install liblapack-dev is also installed14:13
yalcinmiglesiasg: should I continue to cmake process no?14:14
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@iglesiasgyalcinm: yeah, try again and see if cmake is happy with everything (swig, python complaints that appeared before)14:15
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@iglesiasgyalcinm: start with a clean build directory14:16
@iglesiasgrm -rf build14:16
@iglesiasgmkdir build && cd build14:16
@iglesiasgetc14:16
yalcinmiglesiasg: http://pastebin.com/42Swiryj14:20
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@iglesiasgyalcinm: it looks good to me now14:26
@iglesiasgyalcinm: what is the output of nproc?14:26
yalcinmwhat is nproc?14:27
yalcinmiglesiasg: output is 114:27
@iglesiasgdo nproc in your terminal to see the number of processors14:28
yalcinmiglesiasg: output is 114:28
@iglesiasgall right, then just type make14:28
yalcinmmake -j5 all14:28
yalcinm?14:28
yalcinmor just make?14:28
@iglesiasg-j5 determines that make should be run using 5 jobs in parallel, since your machine seems to have only one processor, make is just fine14:29
@iglesiasgmake and make all should do pretty much the same (maybe? :D14:29
yalcinmiglesiasg: ok14:30
yalcinmafter this? make install iglesiasg14:30
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yalcinmiglesiasg: after this? will I do "make install"14:31
yalcinm?14:31
@iglesiasglet's see how this one goes first14:31
@iglesiasgbut yeah, as the quickstart says14:31
yalcinmit's very slow14:32
yalcinmit's %214:32
yalcinmand the time here, is 5:31 AM14:32
yalcinmshogun took all of my day and night14:32
yalcinmiglesiasg: so I will leave it, and go to sleep now14:33
yalcinmiglesiasg: how will I know if it is okay or not after make finishes?14:33
@iglesiasgif there's been no error14:34
yalcinmok14:34
yalcinmiglesiasg: thank you very much, I will let you know on github issue page14:34
yalcinmhave a nice day14:34
@iglesiasgCool. Thank you. You too14:35
@iglesiasgHave a nice sleep :)14:35
@iglesiasgyalcinm: what timezone are you in btw?14:35
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yalcinmiglesiasg: Pacific Time Zone (UTC-08:00)14:36
@iglesiasgah cool14:36
@iglesiasgI think I was in that one three weeks ago14:36
@iglesiasgI went to CA14:36
yalcinmyeah, I live in Los Angeles, where were you?14:37
yalcinmwhere do you live?14:37
@iglesiasgSan Jose and San Francisco14:37
yalcinmcool14:37
@iglesiasgfor this Google Summer of Code summit, don't know if you have heard about it14:37
yalcinmI guess14:38
yalcinmwhere do you live?14:38
yalcinmiglesiasg: ?14:38
@iglesiasgthe Netherlands14:38
yalcinmcool14:38
@iglesiasgin the east of the country, next to the German border14:38
yalcinmI have friends from Netherlands14:39
yalcinmtalk to you later14:39
yalcinmthank you very much for your help14:39
@iglesiasgcool, all right, yeah, let's do that. No problem, you are welcome14:39
yalcinmyou're the best shogun developer :)14:39
@iglesiasgno way, you just got me with some free time :)14:40
yalcinmyou ARE!14:40
yalcinmbye14:40
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rajat-kantCan someone plz help me get started with Shogun?21:56
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