IRC logs of #shogun for Friday, 2017-05-12

--- Log opened Fri May 12 00:00:26 2017
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@wikinglisitsyn, around?10:51
lisitsynwiking: hey10:52
@wikingso do you know if there's a way to generate a fixed sized eigen array/matrix runtime?10:52
@wikingwhat i mean is because currently my code10:52
@wikingis basically spending way too much time on functions10:52
@wikingof eigen10:52
@wikingthat are due to the matrix is MatrixXd10:53
lisitsynwiking: uhm doesn't sound possible to me10:54
lisitsynhow could it work?10:54
@wikingyeah dunno10:54
@wikingmaybe i should just stop using eigen :)10:55
lisitsyndo you have small matrices?10:55
@wikingyep10:57
@wiking2x1010:57
@wiking10x1010:57
@wikingyou reckon it's an overkill to use eigen for that?10:57
@wikingonly thing is that i do some operations over it (element-wise division etc)10:58
@wikingbut then again i guess a simple for loop should be feasible as well for that10:58
lisitsynwiking: yeah I asked because the smaller matrices you have the larger overhead of dynamic stuff becomes10:59
@wikingyeah indeed10:59
lisitsynhuh well maybe you should try raw for loops11:00
@wiking:)11:00
@wikingyeah i guess that could be the case11:00
lisitsynwiking: I overheard some story of some simple NN using for loops being 10x faster than tensorflow :)11:01
@wiking:>11:01
@wikinggeneralization comes with some cost :)11:01
lisitsynI guess my secret sauce in the next years is to write cython code to apply neural nets11:02
lisitsynheh11:02
@wiking:>>>>>>>>>>>>>>>>>>>>>>>>>>>>>11:04
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HeikoS_mobilewiking: hi15:32
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@HeikoSwiking: there?15:43
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@HeikoSleagoetz:  hello15:49
mikelingHeikoS: hey!15:49
@HeikoShi15:49
Ting_Hi~15:49
leagoetzhello15:50
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@HeikoSolinguyen: hi16:01
@HeikoSOXPHOS: hi16:01
@HeikoSlisitsyn: hi16:02
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@HeikoSTing_:  hey16:02
@HeikoSso who is missing?16:02
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mikelingI'm here ;)16:02
olinguyenhello :)!16:02
@wikinghey16:02
@wiking:)16:02
geektoniI'm here too ;)16:02
micmnhi! :)16:02
OXPHOShello :)16:03
@wikingwelcome16:03
lisitsynhey there16:03
@HeikoSwiking: hi16:03
@wikingi reckon then everybody is here16:03
@wikingat least from GSoC side16:03
@HeikoSwiking: I will lead if thats fine?16:03
@HeikoSmicmn: michele?16:03
@wiking(students)16:03
micmnyes16:03
@wikingHeikoS, yes :)16:03
@HeikoSok cool, we are complete then16:03
@wikingfernando is missing but it's ok :)16:03
@wikinghe knows the drill16:03
@HeikoSapart from fernando16:03
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@HeikoSyeah ok16:03
@HeikoSIll start16:03
@wiking---------------------------------16:04
@HeikoSWelcome everyone!16:04
@HeikoSWelcome to the Shogun GSoC kick-off meeting.16:04
@HeikoSWe are very excited to work with all of you.16:04
@HeikoSYou were the top applicants out of almost 100, and we are sure that together we will run an exciting and productive GSoC.16:04
@HeikoSThis meeting is to get all of you started, how your GSoC weeks will look like, what we expect from you during and at the end of GSoC -- and to answer all your questions.16:04
@HeikoSPlease interrupt me with questions at any time.16:04
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@HeikoSAgenda:-Welcome & Introduction-Our expectations-The community bonding period: action points-Questions / anything else?16:04
@HeikoSwhoops16:04
@HeikoSAgenda:16:04
@HeikoS-Welcome & Introduction16:04
@HeikoS-Our expectations16:04
@HeikoS-The community bonding period: action points16:05
@HeikoS-Questions / anything else?16:05
@HeikoSIf somebody wants to add points, please shout!16:05
@HeikoSIf not .... Ill go on16:05
@HeikoSIntroduction:16:05
@HeikoSCan everyone please introduce themselves in 2-3 sentences?16:05
@HeikoSI am Heiko, I run this year's GSoC with Viktor.16:05
@HeikoSCurrently, I am doing a PhD in Machine Learning / Neuroscience in London.My research evolves around kernel methods and Bayesian inference.I initially got involved with Shogun during GSoC 2011 as a student, and stayed around since then.16:06
@HeikoSViktor want to go ahead?16:06
@HeikoSwiking: ^16:06
@HeikoSleagoetz?16:06
@wiking:)16:06
@wikingok16:06
@wikingHi i'm Viktor i'm currently one of the shogun mentors helping HeikoS to run this year's GSoC16:06
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@wikingi've done my phd in computer vision + machine learning that's when i started working on shogun16:07
@wikingi'm very excited about this year's GSoC and please do ping me16:07
@wikingif you have any questions concerns16:07
@wiking:)16:07
@wikingthnx16:07
@wikingleagoetz_, ?16:07
@HeikoSseems like a disconnect ;)16:08
leagoetzI’m doing a PhD in Neuroscience at UCL, London. I’m mostly interested in information processing in single nerve cells/small networks and I use biophysical modelling & data analysis (hint, hint …  I’ll be mentoring the application projects :D). I joined Shogun for last year’s GSoC and I’m - really looking forward to this one16:08
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leagoetzhe16:08
leagoetzback16:08
@HeikoSah there we go16:08
leagoetzI'm Lea16:08
leagoetzI’m doing a PhD in Neuroscience at UCL, London. I’m mostly interested in information processing in single nerve cells/small networks and I use biophysical modelling & data analysis (hint, hint …  I’ll be mentoring the application projects :D). I joined Shogun for last year’s GSoC and I’m - really looking forward to this one16:08
@wiking:)16:08
@HeikoSlisitsyn: are your around?16:08
lisitsynyes16:08
@HeikoSso go ahead then :)16:08
@wikingGO16:08
lisitsynwell I am Sergey16:09
lisitsyn:)16:09
@wiking:D16:09
lisitsynI work for Yandex at Moscow, Russia16:09
lisitsynI joined shogun just like Heiko in 201116:09
lisitsynlet me know if you need any help with C++ and design of shogun16:09
lisitsynpeople tend to think I know something about that16:09
@HeikoSSergey is our c++ guru16:10
@HeikoSso make sure to learn from him, as all of us did and do ;)16:10
@HeikoSOXPHOS: you want to be next?16:10
OXPHOSkk16:10
OXPHOSI‘m OXPHOS, currently a PhD candidate in cell biology in the US. I attended GSoC as a student last year and will help with the Detox project this year.16:10
OXPHOSDone16:10
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@HeikoSOXPHOS jointed as a core developer a few months ago btw16:11
@HeikoSok thats it from the mentors who are here16:11
@HeikoSgeektoni: you want to intoriduce yourself next?16:11
geektonisure16:11
geektoniI am Giovanni and I'm currently pursuing a Computer Science Bachelor's degree here in Italy.16:11
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geektoniand I am very excited to be part of this ;)16:12
@HeikoSiglesiasg: welcome!16:12
@iglesiasgHeikoS: thanks!16:12
@HeikoSgeektoni: you want to quickly say 2-3 sentences aobut your project?16:12
@iglesiasgMy apologies everyone about the delay16:12
@HeikoSiglesiasg: we were just introducing each other16:13
@HeikoSiglesiasg: you can prepare your text ;)16:13
@iglesiasgall right, good16:13
leagoetz(as can everyone else btw)16:13
leagoetz;)16:13
@HeikoS(yep)16:13
geektoniI will work on the Detox II project, which will consist on finish to integrate the last year new frameworks (Serialization and Tags)16:14
@wikingcool. micmn you wanna go next?16:14
micmnok16:14
@HeikoSgeektoni: make sure you talk to OXPHOS in the beginning! She did what you want to do last year!16:14
micmnI'm Michele, gsocer for the fundamental ml algorithms project16:14
lisitsyngeektoni: talk to me about tags ;)16:14
micmnI'm from Italy, currently pursuing my Master's degree in Computer Science from the University of Pisa16:15
micmnI got interested in ml during my undergraduate project working on convnets16:15
micmnI'll be working on benchmarking, refactoring and cleaning up implementations of existing algorithms16:15
@HeikoSolinguyen: next one?16:16
olinguyenSure16:16
olinguyenI'm Olivier. Currently doing my MSc at the University of Waterloo in Canada on machine learning (health data analytics). I'll be working on a data project this summer (Patient Monitoring and Decision Support using Health Data)16:17
leagoetzcool. Ting?16:17
Ting_I am Ting from China. I am now an undergraduate student studying computer science in the UK and going to the US this Fall.16:17
Ting_Nice to meet every here!16:17
leagoetzcan you say a sentence about your project?16:17
Ting_I love video games, sports, and tasty food! I will do the basketball match prediction with Shogun for GSoC. I am new to machine learning, only did some ml coursework and skeleton prediction before. So I hope to learn many many new stuffs from GSoC! ;)16:17
@wikingawesome! :)16:18
leagoetz(Ting, can you please also introduce yourself on the mailing list later?)16:18
Ting_Okay16:18
@HeikoSmikeling: you are the final one16:18
mikelingSure :)16:19
mikelingHi, my Chinese name is Lin Weijie(you can just call me mike). I'm currently pursuing a master degree in Internet of things at NanChang Hangkong university in China.16:19
mikelingMy GSoC project is 'The Shogun Detox2' which share same headline(almostly) with geektoni but for different part of job. My job is code clean up and port the pthread to openmp, and clean up the bug list as much I can :)16:19
@HeikoSCool!16:19
@wikingmikeling geektoni we'll do later a bit of a syncing who should do what and when :)16:19
@wikingwelcome all!16:19
@HeikoSso just to remind you who is involved16:19
@HeikoSViktor, Sergey, Fernando, Lea, PanGiovanni, Michelle, Olivier, Ting, Mike16:19
@HeikoSPan, Giovanni16:19
@HeikoSso then next point on agenda is Expectations of GSoC:16:20
OXPHOSPan, aka me16:20
@wiking:)16:20
@HeikoSVery briefly, we expect you to be pro-active and to get involved in Shogun, to work full-time (40h/week), and to finish your projects according to your schedule.16:20
@HeikoSFor the coding projects, this includes well written, well designed, well documented, well tested code.For the application projects, this means your polished “product” along with well written description report, and a reproducible workflow.16:20
@HeikoSEveryone is expected to blog about their GSoC participation, details will follow.16:20
leagoetz(note how everything has to be WELL)16:20
leagoetz:)16:20
@HeikoSWe want you to become members of our community, at least during the summer (and we hope that you’ll enjoy it so much that you continue to be part). Don't just code alone in the dark, share the experience with others: mentors, students, blog-followers, etc.16:21
@HeikoSVery importantly, please always be visible in IRC during GSoC working hours, and try to talk to your mentor or other Shoguners every day.16:21
@HeikoS(and ideally also during the pre-GSoC period)16:21
@HeikoSLast but not least, we expect everyone to enjoy this experience -- we did so in the past :)16:21
@HeikoSAny comments? Anyone wants to add their personal expectations?16:21
leagoetzThis "being visible" and in contact with your mentors is VERY important16:22
leagoetzwe don't want to micromanage you, but offer help and make sure everything's going well and you don't run down a dead end16:22
@HeikoSyes indeed, since we are not physically together, we need to talk on a daily basis to make sure everything is going well16:22
@HeikoSthis is really just to help you guys out16:23
@HeikoSComments?16:23
@HeikoSok then16:23
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lisitsynjaja16:23
@wikingmmm we lost heiko :)16:23
OXPHOSlol16:24
@wikingthat was a nice exit16:24
mikelinglol16:24
lisitsynyeah swift one16:24
Ting_hhh16:24
@wikinglisitsyn, you became spaniard with jaja? :)))16:24
lisitsynwiking: si16:24
leagoetzI'll continue16:24
@iglesiasgxD16:24
@wikinglisitsyn, bueno!16:24
@iglesiasgvamos16:24
leagoetzThe time from now until GSoC start is supposed to be used for you guys getting to know each other and the community.16:24
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leagoetzTalk to each other, hang out in IRC, help people on the mailing list and on stack overflow, http://stackoverflow.com/questions/tagged/shogun16:24
leagoetzDiscuss each other's project ideas, we want to see a vibrant Shogun crowd!16:25
leagoetzyay!16:25
@HeikoS(sorry)16:25
leagoetzIn addition, each mentor/student pair should come up with a *detailed* schedule of the project (based on the proposals).16:25
leagoetzlike:16:25
leagoetzDETAILED16:25
leagoetzTake the time to discuss all technical/design details of the projects.16:25
leagoetzNOW is the time for discussion, from end of May, it is time to code.16:25
leagoetzIdeally, you should have working prototypes for all parts of your projects within the next weeks.16:25
leagoetzThese do not need to be perfect or integrated within the Shogun base yet, but rather serve as a basis for spelling out technical details.16:26
leagoetzTry to be as concrete as possible: this is not about "what and when" but "what exactly and when exactly" you do it.16:26
leagoetzFurthermore, we ask you do have a video chat session with your mentors. Please organise yourselves.16:26
leagoetzquestions?16:26
@HeikoSJust to add: Don't start your projects yet. Rather plan and design them. The time to DO starts end of May.16:27
@HeikoSDuring the past GSoC, we always saw this:16:27
@HeikoSthat well planned projects work best -- and everyone enjoys them most16:27
@HeikoSso dont get lost in details yet, but plan out the schedule and the concepts16:28
@HeikoSOk so here is a list of action points for all students:16:28
@HeikoSAction points/deliverables before GSoC start-be active in IRC16:28
@HeikoS-detailed plan of your project (public)16:28
@HeikoS-a video chat session with your mentors-prototype as much as possible16:28
@HeikoS-a patch: e.g. a cookbook page, or something from https://github.com/shogun-toolbox/shogun/wiki/GSoC_2017_low_hanging_fruit16:28
@HeikoS-prototype as much as possible (on its own)16:28
@HeikoSOk, now we'd like to see some questions from you guys16:29
leagoetzdon't be shy16:29
@HeikoSI am sure you have some ;)16:29
@wikingif there's any16:29
@wiking:)16:29
olinguyenWhat is the long term vision of Shogun? How do you see Shogun competing with all these new frameworks that keep coming out?16:29
@HeikoSolinguyen: good one !16:30
@HeikoSolinguyen: and long answer16:30
lisitsynI have one point here, who else?16:30
@HeikoSolinguyen: we updated our "mission" on the website recently if you have seen16:30
@HeikoSolinguyen: but for now,  we want things to work nicely from all interfaces16:30
@HeikoSso you get all the algorithms in any of your favourite languages16:30
@HeikoSwhile under the hood, things are efficient16:30
@wikingbtw16:31
lisitsynone thing I want to push is being easy to use in *production* systems, i.e. to apply your model in runtime. This is something we can become good at16:31
@wikingjust FYI shogun is part of NumFocus since end of last month ;)16:31
leagoetzone thing to add: we want Shogun to be used - part of the point of the application projects. That's definitely a vision.16:31
@wikingyeah productionizing!16:31
@HeikoSoh yeah, in case you dont know numfocus: https://www.numfocus.org/16:31
leagoetzand we're talking to OpenSource initiatives to publicise what we're doing, offering it for education at uni etc16:32
@HeikoSolinguyen: happy with these replies?16:32
leagoetzin case you haven't noticed everyone - you are playing your part in this now! :D16:32
olinguyenYes, thanks :)!16:32
@HeikoSolinguyen: yeah if your application projects is cool and useful, there will likely to be others doing similar things16:32
@HeikoSAny questions from Italy? :D16:33
leagoetzor china?16:33
leagoetz(or the UK for that matter)?16:33
leagoetz;)16:33
micmntwo questions16:33
micmnis the mailing list working?16:33
@wikingmicmn, should16:33
leagoetzyes16:33
@HeikoSmicmn: the archives are currently down though16:33
micmnI've been subscribed since febraury16:33
@wikingHeikoS, geektoni has a solution ;)16:33
leagoetzbut you should be able to send and receive emails16:34
geektoniHeikoS: https://www.mail-archive.com/shogun-list@shogun-toolbox.org/16:34
micmnbut never received anything16:34
@HeikoSthere definitely were a few emails16:34
Ting_I had same problem16:34
@wikinganybody who has a problem16:34
@iglesiasgdid you guys for instance received the e-mail two days ago?16:34
@wikingsend me plz your email address you used for signing up16:34
@wikingand i'll look into it16:34
@HeikoSgeektoni, wiking thanks for the link, I will put tha ton the website16:34
Ting_I did not receive any thing16:34
micmnme too16:34
leagoetzok, as Viktor said, send him your sign up email address16:35
OXPHOSWell I had the same problem and Fernado helped me not too long time ago.16:35
@HeikoSthx for pointing that out!16:35
OXPHOSSomething with subscription I think16:35
leagoetzother questions?16:35
@HeikoSmicmn: and the other q?16:35
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micmnsecond: channel to talk directly to mentor?16:35
leagoetzyou and your mentor decide16:36
@wikingmicmn, depends on the mentor and you16:36
@HeikoSmicmn: yes you can private message in irc16:36
@wiking:)16:36
micmnok :p16:36
@HeikoSbut we also want student-mentors to talk fact-to-face to each other16:36
@HeikoSso skype/hangout/whatever16:36
@wikingpersonally you can irc/whatsapp/viber/hangout/skype me16:36
@HeikoSat least once before GSoC start16:36
@HeikoSs16:36
@wikingah and facetime16:36
@wiking:)16:36
leagoetzfor my students, I prefer carrier pigeons16:36
leagoetzjust kidding16:36
@HeikoSworking with a face is way better than working with a string16:37
@iglesiasg:D16:37
Ting_;)16:37
@HeikoSwe can also try a group chat with everyone if you are keen, might be fun16:37
@HeikoSbut maybe later16:37
@HeikoSfor now: students ping your mentors and arrange a date soon16:37
@HeikoSmike, toni, Ting?16:38
@wikingmikeling geektoni micmn i'm UTC+8 timezone16:38
leagoetzdo you have questions that is16:38
leagoetz?16:38
Ting_After the GSoC begin if I had an exam week, what should I do?16:38
@HeikoSah good point16:38
@HeikoSThanks for remidning me Ting_16:38
@wikingTing_, make sure that this is addressed in your schedule... any unexpected thing should be taken into consideration.... we are quite flexible with things but still try to plan ahead if possible16:39
@HeikoSso for everyone: please when you write your scheudle, include a detailed timeline. And that timeline should obviously include any potential away-dates.16:39
@HeikoSWe really need to know all such things (exams, weeks away, etc) *before* it happens16:39
@HeikoSthat is, before GSoC starts16:39
Ting_get it16:40
@HeikoSIt is fine if you are away for a bit (as long as the projects doesnt suffer), but make sure to tell us before16:40
@HeikoSso there are no surprises16:40
leagoetzyes, it's not great working together when your student suddenly disappears16:40
@HeikoSand account for that in your schedule16:40
@HeikoSand mentors will do the same!16:40
@HeikoS( I will be away for a bit here and there for example)16:40
@HeikoSI remember some others also being away for some days?16:40
@HeikoSso put that in the schedule16:41
@HeikoSthx, good point16:41
@HeikoSgeektoni, mikeling more questions?16:41
mikelingI do have a question about the code, could I ask it now or talk with my mentor later? :)16:41
@HeikoSmikeling: depends on whether it is interesting for others?16:41
geektonifrom my side no I don't :)16:41
@wikingmikeling, just ping me16:41
@HeikoSany questions that could be of interest for others, or where others could help, make sure to ask them in public (here in IRC is best)16:42
leagoetzif you have questions later, ask your mentor or the list16:42
mikelingok, I will ask wiking and lisitsyn after this meeting :)16:42
@HeikoSok then16:42
@wiking:)16:42
@HeikoScool16:42
@HeikoSMeeting is over!16:42
@HeikoSThanks everyone!16:42
leagoetzThank you!16:42
@iglesiasgthanks for organizing it!16:42
Ting_Thank you!!16:42
OXPHOSThanks!16:42
micmnthanks :)16:42
leagoetzTing, Olivier, get back to me (email) about the 1-on-1 meeting please16:43
@HeikoSso make sure to go ahead with the mentioned action points, and we look forward to hearing from you16:43
@wikingthnx all for attending!16:43
olinguyenWill do!16:43
mikelingthank you!16:43
OXPHOSBTW a tool might be useful: https://github.com/nvbn/thefuck16:43
geektonithank you!16:43
leagoetzbye bye then16:43
@iglesiasgTing_: include me also in the e-mail meeting :)16:43
@wiking:)16:43
@wikingttyl16:43
leagoetz(and Heiko. I know)16:43
@wikingmikeling, what was the question ?16:43
@HeikoSOXPHOS: awesome!!16:44
geektoniOXPHOS: lol16:44
OXPHOS:>16:44
mikelingwiking: actually lisitsyn had tlod me something about it. It's about lib* and its correspond class like(libsvm and svm)16:44
@HeikoSI have a NIPS submission on May 18 and will be much more active after that date16:44
@HeikoSwiking, lisitsyn^16:44
@iglesiasgOXPHOS: haha that's pretty funny16:44
leagoetzI'm off16:45
@wikingHeikoS, yep i know :)16:45
mikelingI don't know where I should start looking into exactly.16:45
leagoetzcu16:45
@HeikoS I'm heading off see you all!16:45
@wikingHeikoS, cyaz16:45
@wikingg'luck16:45
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lisitsynhere16:45
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mikelingThe lib* is what we are providing to the users?16:45
OXPHOSiglesiasg: glad to hear that :P16:45
@wikingmikeling, nou16:45
@wikingi guess in old time16:45
@wikinglib was meant for external stuff16:45
@wikingbut now it's already a mess16:46
@wiking:)16:46
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@wikingeverything is everywhere16:46
@iglesiasgbut what is the question in particular?16:46
@iglesiasgare we talking about lib* as in libshogun.so16:46
mikelingyeah... I just I have no idea where should I start and which place should been put in where(etc16:46
@iglesiasgor as in LibSVM class?16:47
@iglesiasgall right people, catch you later!16:49
@wikingsorry got disconnected16:49
mikelingI mean like LibSVM been putted in the same place with SVM module and it seems like contain those parameters used in SVM, but things comes different when it comes to SVMOcas16:49
@wikingyep16:49
mikelingBTW, I haven't found SVMOcas in the api document16:49
@wikingso yeah that's a mixup with the time and other people implementing it16:49
geektoniwiking: btw, regarding the "syncing" between mikeling and me, shall we do it now? Or do you prefer later on?16:50
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@wikingmmmm16:51
@wikinggeektoni, can we do it async?16:51
@wikingin an email?16:51
geektonisure np16:51
@wikingthnx16:51
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geektoniAh wiking, last thing16:52
@wikingshhoot16:52
@wiking*shoot16:52
geektoniI should have another mentor whose nick is 'lambday'16:53
@wikinggeektoni, ah Rahul16:53
@wikinghe is quite busy lately16:53
@wikingbut he'll jump in whenever he can16:53
@wikingmicmn, send me your email addrr for the mailing list16:54
geektoniok ok ;) so I'll bother mainly you16:54
@wikingyep do that :)16:54
@wikingbut eveyrbody will bother you :))))16:54
mikelingwiking: geektoni please don't forget to cc me in that list ;)16:55
mikeling* that email16:55
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geektonimikeling: sure about that ;)16:56
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