--- Log opened Sat Mar 26 00:00:10 2016 00:06 -!- c0rw1n is now known as c0rw|zZz 00:36 -!- JayDugger [~jwdugger@108.19.186.58] has joined ##hplusroadmap 01:12 -!- irseeyou [~irseeyou@c-67-168-101-20.hsd1.wa.comcast.net] has quit [Quit: Leaving.] 01:17 -!- juri_ [~juri@vpn166.sdf.org] has quit [Ping timeout: 244 seconds] 01:23 -!- superkuh [~superkuh@unaffiliated/superkuh] has quit [Read error: Connection reset by peer] 01:24 -!- superkuh [~superkuh@unaffiliated/superkuh] has joined ##hplusroadmap 01:30 -!- juri_ [~juri@vpn166.sdf.org] has joined ##hplusroadmap 01:56 -!- JayDugger [~jwdugger@108.19.186.58] has quit [Quit: Leaving.] 02:08 -!- espes__ [~espes@205.185.120.132] has joined ##hplusroadmap 03:00 -!- PatrickRobotham [uid18270@gateway/web/irccloud.com/x-plrtikcxhkibtbbw] has quit [Quit: Connection closed for inactivity] 03:06 -!- Gurkenglas [Gurkenglas@dslb-188-106-113-006.188.106.pools.vodafone-ip.de] has joined ##hplusroadmap 03:07 -!- Houshalter [~Houshalte@oh-71-50-63-56.dhcp.embarqhsd.net] has quit [Quit: Quit] 03:25 -!- CheckDavid [uid14990@gateway/web/irccloud.com/x-swsrzkirjwscgfiw] has joined ##hplusroadmap 04:01 -!- sandeepkr [~sandeep@111.235.64.4] has joined ##hplusroadmap 04:13 -!- fleshtheworld [~fleshthew@2602:306:cf0f:4c20:803:6bf7:71d4:5da8] has quit [Read error: Connection reset by peer] 04:44 -!- yorick__ is now known as yorick 04:50 -!- nildicit [~nildicit@unaffiliated/nildicit] has quit [Ping timeout: 244 seconds] 05:02 -!- AmbulatoryCortex [~Ambulator@173-31-155-69.client.mchsi.com] has joined ##hplusroadmap 05:16 -!- strangewarp_ [~strangewa@c-76-25-206-3.hsd1.co.comcast.net] has quit [Read error: Connection timed out] 05:49 -!- Gurkenglas [Gurkenglas@dslb-188-106-113-006.188.106.pools.vodafone-ip.de] has quit [Read error: Connection reset by peer] 05:51 -!- Gurkenglas [Gurkenglas@dslb-188-106-113-006.188.106.pools.vodafone-ip.de] has joined ##hplusroadmap 06:30 -!- Orpheon [~Orpheon@bastli-partygateway.ethz.ch] has quit [Read error: Connection reset by peer] 06:48 < kanzure> "The role of photonics in energy" http://photonicsforenergy.spiedigitallibrary.org/article.aspx?articleid=2463108 06:51 -!- Gurkenglas [Gurkenglas@dslb-188-106-113-006.188.106.pools.vodafone-ip.de] has quit [Ping timeout: 240 seconds] 06:54 < kanzure> "Neurokernel: An Open Source Platform for Emulating the Fruit Fly Brain" http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4709234/ 06:54 < kanzure> figure 1 "Modular structure of the fruit fly brain" http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4709234/bin/pone.0146581.g001.jpg 06:57 < kanzure> various RFCs http://neurokernel.github.io/docs.html 07:01 < kanzure> https://github.com/neurokernel/neurokernel 07:05 < kanzure> https://github.com/neurokernel/antennal_lobe/blob/master/notebooks/olfaction.ipynb 07:06 < kanzure> .title https://www.youtube.com/watch?v=3hPsmZXpylM 07:06 < yoleaux> The Retina as a Parallel Information Pre-Processor - YouTube 07:11 < kanzure> that fig1 above link is bad, use http://diyhpl.us/~bryan/papers2/neuro/Neurokernel:%20An%20open%20source%20platform%20for%20emulating%20the%20fruit%20fly%20brain%20-%202016.pdf.fig1.jpg 07:11 -!- Orpheon [~Orpheon@bastli-partygateway.ethz.ch] has joined ##hplusroadmap 07:12 < kanzure> https://lists.columbia.edu/mailman/listinfo/neurokernel-dev 07:12 < kanzure> .title https://www.youtube.com/watch?v=pSokol2AkWg 07:12 < yoleaux> Digital Worms and Flies: OpenWorm meets Neurokernel - YouTube 07:16 < kanzure> "‘Connectomics-based analysis of information flow in the Drosophila brain" http://diyhpl.us/~bryan/papers2/neuro/Connectomics-based%20analysis%20of%20information%20flow%20in%20the%20Drosophila%20brain%20-%202015.pdf 07:16 < kanzure> http://www.flycircuit.tw/ 07:17 < kanzure> http://www.flycircuit.tw/flycircuit_images/wiringdiagramFemale/female.jpg 07:25 < kanzure> http://bigneuron.org/ seems to be broken :| 07:27 < kanzure> "Neuron anatomy structure reconstruction based on a sliding filter" http://diyhpl.us/~bryan/papers2/neuro/Neuron%20anatomy%20structure%20reconstruction%20based%20on%20a%20sliding%20filter%20-%202015.pdf 07:32 < kanzure> http://diademchallenge.org/ 07:43 -!- Gurkenglas [Gurkenglas@dslb-188-106-113-006.188.106.pools.vodafone-ip.de] has joined ##hplusroadmap 07:48 < kanzure> (music) https://www.youtube.com/watch?v=ZXcQv9Sj3JM&t=1m50s 08:21 -!- CheckDavid [uid14990@gateway/web/irccloud.com/x-swsrzkirjwscgfiw] has quit [Quit: Connection closed for inactivity] 08:44 -!- yashgaroth [~yashgarot@2602:306:35fa:d500:f5e0:f867:a11d:8d52] has joined ##hplusroadmap 09:07 -!- jaboja [~jaboja@vps.jaboja.pl] has joined ##hplusroadmap 09:24 -!- PatrickRobotham [uid18270@gateway/web/irccloud.com/x-fwpsozdeudyisxlm] has joined ##hplusroadmap 09:24 -!- Cooler_ [~spock@186.220.88.200] has joined ##hplusroadmap 09:43 -!- sandeepkr_ [~sandeep@111.235.64.4] has joined ##hplusroadmap 09:47 -!- sandeepkr [~sandeep@111.235.64.4] has quit [Ping timeout: 260 seconds] 09:48 -!- sandeepkr__ [~sandeep@111.235.64.4] has joined ##hplusroadmap 09:51 -!- CheckDavid [uid14990@gateway/web/irccloud.com/x-cabpajjekoiodxtp] has joined ##hplusroadmap 09:52 -!- sandeepkr_ [~sandeep@111.235.64.4] has quit [Ping timeout: 260 seconds] 09:56 -!- jaboja [~jaboja@vps.jaboja.pl] has quit [Ping timeout: 260 seconds] 10:12 < fenn> .wik diadem 10:12 < yoleaux> "A diadem is a type of crown, specifically an ornamental headband worn by monarchs and others as a badge of royalty. The word derives from the Greek διάδημα diádēma, "band" or "fillet", from διαδέω diadéō, "I bind round", or "I fasten"." — https://en.wikipedia.org/wiki/Diadem 10:14 < fenn> the "challenge" is automatic neuron tracing and reconstruction (i thought this already existed? i saw it at 3scan for sure) 10:14 < fenn> oh it was in 2010 10:24 -!- nildicit [~nildicit@unaffiliated/nildicit] has joined ##hplusroadmap 11:22 -!- abetusk [~abram@c-98-216-104-129.hsd1.ma.comcast.net] has joined ##hplusroadmap 11:30 -!- PatrickRobotham [uid18270@gateway/web/irccloud.com/x-fwpsozdeudyisxlm] has quit [Quit: Connection closed for inactivity] 11:31 -!- irseeyou [~irseeyou@c-67-168-101-20.hsd1.wa.comcast.net] has joined ##hplusroadmap 11:31 -!- jaboja [~jaboja@vps.jaboja.pl] has joined ##hplusroadmap 11:42 < kanzure> fenn: ehh i don't think either of us ever saw 3scan's actual method, just some output. 11:43 < kanzure> which doesn't tell us how accurate the method was 11:43 < kanzure> also, what we saw was visual reconstruction (i think).... which might have used manual tracing as input. 11:43 < kanzure> diadem was 2010 but bigneuron is 2015-now 11:56 < kanzure> https://github.com/bigneuron 11:57 < kanzure> reconstruction results https://docs.google.com/spreadsheets/d/1k0hA5oByPLbKLWqdQlvQiEAJNFTQCSSgjKYFCxEdY6s/edit#gid=102202457 11:58 < kanzure> https://github.com/BigNeuron/BigNeuron-Wiki/wiki/Neuron-Reconstruction-Algorithms 11:58 < kanzure> "High-accuracy neurite reconstruction for high-throughput neuroanatomy" (2011) http://www.nature.com/neuro/journal/v14/n8/full/nn.2868.html 12:02 < kanzure> some image data sets https://www.dropbox.com/sh/c7tttjv0vicgdo5/AADma_T9New3uGcIA6ofEpWZa?dl=0 12:04 < kanzure> "The total size of these data is about 19GB (of 79 neurons)." what? 12:26 -!- Cooler_ [~spock@186.220.88.200] has quit [Ping timeout: 276 seconds] 12:27 -!- ArturShaik [~ArturShai@31.29.16.49] has quit [Ping timeout: 246 seconds] 12:35 -!- nildicit [~nildicit@unaffiliated/nildicit] has quit [Ping timeout: 244 seconds] 12:47 -!- jaboja [~jaboja@vps.jaboja.pl] has quit [Ping timeout: 248 seconds] 12:54 -!- sandeepkr__ [~sandeep@111.235.64.4] has quit [Ping timeout: 276 seconds] 13:35 -!- jaboja [~jaboja@vps.jaboja.pl] has joined ##hplusroadmap 14:06 -!- holz_ [~holz@46.166.190.174] has joined ##hplusroadmap 14:07 < holz_> how do i put the internet in my brain 14:14 < yashgaroth> do you have a corkscrew handy 14:15 < kanzure> i only have a paperclip and three rubber bands. please advise. 14:15 < yashgaroth> fashion a crude FM transmitter 14:22 < holz_> i have an old microwave 14:25 < yashgaroth> yeah that'll work, but you'll be capped at 256k 14:25 < jrayhawk> the internet is a worldwide interconnected network of computers. you have two options: make the world small enough to fit in your brain, or make your brain large enough to encompass the world. 14:27 < jrayhawk> my recommendation: cultivate a variety of brain cancers in the hope of becoming the next HeLa 14:31 -!- jaboja [~jaboja@vps.jaboja.pl] has quit [Ping timeout: 240 seconds] 14:36 < kanzure> that's a good plan because it has a chance of working 14:57 < FourFire> whoo back 14:58 < FourFire> just gave in to the overlords, have windows 10 and an SSD RAID0 now 14:59 < FourFire> jrayhawk, but surely, you could merely have your brain digitized and have parts running in clusters worldwide 14:59 < FourFire> then your brain is the internet. 14:59 < FourFire> latency will be tehsuck, but probably not substantially worse than grey meat 15:03 -!- yoleaux [~yoleaux@xn--ht-1ia18f.nonceword.org] has quit [Ping timeout: 244 seconds] 15:05 < jrayhawk> you're right, i suppose postmodernism is a better approach 15:10 -!- esmerelda [~andares@2607:fb90:fdf:79c4:515:888f:e7eb:5ceb] has joined ##hplusroadmap 15:10 -!- esmerelda [~andares@2607:fb90:fdf:79c4:515:888f:e7eb:5ceb] has quit [Changing host] 15:10 -!- esmerelda [~andares@unaffiliated/jacco] has joined ##hplusroadmap 15:33 -!- drewbot [~cinch@ec2-107-20-5-53.compute-1.amazonaws.com] has quit [Remote host closed the connection] 15:33 -!- drewbot [~cinch@ec2-54-157-222-14.compute-1.amazonaws.com] has joined ##hplusroadmap 15:46 -!- AmbulatoryCortex [~Ambulator@173-31-155-69.client.mchsi.com] has quit [Read error: Connection reset by peer] 16:01 < fenn> kanzure: no i saw matt goodman writing image processing code to remove camera artifacts because it was messing with the (presumably pre-existing) segmentation code 16:04 < fenn> this would have been a lot of tracing http://www.3scan.com/gallery/ 16:11 -!- Aurelius_Laptop [~cpopell@static-71-191-202-56.washdc.fios.verizon.net] has joined ##hplusroadmap 16:14 < maaku> jrayhawk: you are in fact already one neuron in the global brain 16:19 -!- jaboja [~jaboja@vps.jaboja.pl] has joined ##hplusroadmap 16:20 < kanzure> i wonder if most of those tracing algorithms are compatible with multiple rounds of antibody staining and washing per slice. 16:21 < Aurelius_Laptop> kanzure : while I'm continuing my CS education, I've decided while I job hunt for my next job to focus on marginal advantage, so this means data science and machine learning it seems (focused on business intelligence/analysis problems) 16:35 -!- Houshalter [~Houshalte@oh-71-50-63-56.dhcp.embarqhsd.net] has joined ##hplusroadmap 16:36 -!- holz_ [~holz@46.166.190.174] has quit [Quit: Leaving] 16:54 -!- gnusha_ [~gnusha@bryan.fairlystable.org] has quit [K-Lined] 17:19 -!- gnusha [~gnusha@bryan.fairlystable.org] has joined ##hplusroadmap 17:19 -!- Topic for ##hplusroadmap: biohacking, nootropics, transhumanism, open hardware | sponsored by lobsters everywhere, banned by the Federal Death Administration (5 times) | this channel is LOGGED: http://gnusha.org/logs | http://diyhpl.us/wiki | "ray kurzweil is a pessimist" - george church 17:19 -!- Topic set by kanzure [~kanzure@unaffiliated/kanzure] [Wed May 20 12:46:25 2015] 17:19 [Users ##hplusroadmap] 17:19 [ _hanhart ] [ BobaMa ] [ esmerelda ] [ jrayhawk ] [ nsh ] [ streety ] 17:19 [ a7b9d6e6 ] [ bsm117532 ] [ espes__ ] [ jron ] [ Orpheon ] [ Stskeeps ] 17:19 [ abetusk ] [ btcdrak ] [ FourFire ] [ juri_ ] [ pasky ] [ superkuh ] 17:19 [ amiller ] [ Burninate ] [ gnusha ] [ justanotheruser] [ pompolic ] [ Taek42 ] 17:19 [ archels ] [ c0rw|zZz ] [ Gurkenglas ] [ juul ] [ poohbear ] [ TeMPOraL ] 17:19 [ ArvinJA ] [ catern ] [ harold ] [ kanzure ] [ proofoflogic] [ thundara_ ] 17:19 [ augur ] [ CheckDavid ] [ hehelleshin] [ maaku ] [ rancyd ] [ TMA ] 17:19 [ Aurelius_Home ] [ cluckj ] [ HEx1 ] [ Madars ] [ redlegion ] [ vikraman ] 17:19 [ Aurelius_Laptop] [ crescendo ] [ Houshalter ] [ mf1008 ] [ Reventlov ] [ xentrac_ ] 17:19 [ Aurelius_Work2 ] [ Diablo-D3 ] [ indiebio ] [ midnightmagic ] [ rhaps0dy ] [ xrr ] 17:19 [ Bakkot ] [ docl ] [ irseeyou ] [ namespace ] [ saurik ] [ yashgaroth] 17:19 [ balrog ] [ drewbot ] [ jaboja ] [ nanotube ] [ SDr ] [ yoleaux ] 17:19 [ berndj ] [ duper ] [ Jawmare ] [ nickjohnson ] [ sh ] [ yorick ] 17:19 [ bkero ] [ dustinm ] [ jdqx ] [ night ] [ sivoais ] [ zeysmo ] 17:19 [ blueskin ] [ EnabrinTain] [ Jenda` ] [ nnnn20430 ] [ strages ] [ {dpk} ] 17:19 -!- Irssi: ##hplusroadmap: Total of 90 nicks [0 ops, 0 halfops, 0 voices, 90 normal] 17:19 -!- Channel ##hplusroadmap created Thu Feb 25 23:40:30 2010 17:19 -!- Irssi: Join to ##hplusroadmap was synced in 7 secs 17:35 -!- fenn [~fenn@bryan.fairlystable.org] has joined ##hplusroadmap 17:44 -!- Aurelius_Laptop [~cpopell@static-71-191-202-56.washdc.fios.verizon.net] has quit [Ping timeout: 260 seconds] 18:11 -!- jaboja [~jaboja@vps.jaboja.pl] has quit [Ping timeout: 244 seconds] 18:12 -!- BobaMa [bobama@kapsi.fi] has quit [Ping timeout: 276 seconds] 18:12 -!- jaboja [~jaboja@vps.jaboja.pl] has joined ##hplusroadmap 18:17 -!- jaboja [~jaboja@vps.jaboja.pl] has quit [Ping timeout: 244 seconds] 18:21 -!- jaboja [~jaboja@vps.jaboja.pl] has joined ##hplusroadmap 18:35 < kanzure> http://vaa3d.org/ 18:36 < kanzure> .title https://www.youtube.com/watch?v=ycWVTVQtUFg 18:36 < yoleaux> v3d fly neuron trace disp - YouTube 18:36 -!- BobaMa [bobama@kapsi.fi] has joined ##hplusroadmap 18:41 -!- harshhpareek [~harshhpar@cpe-70-114-203-173.austin.res.rr.com] has joined ##hplusroadmap 18:51 < kanzure> .title https://www.youtube.com/watch?v=-Y8kDURdJr8 18:51 < yoleaux> fly brain compartment atlas 090401 - YouTube 18:52 < kanzure> why did someone write yet another scientific visualization visualizer 18:54 < kanzure> https://github.com/Vaa3D/vaa3d_tools/blob/master/released_plugins/v3d_plugins/global_neuron_feature/compute.cpp 18:57 < kanzure> https://github.com/Vaa3D/vaa3d_tools/blob/master/released_plugins/v3d_plugins/neuron_stitch/neuron_stitch_func.cpp 19:03 < kanzure> these seem to be the "original" algorithms from diadem? https://github.com/Vaa3D/vaa3d_tools/tree/master/bigneuron_ported/neuronAssembler 19:04 < kanzure> like neutube: https://github.com/Vaa3D/vaa3d_tools/blob/master/bigneuron_ported/neuronAssembler/neutube/NeuronAssembler_NeuTube_plugin.cpp 19:05 < kanzure> i like how there are no unit tests for any of this shit 19:07 < kanzure> oh.... https://github.com/janelia-flyem/NeuTu/tree/public/neurolabi/c 19:08 -!- Gurkenglas [Gurkenglas@dslb-188-106-113-006.188.106.pools.vodafone-ip.de] has quit [Ping timeout: 264 seconds] 19:12 < kanzure> https://svn.janelia.org/penglab/projects/vaa3d_tools/hackathon/zhi/ 19:17 < kanzure> janelia is a weird science thing 19:32 -!- c0rw|zZz is now known as c0rw1n 19:53 -!- nildicit [~nildicit@unaffiliated/nildicit] has joined ##hplusroadmap 20:01 -!- Houshalter [~Houshalte@oh-71-50-63-56.dhcp.embarqhsd.net] has quit [Ping timeout: 240 seconds] 20:07 -!- Houshalter [~Houshalte@oh-71-50-63-56.dhcp.embarqhsd.net] has joined ##hplusroadmap 20:12 -!- Houshalter [~Houshalte@oh-71-50-63-56.dhcp.embarqhsd.net] has quit [Ping timeout: 244 seconds] 20:18 -!- Douhet [~Douhet@unaffiliated/douhet] has joined ##hplusroadmap 20:27 -!- jaboja [~jaboja@vps.jaboja.pl] has quit [Ping timeout: 252 seconds] 20:44 < maaku> http://vncroulette.com/ 22:26 -!- fenn [~fenn@bryan.fairlystable.org] has quit [Changing host] 22:26 -!- fenn [~fenn@unaffiliated/fenn] has joined ##hplusroadmap 22:59 -!- PatrickRobotham [uid18270@gateway/web/irccloud.com/x-ztbqonbwqlhscblc] has joined ##hplusroadmap 23:03 -!- yashgaroth [~yashgarot@2602:306:35fa:d500:f5e0:f867:a11d:8d52] has quit [Quit: Leaving] --- Log closed Sun Mar 27 00:00:11 2016