PauloNuin - Comments

Sally Church posted a message on Twitter

“This war stuff is how many years ago now? How is this gonna fix the economy now?”

6 hours ago - Link

We made the mistake here of playing a drinking game where anything me mentions being a POW, we drink... - Chris Reed

or it could be 9/11 if it was Giuliani. - PauloNuin

Neil Saunders posted a message on Twitter

“stand-off at UQ lakes; 3 crows versus cane toad; not looking good for toad”

8 hours ago - Link

would you mind helping the toad? - PauloNuin

do you really want him to help the toad? - Jonathan Eisen

from Wikipedia: The Cane Toad (Bufo marinus), also known as the Giant Neotropical Toad or Marine Toad, is a large, terrestrial true toad native to Central and South America .... The Cane Toad is now considered a pest in many of its introduced regions, because its toxic skin kills many native predators when ingested. It has many negative effects on farmers because of pets and animals eating the creatures. - Jonathan Eisen

FYI, the crows in question (Torresian crows) are one of the few native predators that have learned how to eat cane toads; http://en.wikipedia.org/wiki/T... - Neil Saunders

For a moment the amphibian phylogeneticist in me overcome the against-introduced-species-ist - PauloNuin

Michael Nielsen bookmarked a page on delicious

Nature Network Toronto pub night with discussion panel on Science 2.0

Tuesday at 10:04 am - Link

Jean-Claude Bradley, Eva and John Dupuis liked this

Pub night is on this coming Sunday, September 7, at 7:30pm. Venue is Fionn MacCool’s (181 University Avenue, near corner with Adelaide). Panelists are Timo Hannay (Nature.com) and yours truly. Hope to see you there! - Michael Nielsen

I'll be there! - John Dupuis

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Cameron Neylon is now on the panel! Excellent! - Michael Nielsen

correction michael. Cameron Neylon is on the panel after a 7 hour flight. I make no promises about my level of coherence :-) - Cameron Neylon via fftogo

Unfortunately I cannot be there. My wife flies on the same day and almost identical time. - PauloNuin

Paulo - that's a shame - will you be at Science21? - Cameron Neylon

Cameron - We may have to deny you beer until after the panel, then :-) - Michael Nielsen

Paulo - Too bad :-( - Michael Nielsen

I won't be going to the Science 21 too. Shame. - PauloNuin

Ooh, I will leave Toronto at about 8 PM.... - Berci Mesko

Michael, you know I don't drink beer. Now withholding coffee might be more of an issue... - Cameron Neylon

Anyone who is not going has to either reschedule their plans and flights OR find 3 other people to attend. IT'S THE RULES! - Eva

I think I might be able to attend, let's see. - PauloNuin

Sally Church posted a message

“Yay, the football season finally starts tonight! Who's watching the Giants vs. Skins?”

12 hours ago - Link

Dom, Jesse Stay, Eric @ CS Techcast, jeff and 5 other people liked this

I'll put it on although I don't like either team. However, any day that the Redskins lose is a good day in my book. - Akiva Moskovitz

Umm...Football season started 3 weeks ago. Oh! You mean that game the Americans call "Football" that has very little to do with feet! - Stephen Pierzchala

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Come on Man Utd!! - Zee at WeDoCreative

Zee... Man U till I die! - John Worthington

Forget that. GUNNERS GUNNERS GUNNERS. - Akiva Moskovitz

I'll watch but I'll be flipping between it and the RNC and Obama on O'Reilly Factor - Aaron Brazell

Victory! I managed to completely change the topic in a FriendFeed comment stream. - Stephen Pierzchala

Stephen: yup realised I had finally become an American instead of a Brit when I referred to throwing not kicking the ball, lol - Sally Church

S'alright. I'm Canadian. I came to Football late, and will never go back. Notice I state no team allegiance...though I am thinking of supporting Hull, if only to prevent their relegation in their first year! - Stephen Pierzchala

Too bad the first game is two teams I'm not really interested in. - Rochelle

I can't wait! The hubs and I will curl up on the couch and watch and roar. He feels like an NFL game on his birthday is an extra gift. - Abby Martin

Redskins FTW tonight. - PauloNuin

I'm not looking forward to the 1st MNF - 2 of my least favourite teams :( - Sally Church

can't, have a playoff baseball game :( - Shey

Redskins? Are they in the 2nd division? - Zee at WeDoCreative

Playing Scunthorpe United tonight are they? - Zee at WeDoCreative

go GMEN! although it doesn't really matter what they do this season. (which is good 'cause it ain't gonna be much). - Morgan

I am so ready to beat Drew Olanoff in fantasy football. - Louis Gray

Go Santana Moss! [Fantasy Team] - AJ Kohn

Plaxico on my fantasy team, baby. - Eric @ CS Techcast

Navy v. Ball State is on my agenda tonight. - Andrew Leyden

Me! - Jesse Stay

The game is starting right now? That's 4 my time. I'm still at work! And I have to go to Costco after work. And there are awesome hotdogs at Costco and... what's that about a game again? - Tad - just Tad

Tad, get a TiVo, man! - Akiva Moskovitz

Ummmm.... I've had a Tivo since 99. :P I'll just watch the end of the game and be about as happy as if I'd watched the whole thing. :) - Tad - just Tad

Go Giants! And my fantasy players :-) - Dom

One of these days I should try the whole Fantasy Football thing. It's just I prefer my fantasy to include swords, magic and chics with huge freakin' knockers. - Tad - just Tad

1UP Tad. I like sports, and I play games like Worldwide Soccer Manager and Out of the Park Baseball, but every time my friends have tried to convince me to get in on a fantasy league, I just make my save and run away. - Akiva Moskovitz

Shey, baseball is for wussies. :) - Aaron Brazell

Finally! FOOTBALL, baby!!! - Steven Perez

Adam Kraut posted a message on Twitter

“skimming through Erlang and OpenMP books recently; thus far OpenMP is much more attractive to me”

14 hours ago - Link

which OpenMP book? - PauloNuin

The Life Scientists: Chris Lasher posted a message

“What's an effective way to share a poster on FF?”

15 hours ago - Link

I think you should upload it to Flickr in great resolution and then use the Share on Friendfeed feature with which you can share both the link and the image with us. - Berci Mesko

Upload it anywhere, and post the link on FF? - Eric Jain

Flickr, website, you name it - PauloNuin

Post to Nature Precedings and provide link? - Maxine

Didn't we just have a conversation about having conversations again...? Some more ideas at http://friendfeed.com/e/4e0946... - Cameron Neylon

The Life Scientists: Chris Lasher posted a message

“Should I bold important descriptive statistics (e.g., total number of genes, percent of total with one condition) in the results section of my poster that are not included in a table? Is this distracting or helpful?”

17 hours ago - Link

$0.02 from me: distracting. I'd prefer the section be structured so as to emphasize whatever you want me to take away from reading it, rather than be confronted with RANDOM SHOUTING in the middle of the text. :-) - Bill Hooker

I second Bill's opinion - Lars Juhl Jensen

Thanks guys. This was my intuition. KISS, right? - Chris Lasher

I am with Bill in this. Less text, less tables, more graphics. KISS - PauloNuin

PauloNuin shared an item on Google Reader

The Daily Photoist: September 4, 2008

17 hours ago - Link

This is for Eva. - PauloNuin

Yay! I saw it when it was done, although it was still only half of the intersection (the three crossings you see here, not the three that would be on the other side) - Eva

The Life Scientists: Neil Saunders posted a link

Big data: The future of biocuration : Article : Nature

Wednesday at 9:46 pm - via Bookmarklet - Link

Alexey, Bill Hooker, John Dupuis, Matt Wood and 8 other people liked this

"Third, curators, researchers, academic institutions and funding agencies should, in the next ten years, increase the visibility and support of scientific curation as a professional career" - Neil Saunders via Bookmarklet

This article by far the best in the special Nature issue this week. - Neil Saunders

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It's not a free access issue is it? - Deepak

Not sure Deepak - it sure should be, if it isn't. - Neil Saunders

I think the articles are freely-available; follow the links from http://www.nature.com/news/spe..., they are not marked as pay/subscribe - Neil Saunders

The entire issue is free online, but for two weeks only. Download them now while you can... - Andrew Su

exactly Andrew - Graham Steel

Downloading furiously - Deepak

/me is safe in the knowledge the dead tree copy will be waiting for him when he gets home :) - Daniel Swan

Yes it is free access for 2 weeks. I've posted twice about that on this FF group, see here: http://friendfeed.com/e/1489a2... (at time of writing, about 3 or 4 entries below this one). - Maxine

"The exponential growth in the amount of biological data means that revolutionary measures are needed for data management, analysis and accessibility." -- Is the revolutionary measure free access for 2 weeks......? - Frank

I can't wait to read Cory's article!!!! I am thrilled!!! - PauloNuin

Deepak posted a message on Twitter

“@nuin doesn't that require all links to be on the same page?”

19 hours ago - Link

It might. Or you can use something that mirrors the site locally. - PauloNuin

Matt Wood posted a message on Twitter

“Introducing the first code to come out of our work with Ruby in science: http://github.com/mza/denormal...”

21 hours ago - Link

Deepak, Sally Church, Neil Saunders and Michael Barton liked this

that's the "release" you were waiting to announce? - PauloNuin

Not quite! Just a small snippet that was ready to go before our main release: should be with us shortly. - Matt Wood

Yay!!! Can't wait to see the whole thing. Trust me folks, you'll love it - Deepak

Do you have any inside information on this? - PauloNuin

If it's the app I think it is, then I've had a chance to see it - Deepak

Deepak posted a message on Twitter

“Wish the Nature special issue had a "download all" button somewhere”

19 hours ago - Link

can't you use DownThemAll? - PauloNuin

PauloNuin shared an item on Google Reader

In A World…Without Don LaFontaine

21 hours ago - Link

The voice of the movies has passed away. - PauloNuin

PauloNuin bookmarked a page on delicious

XDot - jrfonseca - Google Code - Interactive viewer for Graphviz dot files

Wednesday at 5:53 pm - Link

Another cool viewer is zgrviewer - http://zvtm.sourceforge.net/zg... - Rajarshi Guha

bookmarked, thanks - PauloNuin

Python for Bioinformatics: quwubin posted a link

BioPythonGUI

Wednesday at 6:00 pm - Link

Ricardo Vidal liked this

why PyGTK? - PauloNuin

Sameer Vasta posted an item on Tumblr

We need more of these in Toronto.

Wednesday at 2:52 pm - Link

They were actually painting one (not official) in Kensington Market (on Pedestrian Sunday, but in real paint, I think, so it should stay). Nassau and Augusta intersection. - Eva

Why would they need that on Kensington Market? It's already messy ... - PauloNuin

I think it was meant as a joke because people cross like that already at that tiny intersection. Not sure, I just saw the wet paint. - Eva

In fact people don't cross there, cars do. - PauloNuin

The Life Scientists: Jan Aerts posted a message

“Does anyone know how to get the uppermost ancestors for a list of gene ontology terms? E.g. "cell motility" would return "localization".”

Wednesday at 12:34 am - Link

Chris Miller, Jason Tsai and Walter Jessen liked this

I'm interested in this answer - more generaklkly is there any tool that can delineate a path between two GO terms? - Rajarshi Guha

I don't know the answer but I remember seeing some Bioconductor modules that traverse GO terms and find ancestors, connections, etc - PauloNuin

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http://bioconductor.org/packag... - PauloNuin

@PauloNuin: have tried using R, but it seems like those 2 packages are really geared towards arrays. I've just got a list of GO terms... But I _will_ look further into the R packages, though. - Jan Aerts

Brian Muller from Medical University of South Carolina had a poster at ISMB about a python library he developed for analyzing and visualizing GO terms and graphs. Might be overkill but I bet it can do what you want. http://www.iscb.org/ismb2008/p... and search for GOGrapher - Shirley Wu

in R: library(GOstats) and then GOMFANCESTOR$"GO:0003700" seems to do the trick - Jan Aerts

I forgot to paste the link to GOstats. :) - PauloNuin

Isn't the uppermost ("is a") ancestor for "cell motility" GO:0008150 (biological process)? Don't need any special code to look that up, it's in the "namespace" field (in the obo format)... - Eric Jain

@EricJain: I wish... It's the one just below that I need... Should have mentioned that it's level 2 (or how do you call that?). - Jan Aerts

Does this help? http://mor.nlm.nih.gov/perl/ge... - Walter Jessen

PauloNuin shared an item on Google Reader

What's aerial wolf gunning, and why does vice presidential Sarah Palin support the practice?

Tuesday at 5:44 pm - Link

Sarah Palin, the governor of Alaska and John McCain's vice presidential pick, is an enthusiastic hunter who has proposed legislation and cash incentives to encourage aerial wolf gunning, the controversial practice of shooting wolves from an aircraft. Do people in Alaska really shoot wolves from planes? - PauloNuin

Chris Lasher posted a message on Twitter

“Dear BioLazyWeb: My previous PI is looking to hire a masters level bioinformatician. On what sites should she post a position listing?”

Tuesday at 8:28 am - Link

EvolDir, Bioinformatics.org, bioinformatics.ca - PauloNuin

Thanks Paulo. I guess there's a pretty short list. I don't know where to post/search for positions, myself, having several years to go before defending. - Chris Lasher

you can of course expand the number of sites. Nature has one too, and there are many others that can be used but would grow astronomically the number of received CVs, etc - PauloNuin

Pierre posted an entry on YOKOFAKUN

I'm not looking for a job anymore: Welcome at the CEPH

Monday at 11:48 am - Link

Björn Brembs, Neil Saunders, Michael Kuhn, Deepak and 2 other people liked this

Congratulations! (To you, and to CEPH for getting you to work for them.) - Bill Hooker

Yay!!! Congratulations old chap. - Deepak

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Great to hear :-) - Lars Juhl Jensen

Congrats! - Sally Church

Congrats Pierre! That's great news :) Cheers. - Ricardo Vidal

congratulations! - Andrew Walkingshaw

Great! Option to extend after 1 year, I hope. I'm sure they'll want to keep you. - Neil Saunders

Thank you all ! - Pierre

Congrats, I knew it when your friend replied to one of your Twitters. Enjoy! - PauloNuin

great news :) good luck on your new job - Pedro Beltrao

Woohoo! Congrats (this was at the tip of Best of the Day for me incidentally) - Cameron Neylon

You need to update your LinkedIn profile now! ;-) - Enro

Neil Saunders posted a message on Twitter

“note to self; should check for gaping hole in rear of jeans before leaving house”

Sunday at 4:43 pm - Link

Björn Brembs and Rajarshi Guha liked this

Haha! - Chris Lasher

you should buy a rear view mirror then - PauloNuin

Berci Mesko posted a message on Twitter

“How expensive is life in Toronto?”

Sunday at 2:13 am - Link

Rent for 1-bedroom apts are $800-$1000, bachelor apts $700-$900. Groceries more expensive than Europe, restaurants same, clothes same - Eva

In other words: cheaper than London, Paris, New York. More expensive than Amsterdam, Berlin. - Eva

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Thank you, Eva!! What about the prices of a typical restaurant? - Berci Mesko

There are a LOT of restaurants, and you can get a meal starting at $5-$10. Average is maybe $20 per person for a mid-scale restaurant. And then there are expensive ones, but I never eat there =) - Eva

Eva's the expert since she lives there. I was trying to think of what good gateway resources would be - Toronto actually has lots of info as it welcomes a lot of immigrants. Maybe http://www.toronto.ca/immigrat... and http://www.thestar.com/living - I don't know any Toronto blogs although I'm sure there are thousands upon thousands. - Richard Akerman

And of course the costs of life "in Toronto" is going to vary widely depending on the neighbourhood, just like any big city. - Richard Akerman

Oh, Toronto blogs! I forgot about those. BlogTO is the best for the purpose of determining cost of living - it has reviews on restaurants and stores http://www.blogto.com (click the "restaurants" tab) My rent examples were based on everything reachable by public transit (which is not that cheap for short trips, but goes lots of places: http://www3.ttc.ca/ ) - Eva

I don't agree with the meal starting at $5-10. It starts at around $10 for a fast food meal. Identical restaurants are more expensive in Canada than in the US. It is the old habit of Canadian dollar worth less than American. Groceries, clothes, cars, public transit also are more expensive here than in the US or Europe. By comparison you spend almost $100 for a monthly metro pass, while the single ride steals 2.75 out of your pocket. - PauloNuin

Are these prices in CAD or USD? I assume CAD but you know the adage about assumptions. - Chris Lasher

CAD $ - PauloNuin

CAD and USD are pretty much the same these days. I only spend $7 when I eat fast food, but I guess I don't eat as much (one food item and one drink) - Eva

Oh wait, we all forgot something important: alcohol is sadly expensive. =( I have never paid as much for alcohol anywhere as I have in Toronto. - Eva

Depends on your lifestyle, you can live frugally or you can find plenty of things to spend more on. Food is inexpensive (Kensington Market is a good international market) but good restaurants aren't. Toronto is nice, though, are you going? - sanki

Just found this. http://www.nationalgeographic.... It includes LOTS of links. I forgot about Cheap Eats Toronto. Don't know why, because I kind of know the writer behind it, but it just slipped my mind! http://www.cetoblog.com/ - Eva

Ricardo Vidal posted a message on Twitter

“bags are packed. heading out to Logan after lunch with family friends. Next tweets will probably be from Europe :)”

Sunday at 8:59 am - Link

have a good trip back. - PauloNuin

Deepak shared an item on Google Reader

The ten most underrated science fiction movies

Sunday at 10:56 am - Link

Not Aeon Flux. It sucks maggot infested big toes. - Deepak

at least eXistenZ is there - PauloNuin

Yeah, the MTV animated series of Aeon Flux was riveting, but I didn't even entertain the idea of watch the movie. - Chris Lasher

I don't know exactly if it really counts as underrated given all the critical acclaim and awards (even an original screenplay academy award) it won, but given its total gross it seems to me that Eternal Sunshine of the Spotless Mind is a terribly underrated SF movie. - Daniel Jurczak

Jamie McQuay posted a message on Twitter

“Checked in for YYZ-->AMS tomorrow.”

August 29 at 1:10 pm - Link

Deepak liked this

YYZ --> AMS FTW! - Eva

AMS - my favorite place to ... eat Argentinian steak :) - Deepak

You can get some very nice Argentinian steak in Chicago and DC - PauloNuin

me too! I always go to La Luna in the Jordaan in Amsterdam - Jamie McQuay

I don't know about steak, but I sometimes miss Maoz: http://www.maozveg.com/pages/s... - Eva

maoz rocks! maar, it is no febo ;-) - Jamie McQuay

Jason Tsai posted a message

“workshop on producing a best alignment, conclusion? no conclusion”

August 29 at 7:59 am - Link

Matt Wood liked this

Best alignments? I've never seen one ;) - Pawel Szczesny

With so much problem on producing a "best" tree.... and this :P - Jason Tsai

There are good alignments, but not many very good/excellent alignments. There are no real alignments. - PauloNuin

PauloNuin bookmarked a page on delicious

Wildcat Toolbox

August 29 at 7:40 am - Link

DTAselect - PauloNuin

Neil Saunders posted a message on Twitter

“anyone really believe that App Engine will support anything but python in the near-future?”

August 29 at 7:32 am - Link

no - PauloNuin

Not with Guido van Rossum in the vicinity. - Matt Wood

@Matt Huh? I'm pretty sure GvR only works on improving Python, not on hamstringing application other languages. - Chris Lasher

Sure - but having him on board must polarize things a little. - Matt Wood

Pierre posted a message on Twitter

“Back from holidays! thousand of mails, feed, FF to read. Pictures to upload in wikipedia”

August 28 at 1:52 pm - Link

Deepak and Pawel Szczesny liked this

Holidays ... how dare you :) - Deepak

Welcome "home" to FriendFeed! - Bill Hooker

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would you care to explain this whole "holiday" thing you wrote about? - PauloNuin

@Paulo: I looked it up: http://www.answers.com/holiday... It sounds good. - Bill Hooker

@Paulo: Holidays: biking, eating, sleeping, reading tech books, trying to catch a public WIFI connection in the street of a lost village in France, learning python, taking pictures to illustrate some articles in wikipedia - Pierre

See you on Monday - Philippe Gesnouin

Hi Philippe ! - Pierre

So I guess you found a new job :) - PauloNuin

Sally Church posted a message

“Here are the top nine comments made by NBC sports commentators, so far, during the Olympics that they would like to take back:”

August 28 at 3:45 pm - Link

stark, Cee Bee, Ricardo Vidal, Daniel Monzelowsky and 14 other people liked this

1. Weightlifting commentator: 'This is Gregorieva from Bulgaria. I saw her snatch this morning during her warm up and it was amazing.' - Sally Church

2. Dressage commentator: 'This is really a lovely horse and I speak from personal experience since I once mounted her mother.' 3. Paul Hamm, Gymnast: 'I owe a lot to my parents, especially my mother and father.' - Sally Church

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4. Boxing Analyst: 'Sure there have been injuries, and even some deaths in boxing, but none of them really that serious.' 5. Softball announcer: 'If history repeats itself, I should think we can expect the same thing again.' - Sally Church

6. Basketball analyst: 'He dribbles a lot and the opposition doesn't like it. In fact you can see it all over their faces.' 7. At the rowing medal ceremony: 'Ah, isn't that nice, the wife of the IOC president is hugging the cox of the British crew.' - Sally Church

8. Soccer commentator: 'Julian Dicks is everywhere. It's like they've got eleven Dicks on the field.' - Sally Church

9. Tennis commentator: 'One of the reasons Andy is playing so well is that, before the final round, his wife takes out his balls and kisses them... Oh my God, what have I just said?' - Sally Church

It's tough to fill 3000 hours of programming with commentary! - Bill Sodeman

LOL - JMS

Yeah, but the last one was a pearler. In the UK we call them 'Coleman Balls' after David Coleman, the commentator was always making them, much to the amusement of the audience - Sally Church

I love this stuff; http://www.btinternet.com/~hom... - Neil Saunders

I've got to start keeping a "First LOL of the day list". Thanks, Sally. - Michael C. Harris

But the best joke I saw is that Cuba didn't win any swimming medals because the best swimmers already escaped to Miami. - PauloNuin

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