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Topic: Find-a-Drug to Close - 16th December (Read 24741 times) Print
FluffyChicken

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Find-a-Drug to close
The Find-a-Drug project has now processed more queries than the original 250 we envisaged. We have also targetted most of the recognised protein targets for the major project areas. Where we have been able to obtain experimental data to confirm biological activity, the predictions have exceeded our expectations. Our experience suggests that it will be difficult to find collaborators who will be interested in the results of targetting proteins whose biological function is unknown or of little therapeutic interest.

We have concluded that there are insufficient worthwhile protein queries to continue the project into 2006 and have decided to close the project on 16 December 2005. We will continue to make some new queries available over the coming weeks but will not accept results after the close of the project.

We are obviously very grateful for the contributions of members and will continue to work with our collaborators.

http://www.find-a-drug.org.uk/news.html and the Forum

Kind of a  Cheesy  but certainly a  Cry  Cry
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PiNkY

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*squeek*

that's....interesting... Eh



um...i guess...congrats to the FaDers for getting through all that data(or did my sleepy mind read that incorrectly?) Cheesy Thumbs Up
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proxima
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Gutted...  But also proud of what we've achieved on the whole project, thanks to Keith for all his hard work.

Hopefully this forum will be a good place to discuss where we all go from here (after the next 6 weeks of hard THINKing, that is)...

Tom
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PiNkY

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*squeek*

indeed Thumbs Up


kinda funny, i just got an email earlier tonight asking for my thoughts on various projects...was going to offer FaD as one of the places to check out, though guess it's a good thing i delayed replying. Smiley  would hate to have someone jumping projects several times.


edit: deleted the second thread....delayed double posting or something. Tongue
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Scribe

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Scribbling to Order

I am looking at BOINC as they now have a selection, not just SETI.....it certainly will not be UD though!
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Dark Angel

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Only slightly cranky

Cry  :python:  
<Cartman>
That is not kewl!  Chopping off FaD is not kewl!
</Cartman>

So now what?  Huh
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vaio

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[email protected] cheerleader and Mod!!!

Looks like it's back to WCG for me.
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We eat pie not count Pi
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VAIO GRX616

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'Nix n00b

I hope WCG get that Linux client working good and quick!
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Cousin Caterpillar

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Wake me up when it's my turn.....zzzzzzzZZZZZZZZZ

Quote from: "VAIO GRX616"
I hope WCG get that Linux client working good and quick!


Aye Thumbs Up
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fingerle

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WOW...  We crunched them out of a job.  Shock Definately going to need the WCG Linux agent.
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fingerle

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Then again, there is Folding..... Already got a team goin over there.
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phicks

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This is very sad.  Not only because of the project but I really like the folks at the site.  Will miss them.  Cry  Folding does sound promising.  Isn't that the site with the nazi mods?  Huh
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VAIO GRX616

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'Nix n00b

There are 'nasty' mods everywhere Phicks  Shock

 Tongue
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fingerle

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Phicks...  I wouldn't know...  I don't remember ever logging in to thier forum.  I just "guest" there when looking for info.
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Hanski

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Quote from: "VAIO GRX616"
There are 'nasty' mods everywhere Phicks  Shock

 Tongue


Even HERE??  Shock












 MrGreen
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Ghost Plane

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Here is a special place. MrGreen
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VAIO GRX616

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'Nix n00b

Quote from: "Ghost Plane"
Here is a special place. MrGreen


A special place with special people  Fridaynite
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Teletraan

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Surprising news. The worst part is now I don't have a viable alternative to draw people away from grid/UD, in terms of cancer-specific work  MrGreen
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fingerle

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I seem to remember reading that WCG is getting ready to possiby pick up a cancer project..
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VAIO GRX616

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'Nix n00b

WCG have just released a Linux client  Cool

That should help  Smiley
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Teletraan

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Quote from: "fingerle"
I seem to remember reading that WCG is getting ready to possiby pick up a cancer project..


I read that as well. Let's hope it pans out.
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fingerle

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Lots of people are looking forward to a possitive outcome on that topic.
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comp_interrlz

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Maybe a few well placed posts in the FaD forums showing team members and friends over there to thedczone.com to carry on the conversation would be a good idea

Maybe get them into our teams to crunch united
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Teletraan

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That's a good idea.
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USAFA 82

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Nasty mods.... humph!

Saw the news about FaD when I checked messages over at WCG.  I liked FaD for the variety of diseases you could crunch for.  I'm bummed that it is shutting down.  

I read also that WCG is looking at coming out with a cancer project.  I'm encouraged by that.  The HPF project also benefits cancer research, however:

Quote
By identifying the proteins that make up the Human Proteome, scientists can build the understanding needed for novel and effective treatments for diseases like cancer, HIV/AIDS, SARS, and malaria.


When/if grid deploys a new agent and hardware, I'll probably devote more machines back to that project, but I'm very comfortable with WCG for the time being.
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phicks

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I have too many painful UD flashbacks looking at WCG.  lol


Code:
There are 'nasty' mods everywhere Phicks


Not at BBF.  Back Off
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VAIO GRX616

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'Nix n00b

Quote from: "phicks"
Not at BBF.  Back Off


Where's that then?
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phicks

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http://www.bitbenderforums.com

The team I belong to.  Tongue
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VAIO GRX616

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'Nix n00b

Quote from: "phicks"


Seems like a good place  Cheesy

Looking through some of the threads looks like the BBF FaD team will be moving to FaH.  Anyone considered WCG?  There have been postings over there that imply WCG may be moving away from the UD software in the future, to BOINC - as with their new Linux client.
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Scribe

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Scribbling to Order

I am trying BOINC out at the moment.........
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phicks

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No one has posted about WCG there.  I don't know much about it either.  You welcome to if you like.  We already have some linux folks that would be left out till they got their linux client going.  Confused
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caroline

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I suspect a problem with WCG is some are still sore about the way the UD admin treated their volunteers. WCG and UD are connected aren't they?  Eh
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Teletraan

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They are both working on data from the same project at the moment and they both use the same software, but WCG is run by a completely separate group of people, as far as I know. And it shows.
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fingerle

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Other than the HPF project (And the simple fact they both run UD software)  They are two completely different entities.  At WCG it usually doesn't take long before there is Tech involvement on a question.
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vaio

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[email protected] cheerleader and Mod!!!

.and the client works...and the stats work.........the only iffy thing is the choice of forum software.
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PiNkY

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*squeek*

wcg has potential, but i tend to feel more comfortable knowing a place has more of a track record...lack of one isn't necessarilly a bad thing, just personal preference.  being a newer project, they're all still pretty active in improving it and such, like the new linux client that came out.  their setup is pretty much a copy of what grid has, though they work independently of them, aside from sharing the same rosetta project at the moment.


random thoughts on folding since it happens to be where i'm at. Tongue  folding is the place with nazi forums as had been mentioned earlier.  by nazi forums...mostly it's just not the place if you're looking for something that allows for community...they do well for helping out with problems or looking at things from a science point of view, but if you want to have say a team thread and plan to post in it more then twice a week, you'll be shut down.  kinda silly of them, though as it's been fine doing this for how long, it's not the most necessary feature.  the one downside would be you don't have much choice over the project you do...it tends to be take what you get.  the work they have does get applied to many things...not necessarilly a cure, but studying i guess the role proteins play in different illnesses.  to go along with the hunt everyone seems to have for cancer work...one of their more recent published results was actually one of the first, if not the first, peer-reviewed cancer related results from a distributed computing project, on some protein that's apparently a tumor suppressor.  the paper itself goes way over my head, though it's good to see the work being put to use, anyhow.
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phicks

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If they are unrelated why did UD have an advert for WCG on their page?  Huh
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PiNkY

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*squeek*

the unanswered mystery lol


grid doesn't answer, wcg will deny connections Tongue
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fingerle

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Related by software....    Why it's on the main page when we are not welcome to talk about it in the forums is beyond me.
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phicks

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Seems iffy to me.   Thinking   lol
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Teletraan

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Quote from: "PiNkY"
wcg will deny connections Tongue


wouldn't you?  MrGreen
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PiNkY

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*squeek*

Quote from: "Teletran"
Quote from: "PiNkY"
wcg will deny connections Tongue


wouldn't you?  MrGreen

 lol
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phicks

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Quote from: "Teletran"
Quote from: "PiNkY"
wcg will deny connections Tongue


wouldn't you?  MrGreen


Hehe  lol
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Dark Angel

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Only slightly cranky

I just read this:
Quote
In fairness to [email protected], they claim not to be interested in actual protein prediction, but rather the making of them. However, I have heard (but no firm proof) that the [email protected] people did try some protein predictions based on their data and that they were far from correct.


If the work we do isn't worth a pinch, I'll just play games and cycle down.
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"Build a man a fire, and he'll be warm for a day. Set a man on fire, and he'll be warm for the rest of his life." -Terry Pratchett
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PiNkY

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*squeek*

interesting find...source?
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Dark Angel

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Only slightly cranky

The full post, from Notorious Biggles, that I cut that from:

Quote
Might want to google this phrase: Critical Assessment of Techniques for Protein Structure Prediction

I've also come across this website, that has scores and stuff from the trials on it: http://www2.predictioncenter.org/casp/casp6/public/cgi-bin/groups.cgi

In fairness to [email protected], they claim not to be interested in actual protein prediction, but rather the making of them. However, I have heard (but no firm proof) that the [email protected] people did try some protein predictions based on their data and that they were far from correct.


URL:  http://www.find-a-drug.org.uk/forums/viewtopic.php?t=5651&postdays=0&postorder=asc&start=0
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"Build a man a fire, and he'll be warm for a day. Set a man on fire, and he'll be warm for the rest of his life." -Terry Pratchett
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john galbraith

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Quote from: "fingerle"
Related by software....    Why it's on the main page when we are not welcome to talk about it in the forums is beyond me.


It's on the main page because it adds cache, which ud sorely needs, also because IBM is a customer, having paid to use the software.  It is simply advertising.
I think some folks are using guilt by association here and it is inappropriate in this instance.  UD's problems were caused by antique equipment and old database software, two things that, I'm sure, will not be issues for anything run by IBM.
Pinky, I don't understand your reticence about WCG.  It has been running for a year with only minor and brief server issues which can (and have) affect(ed) any project.
Could these feelings of mistrust be caused by a case of "Big Brother" association?  I would hope that intelligent people would be more enlightened than that.
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VAIO GRX616

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'Nix n00b

I'm very much with John on this one.  The only 'issue' I have with WCG is their over-censorship - but this surely isn't a bad thing considering that they are hoping to attract all types, including younger members.
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caroline

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sheesh, I HATE over censorship, that's what was so good about FAD...threads could evolve...there was nil trolling, and nil mod interference  Sad

BBF is good Kiss
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PiNkY

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*squeek*

Quote from: "john galbraith"
Pinky, I don't understand your reticence about WCG.  It has been running for a year with only minor and brief server issues which can (and have) affect(ed) any project.
Could these feelings of mistrust be caused by a case of "Big Brother" association?  I would hope that intelligent people would be more enlightened than that.

it could be that.  i think there are many positives to wcg, though experience from grid causes me to look at things from a broader point of view.  as i said earlier, my main concern is they've only been up a year...which points to a lesser amount of experience in things.  and like i said earlier, this isn't a bad thing, i'm personally facing the same trouble with something unrelated in real life, just personal preference.  for example, their recent server outage...while every project has their outages, it seemed like a lot of run around trying to figure out what was going wrong...i don't remember exactly what, but it seemed like outage was something new to them, something they hadn't had before.  of course it'll be new to everyone the first time it happens, though i prefer some place that's already been through it.  if it had been running for a while and they'd seen the ups and downs and how to tackle them quickly, my mind would be more at ease.  don't read me wrong, i'm not saying it's a bad place to be, just saying i personally would rather a place that's been around longer.

other quick things about it i'm not the happiest with are rosetta (isb can't answer what i thought was a simple enough question, leads to more unanswered questions, though i became suspect of trying to take the project down by asking so i stopped asking), and since 95% of the time i'm running linux.....despite new linux client, i'd rather not play guinea pig Tongue
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fingerle

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The censorship doesn't bother me so much since Pinky set up the Zone.
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R G
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For the last ten days my FAD output has been somewhat lower than in previous weeks. For a while I have been doubting whether the technique of random screening is the most efficient, and whether the large drug companies seeming lack of interest is well, a genuine lack of interest. Is it not possible, if not probable, that knowing the targets structure, they have software that can generate chemical structures, intelligently, that will bind to the target.

Also, in many of the biomolecular DC projects, there is a seemingly  overabundance of contributing volunteers, thus targets are being excelled, and new data, perhaps,  too hastily prepared. I have looked at some of the smaller DC projects, where a single volunteer can make a significant contribution, and have settled for Stephen Brooks "Muon1 Distributed Particle Accelerator Design" project, which is proving stable under winXP, alas, there does not appear to be a version for Linux, so I still need to seek a suitable project when playing under Linux.
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john galbraith

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Quote from: "VAIO GRX616"
I'm very much with John on this one.  The only 'issue' I have with WCG is their over-censorship - but this surely isn't a bad thing considering that they are hoping to attract all types, including younger members.


I've not personally seen, nor even heard of an instance of censorship at the WCG forum.  Compared to ud, they are a model of restraint.
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john galbraith

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Quote from: "PiNkY"
.....despite new linux client, i'd rather not play guinea pig Tongue


Reading about linux in these forums, in literature and other forums on the 'net, it appears to me that being a guinea pig is a major part of the continually evolving linux experience.  I would think you would welcome such an opportunity.
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PiNkY

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*squeek*

Quote from: "john galbraith"
Quote from: "PiNkY"
.....despite new linux client, i'd rather not play guinea pig Tongue


Reading about linux in these forums, in literature and other forums on the 'net, it appears to me that being a guinea pig is a major part of the continually evolving linux experience.  I would think you would welcome such an opportunity.

i don't mind playing guinea pig for usability of things, but when it comes to something like a dc project, i like the set it and forget it [email protected] has a stable client for that. Smiley
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EvoDude

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Quote from: "fingerle"
Then again, there is Folding..... Already got a team goin over there.


Guess you'll be getting a new member in [email protected] soon fing! Have you tried running it alongside WCG yet?
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fingerle

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Yup...   works just as well as FaD and WCG...   runt the text agent tho. CPU time shareing stays real close to 50/50.
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WildWilber

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Quote from: "john galbraith"
Quote from: "VAIO GRX616"
I'm very much with John on this one.  The only 'issue' I have with WCG is their over-censorship - but this surely isn't a bad thing considering that they are hoping to attract all types, including younger members.


I've not personally seen, nor even heard of an instance of censorship at the WCG forum.  Compared to ud, they are a model of restraint.


Feel the same here John.

Anyway for me, I started [email protected] very early on and grid.org the day it went live and I never regretted doing either. Well… Rolleyes
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PiNkY

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*squeek*

i think the censorship was in regards to language and such...some tend to think they go overboard on what should and shouldn't be editted.
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Matt3223

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wow, FAD has crunched up all there is to crunch!  Hope the dataa helps folks out!!!!!

Glad we have this forum here too!!!!  Will help keep everyone connected!

Me?  I'm [email protected], and running [email protected], I kinda like where BOINC seems to be heading, works good for [email protected] and all BOINC forums are lacking though............

looks like the awesomely kewl BeOS team forum, and here at the great DCZone is where I'll be hanging out.


Keep them PCs running somewhere!!!!!!
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fingerle

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Shock  Shock  WOW!  Any body check out the specs for [email protected]?  Shock  Shock



Windows XP  500MHz or higher CPU  200MBDisk space  512MBram

Got the same listed for all OS except Mac
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phicks

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Yep I did and that was as far as I got.
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fingerle

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I Wonder if thats actual minimum, or what they are reccomending.
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EvoDude

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Missing Kiwi

Either way that pretty well restricts their membership to people with Cray type CPUs  Hoghappy
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fingerle

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I'm thinking about loading them up, and seeing if the software enforces the limit.
512mb shared on the notebook. I'll max the video share and see if it still works.
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phicks

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I thought it had promise as well.  My computers meet the requirements but I'm sure others on the team don't.  No point in it if all my teamies couldn't run it.   Confused
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Dark Angel

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Only slightly cranky

I'm just reading the faq's there.  It really does use that much memory.  Even at 512 some folks get horrid system slowdown with the client running or big swap file usage.
Too rich for me I'm afraid.   Doh
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"Build a man a fire, and he'll be warm for a day. Set a man on fire, and he'll be warm for the rest of his life." -Terry Pratchett
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phicks

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Wow that sucks.  Rolleyes
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fingerle

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Hmmm.. I might just stick with folding then. Notebook seems happy with it.
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Scribe

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Scribbling to Order

I am running Rosetta thro BOINC with only 512 RAM....it zips through with no probs.
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Dark Angel

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Only slightly cranky

If my team decides to go that way, I'll give it a try.  My primary machine only has 384MB though.  Frankenstein has 512 but it's tempremental about graphics and changing programs while running.
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"Build a man a fire, and he'll be warm for a day. Set a man on fire, and he'll be warm for the rest of his life." -Terry Pratchett
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Didn't seem to be much interest with it over there DA.

If you're really interested in it you need to say so.  You never know there might be others who are to.
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Dark Angel

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Only slightly cranky

SO it looks like Folding is getting the nod then?
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"Build a man a fire, and he'll be warm for a day. Set a man on fire, and he'll be warm for the rest of his life." -Terry Pratchett
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fingerle

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I've never had a problem running thier agents either on Win or Linux. Tho to save on system resources I recommend running the text version.
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Dark Angel

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I've started a poll at home so let's see what comes out.
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phicks

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Quote from: "Dark Angel"
SO it looks like Folding is getting the nod then?


Seems that way to me right now.   Popcorn  Will keep an eye on your poll though.  Wink
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fingerle

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Well, Boinc just lost some major points with me...  Make account d/l software......   THPTHPTHPTHPTHPTP

No Work.....   Sad   Workin on it...    Thinking Now where have I read that before???
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jan649

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Thinking  Sweep I know.... some place where they do a lot of house keeping rofl
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Hehe  lol
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fingerle

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Folding is working....  MrGreen
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Dark Angel

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Just ask your wife!

<ducks>
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Quote from: "fingerle"
Well, Boinc just lost some major points with me...  Make account d/l software......   THPTHPTHPTHPTHPTP

No Work.....   Sad   Workin on it...    Thinking Now where have I read that before???
That is only ONE project at BOINC, there are others there that are fine
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fingerle

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True.  Didn't say I was done with them.  Just that they lost points with me.  The folding and predictor are the two that I have intrest in.
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[DPC]Sentinel69

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Well I am very glad for FAD ,but hey ,what should I do after that?? No way I am ever going to return to UD but I only want to crunch for cancer for personal reasons. I was just glad that I finally found something that was running without problems and outages.And offcourse their unsensored forum  
 Fridaynite

Any recommendations are welcome MrGreen

gr,
Irene
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Dark Angel

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Only slightly cranky

Team BBT has moved to World Community Grid (no it's NOT UD.  Different administration, backing and attitude.  Cancer work coming early next year)
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"Build a man a fire, and he'll be warm for a day. Set a man on fire, and he'll be warm for the rest of his life." -Terry Pratchett
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STARBASEn

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Quote from: "Dark Angel"
Team BBT has moved to World Community Grid (no it's NOT UD. Different administration, backing and attitude. Cancer work coming early next year)

Ah cool... if WCG starts issuing Cancer jobs early next year, that's encouraging and perhaps where I'll take my 5 soon to be 6 starbases.  Was planning on shutting down due to no cancer options other than ... uh, that other place after FaD shut down.  Also encouraging WCG offers a Linux client as I have been Linux only for the 3 months I've been crunching for FaD.  No Sony DRM rootkits on my machines Thumbs Up  Plus I don't need to set the agent to crunch under Wine anymore Cheesy  Guess I could fold until then.
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Scribe

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Scribbling to Order

...they have now also started their HIV......
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[DPC]Sentinel69

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Guess my pc's are going to be silent for a while  Rolleyes
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USAFA 82

Musafa
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Irene,  Keep in mind the following:

Quote
The Human Proteome Folding project will provide scientists with data that predicts the shape of a very large number of human proteins. These predictions will give scientists the clues they need to identify the biological functions of individual proteins within the human body. With an understanding of how each protein affects human health, scientists can develop new cures for human diseases such as cancer, HIV/AIDS, SARS, and malaria.


I lost my mom and uncle to cancer a few years ago, which is what prompted me to join grid.org in 2001.  Now I primarily crunch at WCG because understanding HPF can lead to a cure for cancer.  

You can view a layperson's explanation of the Human Proteome Folding Project here.
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vaio

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[email protected] cheerleader and Mod!!!

I see the likes of WCG and Folding as "disease non-specific" but with the potential for many many applications etc down the line.

Ruling things out is as important as ruling them in.
Every project in every area narrows the search that tiny bit more.....if that makes sense  Confused

I need to sleep more
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FluffyChicken

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Quote from: "Scribe"
...they have now also started their HIV......


I thought it was AIDS specific, although I did skim over the literature and often don't notice the HIv part, it is the project that was [email protected] under BOINC and is now [email protected] and only usable by the Windows UDer, the Linux (and Windows) BOINCers will be able to in a few weeks.  A large funding I gather came from the Gates Foundation.

Not sure on the type of crunching it is though.  Screening ? Research? Testing ?   Too much to read and try to understand and that's just the laymens term parts   Coffee
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