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Message 27537 - Posted: 4 Dec 2012 | 11:10:00 UTC
Last modified: 4 Dec 2012 | 11:10:45 UTC

A great new paper entirely done on GPUGRID. Thanks guys.
http://www.imim.es/news/view.php?ID=159

Photos and comments on facebook:
http://facebook.com/gpugrid

gdf

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Message 27538 - Posted: 4 Dec 2012 | 12:25:30 UTC - in response to Message 27537.

A really good piece of research. Congratulations to everyone involved

I found the press release and Abstract readily readable and easy to understand - it's in plain English, rather than an exercise in introverted scientific nomenclature. The way it should be. Hopefully many people without scientific backgrounds will at least get the gist of it.

I would still like to see a video, the full feature length 1/1000 of a second version ;p
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Message 27539 - Posted: 4 Dec 2012 | 12:45:39 UTC

amazing result

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Message 27540 - Posted: 4 Dec 2012 | 13:24:41 UTC

CONGRATULATIONS TO ALL WHO HELPED!!!!!!

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Message 27546 - Posted: 4 Dec 2012 | 18:13:36 UTC

Congrats to all crunchers, me not included as all my tasks error out with failures in swanlibnv2.cpp :(
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Message 27547 - Posted: 4 Dec 2012 | 18:56:02 UTC

Was that the paper one of these?

Buch et al, PNAS 2011 methods
Buch et al, J. Chem. Theory Comput. 2011

If it was, I was involved in helping out and I'm glad that I was involved in the work. If not, I'm sad that my graphics card was not involved in these developments.

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Message 27548 - Posted: 4 Dec 2012 | 19:29:25 UTC

Your sure one of them is new ? I dont see any new badge in my profile and im 24/7 cruncher so i think there is no new one ;)
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Message 27552 - Posted: 4 Dec 2012 | 21:12:01 UTC - in response to Message 27548.

This is different research:

Kinetic characterization of the critical step in HIV-1 protease maturation
S. Kashif Sadiqa,1, Frank Noéb, and Gianni De Fabritiisa, - approved October 16, 2012
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Message 27553 - Posted: 4 Dec 2012 | 21:24:45 UTC - in response to Message 27552.

Badges are being printed... :-)

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Message 27554 - Posted: 4 Dec 2012 | 21:54:23 UTC

Wow had now time to read the paper. Seems to be a very big step forward for hiv research. Congrats to all of us :)
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Message 27563 - Posted: 5 Dec 2012 | 4:55:11 UTC - in response to Message 27554.

Hello! I`am happy to be part of this :-)

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Message 27569 - Posted: 5 Dec 2012 | 16:24:27 UTC

Badges are being printed you say?

Maybe this will be my first badge. Been here since March and still have a big white space.

Hopefully I helped in this one.

Keep up the great work guys. Love supporting this project.

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Message 27570 - Posted: 5 Dec 2012 | 18:46:41 UTC - in response to Message 27537.

Beyond the badges, which are nice, could GPUGrid.net set up a formal system for sharing these publications with the members who contributed the GPU time which makes articles like this one possible (e.g. an email address such as publications@gpugrid.net where users can personally request that an electronic copy be sent to them?)

I'd really like a PDF of "Kinetic characterization of the critical step in HIV-1 protease maturation" if that can be done.

And congratulations to the scientists for getting this important research published!

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Message 27624 - Posted: 9 Dec 2012 | 14:57:36 UTC

How long does it normaly take to see the new badge in profile? :)
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Message 27631 - Posted: 10 Dec 2012 | 11:39:50 UTC
Last modified: 10 Dec 2012 | 11:45:13 UTC

Badges updated! Congrats to all who have a new water molecule on the left!

Edit: Hey! Even I got one. Nice!

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Message 27632 - Posted: 10 Dec 2012 | 12:46:14 UTC - in response to Message 27631.

Thanks for your efforts to maintain the badge system, and congratulations.
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Message 27633 - Posted: 10 Dec 2012 | 13:22:51 UTC
Last modified: 10 Dec 2012 | 13:32:05 UTC

Uii a gold one *claps proudly in his hands and raises the throughput for ruby next time* ^^

Thx to all!!
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Message 27634 - Posted: 10 Dec 2012 | 13:28:06 UTC
Last modified: 10 Dec 2012 | 13:28:24 UTC

Now i see it. Thank you!

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Message 27637 - Posted: 10 Dec 2012 | 13:56:44 UTC - in response to Message 27570.

Beyond the badges, which are nice, could GPUGrid.net set up a formal system for sharing these publications with the members who contributed the GPU time which makes articles like this one possible (e.g. an email address such as publications@gpugrid.net where users can personally request that an electronic copy be sent to them?)

I'd really like a PDF of "Kinetic characterization of the critical step in HIV-1 protease maturation" if that can be done.

And congratulations to the scientists for getting this important research published!


Hi TarHeal. While we would like to make the publications freely available to the users, it is often up the the publication company as to whether that is allowable or not. We can get in legal trouble if we do it against their wishes. Many times they do not allow it, since much of their revenue comes from subscriptions or purchases of individual papers.

If you think, "But public money and my time volunteering paid for this research, and it should therefore be publicly available", then I 100% agree with you. There is currently a large debate in the scientific community over this exact topic. Many of us scientists believe that publicly funded research should be available to the public free-of-charge, for obvious reasons. They already paid for it. Some journals do in fact operate this way. The best example are the PLoS journals.

Sadly, public access is not the principal criteria most scientists use to decide in which journals to publish. Why? Scientists are often judged in grant and project proposals by the quality of their past publications. One of the principal ways in which past publication quality is judged is by the impact factor of the journals in which they publish. Journals such as Nature, Science, and PNAS (among many others) have high impact factors. For a scientist wishing to win more money to perform more and better research, it is critical to publish in these journals. These journals also typically don't allow public access to the publication. Occasionally they do, but most of the time they don't. It is a vicious cycle.

Things are this way mainly for historical reasons, as many of the "best" journals gained their popularity in a time period where publishing and distribution costs were high (back when they had to print and deliver a physical copy of the journal). This has obviously changed drastically over the past two decades with the rise of the PDF document and the internet.

If you feel strongly about this subject, I urge you to contact your government representative about the issue, and also contact the publication companies as well. There are good arguments on both sides, but it's clear that things should change somehow. The more public attention this gets, the more quickly we can move to a better system.[/url]

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Message 27639 - Posted: 10 Dec 2012 | 17:12:54 UTC - in response to Message 27637.

The problem isn’t entirely with the publication system. Intellectually inaccessible research publications are not what crunchers want to read, so it doesn’t really matter if the papers are published with property rights. Most crunchers would struggle to understand most research publications, from any research area, let alone be able to analyse their significance within that narrow field of scientific research and understand the greater scientific or medical implications.

So links to the papers are fine, for those working within or close to the research, but for most crunchers, publications would be perplexing, rather than interesting.

It's down to the research team to reach out to the general public and make the research more accessible and interesting, especially to the crunching community.

Although there were big changes made to the GPUGrid site last year, better constructed research areas with improved background educational material would make the research more accessible. Presentations, more videos, and discussions would make it more interesting, and more interactive. Then the papers might be of more interest to crunchers.
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Message 27641 - Posted: 10 Dec 2012 | 18:28:08 UTC - in response to Message 27639.

No badge for me... :-(

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Message 27643 - Posted: 10 Dec 2012 | 21:17:25 UTC - in response to Message 27631.
Last modified: 10 Dec 2012 | 21:18:26 UTC

Badges updated! Congrats to all who have a new water molecule on the left!

Edit: Hey! Even I got one. Nice!

Congratulations to all of us!

Here are the top 20 contributors:
1st: Stoneageman
2nd: comfortw
3rd: escape
4th: whizbang
5th: netwraith
6th: me
7th: tng*
8th: Venec
9th: werdwerdus
10th: 123bob
11th: Chris Scheibner
12th: Bikermatt
13th: CaptMorgan451
14th: skgiven
15th: ???
16th: ftpd
17th: Nikke
18th: Niels Kornoe
19th: dajeepster
20th: Jason Gledhill

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Message 27644 - Posted: 10 Dec 2012 | 23:56:37 UTC

Sweet, my first badge. I guess I either caught the tail end of this one, or it was a short run.

As always, keep up the great work Devs. This project rocks

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Message 27648 - Posted: 11 Dec 2012 | 8:57:50 UTC - in response to Message 27644.
Last modified: 11 Dec 2012 | 8:58:05 UTC

I guess the 15th is Herb . Thanks to everybody.

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Message 27650 - Posted: 11 Dec 2012 | 9:28:51 UTC - in response to Message 27643.

Badges updated! Congrats to all who have a new water molecule on the left!

Edit: Hey! Even I got one. Nice!

Congratulations to all of us!

Here are the top 20 contributors:
1st: Stoneageman
2nd: comfortw
3rd: escape
4th: whizbang
5th: netwraith
6th: me
7th: tng*
8th: Venec
9th: werdwerdus
10th: 123bob
11th: Chris Scheibner
12th: Bikermatt
13th: CaptMorgan451
14th: skgiven
15th: ???
16th: ftpd
17th: Nikke
18th: Niels Kornoe
19th: dajeepster
20th: Jason Gledhill

Where did you find this ranking?
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Message 27658 - Posted: 11 Dec 2012 | 21:50:57 UTC - in response to Message 27650.
Last modified: 11 Dec 2012 | 21:54:24 UTC

Congratulations to all of us!

Here are the top 20 contributors:
1st: Stoneageman
2nd: comfortw
3rd: escape
4th: whizbang
5th: netwraith
6th: me
7th: tng*
8th: Venec
9th: werdwerdus
10th: 123bob
11th: Chris Scheibner
12th: Bikermatt
13th: CaptMorgan451
14th: skgiven
15th: Herb
16th: ftpd
17th: Nikke
18th: Niels Kornoe
19th: dajeepster
20th: Jason Gledhill

Where did you find this ranking?

Nowhere. That's why I made it.
Actually I was curious about the 5 volunteers who put me on the 6th place)
(Thanks Toni for the 15th)

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Message 27659 - Posted: 11 Dec 2012 | 21:52:23 UTC - in response to Message 27641.

No badge for me... :-(



Knowing a bit about Academic papers, and the review process, I wouldn't be surprised if the tasks for these papers often finish running at least a year, if not almost 2 years before the paper gets published. Even longer if the journal it is submitted to has a backlog of submissions. I mean after the numbers are crunched the scientists need to get the data into a presentable form, write/ polish the paper, then submit it for review, and then the waiting starts. I worked on a paper that was out for submission for 9 months before we were even contacted for acceptance.
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Message 27687 - Posted: 13 Dec 2012 | 17:31:06 UTC

From what value it depends witch place i get? Based on runtime? Or number of workunits? Or average gflops? Or whatever? :)
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Message 27689 - Posted: 13 Dec 2012 | 19:55:52 UTC - in response to Message 27687.

I think it's credit from that research, but it could be WU's completed or even steps - not that there would be much difference between either system in terms or rank or research %age/water molecule colour.
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Message 27691 - Posted: 13 Dec 2012 | 20:38:23 UTC - in response to Message 27659.

No badge for me... :-(



Knowing a bit about Academic papers, and the review process, I wouldn't be surprised if the tasks for these papers often finish running at least a year, if not almost 2 years before the paper gets published. Even longer if the journal it is submitted to has a backlog of submissions. I mean after the numbers are crunched the scientists need to get the data into a presentable form, write/ polish the paper, then submit it for review, and then the waiting starts. I worked on a paper that was out for submission for 9 months before we were even contacted for acceptance.

Thank you, i`am crunching only since a few months...that`s why i didn`t get a badge...

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Message 27704 - Posted: 15 Dec 2012 | 6:38:05 UTC

:) first badge for me!
congratulations on your success!
I'm glad I was able to assist you in between my gaming!

Looking forward to more results in the future.

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Message boards : News : New PNAS paper has been published using results from GPUGRID