Posts by valterc
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1) Message boards : Number crunching : Server Status - No Work Available (Message 1262)
Posted 7 days ago by Profile valterc
We have a lot of experiments in the queue. The computational times are, in this case, very fast and the work generator is not able to fulfill all the users requests.
2) Message boards : News : Another experiment on E. coli (Message 1254)
Posted 22 days ago by Profile valterc

The new ones should have a deadline of five days. The previous one was four, if BOINC is working correctly this shouldn't be a problem, just a smaller cache.


I still see deadlines of four days, not five, what am I missing?. My hosts only run a few hours per day and the slow ones really struggle to complete work on time.

My fault... I thought I did that but actually I didn't.... Anyway, the batch of slow ones is almost completed.
3) Message boards : News : Another experiment on E. coli (Message 1248)
Posted 22 Jan 2018 by Profile valterc
A single workunit should run for ~3.4 hours on our reference computer


Too much long for my FX6300, over 8 hours.
Is it possible to postpone the deadline for these wus?

The new ones should have a deadline of five days. The previous one was four, if BOINC is working correctly this shouldn't be a problem, just a smaller cache.
4) Message boards : News : Another experiment on E. coli (Message 1241)
Posted 17 Jan 2018 by Profile valterc
I just started with a few batches of a new experiment (Ec-1000) which is the most computationally complex even ran here. A single workunit should run for ~3.4 hours on our reference computer (Intel 4770K running Linux, SSE2 version, hyper-threaded cpu with just one core thread used)
5) Message boards : Science : What's the next step?? (Message 1236)
Posted 11 Jan 2018 by Profile valterc
E.Coli has gone.
No Pseudomonas.
V. Vinifera is at the end.

New experiments on the road??

There will be probably another batch on E. coli.
We are also doing some offline testing on human genome data, waiting for preliminary results and also checking if it were feasible to run it on BOINC.
6) Message boards : Preferences : Setting Resource Share for TN-Grid (Message 1231)
Posted 19 Dec 2017 by Profile valterc
New user here! Is there a way to set this project's Resource Share? I am unable to see it on the preferences page.

Thanks!

From your account page, Preferences for this project - TN-Grid preferences, then edit yours resource share.
7) Message boards : Number crunching : Server Status - No Work Available (Message 1217)
Posted 7 Dec 2017 by Profile valterc
Our work generator, for the current experiment, is capable to prepare a batch every 4.5 minutes, any batch is made by 97 workunits, times two for redundancy. The calculation is therefore (60/4.5)*97*2*24 = 62080, this is the maximum number of tasks that we can distribute daily. Other experiments has different numbers.

Another point is that any workunit, with the dataset and parameters of the current experiment, is relatively fast, ie. results come back fast. This got "worse" with the recent application update.
8) Message boards : News : New application (v 1.10) (Message 1214)
Posted 6 Dec 2017 by Profile valterc
Despite the shortage of wus, i'm crunching some 1.10 on my win10.
Also the win version has the same optimizations??

Same version (source code) for all the platforms.
9) Message boards : News : New application (v 1.10) (Message 1212)
Posted 5 Dec 2017 by Profile valterc
A new application version will be distributed soon, starting with the Linux platforms. The new application contains some major speed enhancements and bug fixes. Look at the following thread for further info http://gene.disi.unitn.it/test/forum_thread.php?id=135.
10) Message boards : Number crunching : No work for newly attached machines? (Message 1209)
Posted 1 Dec 2017 by Profile valterc
looking at the scheduler log I found a lot of lines like
Bad authenticator '1140_42646555bcaff2fadd
I really don't know what it is....

... But looking at the server source code (handle_request.cpp) I noticed that this is something related with the 'weak authentication key' (the one used by the gridcoin pools, I guess....)
11) Message boards : Number crunching : No work for newly attached machines? (Message 1208)
Posted 1 Dec 2017 by Profile valterc
One of my teammates is reporting:

"Having a heck of a time getting any work on the machines I added here, they request new tasks and event log just says the request was completed, got 0 new tasks. No error, no out of work, just nothing. Machines that were attached several weeks ago seem to work fine."

What's going on?

We didn't change anything recently. We still have the issue of the work generator not being able to make enough workunits to satisfy user's requests, so sometime there is no work available. Anyway, you may check the newest attached computers (hostid >= 19874) and see that they were able to download some work.

If you give me the hostid of one of the computers you are talking about I may check the server log and see if there is something strange.

[edit] looking at the scheduler log I found a lot of lines like
Bad authenticator '1140_42646555bcaff2fadd
I really don't know what it is....
12) Message boards : Wish List : Future requests (Message 1203)
Posted 24 Nov 2017 by Profile valterc
Francesco (one of our collaborators) is making it, he told me it would probably be ready at the beginning of the next week.

Any update on this? It's a shame to be unnecessarily wasting our CPU time.

I'm in contact with Daniel in order to solve some minor issues, please be patient....
13) Message boards : Wish List : Future requests (Message 1200)
Posted 16 Nov 2017 by Profile valterc
Francesco (one of our collaborators) is making it, he told me it would probably be ready at the beginning of the next week.
14) Message boards : Wish List : Future requests (Message 1196)
Posted 15 Nov 2017 by Profile valterc
Can we possibly make the latest apps from Daniel the official versions? Haven't they been out for about 6 months?

That's something I wanted to do after a system upgrade (operating system), I still haven't find the time (for instance, right now, we are focusing on the work generator) to do this... I'll try my best, maybe the next week...

Thanks, might bug you again next week :-)

Next week is here :-P

Thanks ;-). Just came to do the reminder too!

Yep, this is starting to become 'my apologies thread'.... Notice the 'maybe' in the former sentence ;) I'll wait until we have all the needed versions (the one missing is the one for MacOS)
15) Message boards : News : Another experiment on E. coli (Message 1190)
Posted 11 Nov 2017 by Profile valterc
2:15 h on my R7 1700. :)

better than average!
16) Message boards : News : Another experiment on E. coli (Message 1188)
Posted 10 Nov 2017 by Profile valterc
There is another experiment on Ec floating around, this one uses *very* computing intensive search parameters. An average workunit should last 3-6 hours. As usual we started just with a few batches, the next Monday, if everything goes well, we will put them all into the system.
One side effect of this is that the work generator should be able, during this experiment, to keep the queue full.
17) Message boards : Web site : Statistics export broken (Message 1187)
Posted 6 Nov 2017 by Profile valterc
The statistics XML export (for BoincStats and the like) seems to be broken. Last update is over 2 days ago, where the export used to be done twice a day. Can you look into this?

I also noticed this, now it seems working again, I checked boincstats. (btw I didn't do anything server-side....)
18) Message boards : Number crunching : IMPORTANT: App flagged as Ransomware (Message 1183)
Posted 2 Nov 2017 by Profile valterc
Hi,

The fma app has been flagged up as ransomware and removed by MalwareBytes.

I've now added an exclusion for the BOINC folder.

https://www.imageupload.co.uk/image/EKlb

I compiled it by myself from our source code, many months ago. I'm quite sure that it doesn't contain any malicious code. Anyway, a scan using VirusTotal gave the following results (https://www.virustotal.com/it/file/5e90d85043a707be0d38f657d703d09c90b63dd944b742820085220203873e5a/analysis/1509635813/)

SHA256: 5e90d85043a707be0d38f657d703d09c90b63dd944b742820085220203873e5a Nome del file: gene_pcim_v1.02_win64__fma.exe Rapporto rilevamento: 0 / 67 Data analisi: 2017-11-02 15:16:53 UTC ( 0 minuti fa )

Just (another) false positive, do not worry!
19) Message boards : Wish List : Future requests (Message 1182)
Posted 2 Nov 2017 by Profile valterc
Can we possibly make the latest apps from Daniel the official versions? Haven't they been out for about 6 months?

That's something I wanted to do after a system upgrade (operating system), I still haven't find the time (for instance, right now, we are focusing on the work generator) to do this... I'll try my best, maybe the next week...
20) Message boards : News : Another experiment on E. coli (Message 1178)
Posted 30 Oct 2017 by Profile valterc
But i continue to download and crunch Vitis Vinifera....

...as explained a few posts above... The E. coli experiment is almost finished (see the 'science' link from the home page)


Ok, thank you.

P.S. i thinked that the new experiment on e.coli could bring new work. My misunderstanding

Always waiting for Pseudomonas :-P

We are still doing experiments on Pa (in direct contact with some biologists here), but not using the BOINC system, A single gene expansion on this organism is *really* fast, a simple dedicated (not too powerful) workstation is enough for now.


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