An idea to resolve checkpointing problem...

[szopler]

I've tried to use virtualbox virtual machine with Debian inside to crunch RNA and also its snapshot mechanism to prevent lose of data when I turn of the computer.
It works fine so i think that you should modify your project to use virtual machine with automatic snapshots instead of no checkpointing 10 (and more) day LONG workunits.

PS.
In project Climate@Home it works fine

[ChristianB]

Thanks for this tip. We already discussed the new virtualboxwrapper feature of BOINC but don't have the manpower to test and implement into RNA world at the moment. As it is not easy for volunteers to set up a Virtual Machine on there own and there are no easy works-for-all instructions this approach is for the more experienced volunteers only.

[Michael H.W. Weber]

In fact, I am planning to write up a brief instruction on how to install a VM manually with RNA World.
Many people, however, do *NOT* like to use VMs especially in DC because it is less effective computation-wise (7-15% reduced throughput would be the approximate price for having checkpointing with such an approach).

Michael.

[jon b.]

Does version 1.1 of Infernal support checkpointing?

[jon b.]

In fact, I am planning to write up a brief instruction on how to install a VM manually with RNA World.
Many people, however, do *NOT* like to use VMs especially in DC because it is less effective computation-wise (7-15% reduced throughput would be the approximate price for having checkpointing with such an approach).

7-15% reduced throughput is better than 100% computation loss due to reboot, power failure, etc.

[Michael H.W. Weber]

Does version 1.1 of Infernal support checkpointing?

No. But 100-fold performance increase.

In fact, I am planning to write up a brief instruction on how to install a VM manually with RNA World.
Many people, however, do *NOT* like to use VMs especially in DC because it is less effective computation-wise (7-15% reduced throughput would be the approximate price for having checkpointing with such an approach).

7-15% reduced throughput is better than 100% computation loss due to reboot, power failure, etc.

Of course, but still there will be people not willing to use it. Which is OK for me.

Michael.

[jon b.]

Does version 1.1 of Infernal support checkpointing?

No. But 100-fold performance increase.
Michael.

Will this version be implemented?

[Michael H.W. Weber]

Yes.

Michael.

[jon b.]

When version 1.1 is implemented, it would be nice if running the applications in multithreaded mode could be enabled/disabled, and the number of cores used set in the project settings.

[Michael H.W. Weber]

The 100-fold speed increase relates to single core computation, so a quad core machine could reach 400-fold.

Michael.