Thanks,

Ross

---

I'm running a mac, cpu only. I received three work units and all three ran for about 20 seconds and then returned computation error.
Mac OS version 10.15.4, Boinc version 7.14.14, and Rosetta version 4.12. These are the first 4.12's I've gotten, so I'm just curious if anyone else is seeing this as well. I've had no problem with earlier versions. Here's a snippet from the logs:

Sun Apr 5 15:31:22 2020 | Rosetta@home | update requested by user
Sun Apr 5 15:31:25 2020 | Rosetta@home | Sending scheduler request: Requested by user.
Sun Apr 5 15:31:25 2020 | Rosetta@home | Requesting new tasks for CPU
Sun Apr 5 15:31:26 2020 | Rosetta@home | Scheduler request completed: got 3 new tasks
Sun Apr 5 15:31:28 2020 | Rosetta@home | Started download of rosetta_4.12_x86_64-apple-darwin
Sun Apr 5 15:31:28 2020 | Rosetta@home | Started download of rosetta_graphics_4.12_x86_64-apple-darwin
Sun Apr 5 15:31:37 2020 | Rosetta@home | Finished download of rosetta_4.12_x86_64-apple-darwin
Sun Apr 5 15:31:37 2020 | Rosetta@home | Started download of minirosetta_database_357d5d93529_n_methyl.zip
Sun Apr 5 15:31:40 2020 | Rosetta@home | Finished download of rosetta_graphics_4.12_x86_64-apple-darwin
Sun Apr 5 15:31:40 2020 | Rosetta@home | Started download of flags_il1r2
Sun Apr 5 15:31:41 2020 | Rosetta@home | Finished download of flags_il1r2
Sun Apr 5 15:31:41 2020 | Rosetta@home | Started download of 2qq4ew9m_Mini_Protein_binds_IL1R_COVID-19_design0.zip
Sun Apr 5 15:31:44 2020 | Rosetta@home | Finished download of 2qq4ew9m_Mini_Protein_binds_IL1R_COVID-19_design0.zip
Sun Apr 5 15:31:44 2020 | Rosetta@home | Started download of 2qq4ew9m_Mini_Protein_binds_IL1R_COVID-19_design0.flags
Sun Apr 5 15:31:45 2020 | Rosetta@home | Finished download of 2qq4ew9m_Mini_Protein_binds_IL1R_COVID-19_design0.flags
Sun Apr 5 15:31:45 2020 | Rosetta@home | Started download of 4ah5oy5y_Mini_Protein_binds_IL1R_COVID-19_design0.zip
Sun Apr 5 15:31:47 2020 | Rosetta@home | Finished download of 4ah5oy5y_Mini_Protein_binds_IL1R_COVID-19_design0.zip
Sun Apr 5 15:31:47 2020 | Rosetta@home | Started download of 4ah5oy5y_Mini_Protein_binds_IL1R_COVID-19_design0.flags
Sun Apr 5 15:31:48 2020 | Rosetta@home | Finished download of 4ah5oy5y_Mini_Protein_binds_IL1R_COVID-19_design0.flags
Sun Apr 5 15:31:48 2020 | Rosetta@home | Started download of 5kp3uc9q_Mini_Protein_binds_IL1R_COVID-19_design0.zip
Sun Apr 5 15:31:52 2020 | Rosetta@home | Finished download of 5kp3uc9q_Mini_Protein_binds_IL1R_COVID-19_design0.zip
Sun Apr 5 15:31:52 2020 | Rosetta@home | Started download of 5kp3uc9q_Mini_Protein_binds_IL1R_COVID-19_design0.flags
Sun Apr 5 15:31:53 2020 | Rosetta@home | Finished download of 5kp3uc9q_Mini_Protein_binds_IL1R_COVID-19_design0.flags
Sun Apr 5 15:32:05 2020 | Rosetta@home | Finished download of minirosetta_database_357d5d93529_n_methyl.zip
Sun Apr 5 15:32:09 2020 | Rosetta@home | Starting task 5kp3uc9q_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0
Sun Apr 5 15:33:25 2020 | Rosetta@home | Computation for task 5kp3uc9q_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0 finished
Sun Apr 5 15:33:25 2020 | Rosetta@home | Output file 5kp3uc9q_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0_r1019687941_0 for task 5kp3uc9q_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0 absent
Sun Apr 5 15:33:28 2020 | Rosetta@home | Starting task 2qq4ew9m_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0
Sun Apr 5 15:34:42 2020 | Rosetta@home | Computation for task 2qq4ew9m_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0 finished
Sun Apr 5 15:34:42 2020 | Rosetta@home | Output file 2qq4ew9m_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0_r1625578171_0 for task 2qq4ew9m_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0 absent
Sun Apr 5 15:34:44 2020 | Rosetta@home | Starting task 4ah5oy5y_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0
Sun Apr 5 15:36:06 2020 | Rosetta@home | Computation for task 4ah5oy5y_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0 finished
Sun Apr 5 15:36:06 2020 | Rosetta@home | Output file 4ah5oy5y_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0_r1915284257_0 for task 4ah5oy5y_Mini_Protein_binds_IL1R_COVID-19_design0_SAVE_ALL_OUT_905220_3_0 absent

I'm running a mac, cpu only. I received three work units and all three ran for about 20 seconds and then returned computation error.
Mac OS version 10.15.4, Boinc version 7.14.14, and Rosetta version 4.12. These are the first 4.12's I've gotten, so I'm just curious if any only else is seeing this as well. I've had no problem with earlier versions. Here's a snippet from the logs:

[snip]

You may need to add a snippet of the other log file specific to that task - it gives messages closer to the problem.

It looks like you found only the log file that is mainly for communications with the servers.

I took a look at the three tasks currently listed four your computer.

The server doesn't consider them returned yet, so I couldn't see the stderr output returned along with the tasks, This might be because Rosetta@home has transferred such lookups for tasks to another server, and the communications between the servers is not keeping up adequately.

The 4.12 app isn't working on MacOS. They want Mac users to join Ralph@home to beta test the new app that fixes the app bug that MacOS users are seeing with the current 4.12 app.
https://boinc.bakerlab.org/rosetta/forum_thread.php?id=12554&postid=93512#93512

Thanks Robert, appreciate the reply. I've since discovered there is a problem with 4.12 Rosetta on macs.
I found it over in Questions and Answers: Macintosh
under
Computations Errors on 7.14.4.
So for those having this problem there is info there.

[snip]

Tom

I wonder if a powerful "anti-virus" program would have any effect on folding proteins?

Some do and some have little effect . If they are good at telling viruses from other files that contain something that matches part of a virus, expect them to take some additional memory, and slow down the protein folding somewhat.

If they are not good at this, expect them to delete or hide some of the input files for tasks, and therefore make those tasks give errors.

Hi, my old P4/WinXP machine started to receive some WUs about COVID19 (Rosetta 4.12) but all of them could not execute. The message said 'Computation Error'. Then another WU was downloaded and the same thing happened again. Is this because of Windows XP?

Hi, my old P4/WinXP machine started to receive some WUs about COVID19 (Rosetta 4.12) but all of them could not execute. The message said 'Computation Error'. Then another WU was downloaded and the same thing happened again. Is this because of Windows XP?

Or the fact it is a Pentium 4.
I've had a look around and can't see any mention of minimum OS or CPU requirements for running Rosetta@home work.

---

Grant
Darwin NT

A Windows XP pc connected to internet? A Pentium 4? Yeah.... well.... the problem seems self explanatory, too old...
Windows XP is horribly unsecure, at least switch to Linux.

---

Hi all, new to Rosetta. I have been running Seti@Home since last fall with no issues. I added Rosetta@ home on two PC's. Upon re-boot Rosetta is removed from the list projects list. I have to add new task, select Rosetta and re-enter password info. Seti does not do this. What am I missing ?? I am using a different password from Seti if that makes a difference.

Looking forward to the new project.

Bill S.

A Windows XP pc connected to internet? A Pentium 4? Yeah.... well.... the problem seems self explanatory, too old...
Windows XP is horribly unsecure, at least switch to Linux.

Well. I'm currently living at my dad's place and this is his PC, the only one I can have. It still can run WUs from WCG and Asteroid@Home. The problem is not how powerful the PC is. It's why current Rosetta WUs don't work with it? Compatible issue? A month ago there was no problem, even my older PC, a PIII/WinXP, run Rosetta WUs pretty well.

https://boinc.bakerlab.org/rosetta/result.php?resultid=1142073034

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<message>
couldn't start app: CreateProcess() failed - (unknown error)</message>
]]>

Is an antivirus preventing the new application version's .exe from running?

---

Rosetta Moderator: Mod.Sense

Hi all, new to Rosetta. I have been running Seti@Home since last fall with no issues. I added Rosetta@ home on two PC's. Upon re-boot Rosetta is removed from the list projects list. I have to add new task, select Rosetta and re-enter password info. Seti does not do this. What am I missing ?? I am using a different password from Seti if that makes a difference.

Looking forward to the new project.

Bill S.

Rosetta does not spontaneously remove itself.

Is something replacing the BOINC directories from a stale copy when you reboot?

---

Rosetta Moderator: Mod.Sense

Hi all, new to Rosetta. I have been running Seti@Home since last fall with no issues. I added Rosetta@ home on two PC's. Upon re-boot Rosetta is removed from the list projects list. I have to add new task, select Rosetta and re-enter password info. Seti does not do this. What am I missing ?? I am using a different password from Seti if that makes a difference.

Looking forward to the new project.

Bill S.

Something simple that seems worth trying: Wait for at least one task to finish,

In the advanced view, Click on Activity, then Suspend. Wait at least one more minute before shutting down BOINC, Windows, or the computer. Let us know if doing this even once helps.

Moderator removed my post from the "moderator contact point assistence post here thread" so here goes.

Hi all, new to Rosetta. I have been running Seti@Home since last fall with no issues. I added Rosetta@ home on two PC's. Upon re-boot Rosetta is removed from the list projects list. I have to add new task, select Rosetta and re-enter password info. Seti does not do this. What am I missing ?? I am using a different password from Seti if that makes a difference.

Looking forward to the new project.

Bill S.

Or, if I'm still in the wrong area someone please post a usefull link to the appropriate thread.

Thank you.

That is unusual. I added Rosetta to about a half-dozen machines yesterday and have not had that problem. Many have been restarted without issues. Sometimes its takes a few minutes for Rosetta to start back up, but that is all.

Hi all, new to Rosetta. I have been running Seti@Home since last fall with no issues. I added Rosetta@ home on two PC's. Upon re-boot Rosetta is removed from the list projects list. I have to add new task, select Rosetta and re-enter password info. Seti does not do this. What am I missing ?? I am using a different password from Seti if that makes a difference.

Not sure what the issue is. I just used the BOINC Manager, Tools, Add project, select Rosetta@home, New user, different password to my other project and everything went along OK from there.
I didn't reboot the system till a few days after joining up, and the project was still there when it did reboot.

---

Grant
Darwin NT

A Windows XP pc connected to internet? A Pentium 4? Yeah.... well.... the problem seems self explanatory, too old...
Windows XP is horribly unsecure, at least switch to Linux.

Well. I'm currently living at my dad's place and this is his PC, the only one I can have. It still can run WUs from WCG and Asteroid@Home. The problem is not how powerful the PC is. It's why current Rosetta WUs don't work with it? Compatible issue? A month ago there was no problem, even my older PC, a PIII/WinXP, run Rosetta WUs pretty well.

. . They have revised the app from 4.07/4.08 to 4.12. This new version asks a bit more from the hardware and seems to be a bit of a memory hog, see the thread on use of memory and Rosetta. I have an i5 with 8GB ram and I have had problems getting it to run reliably. But there may be another cause.

Stephen

?

. . They have revised the app from 4.07/4.08 to 4.12. This new version asks a bit more from the hardware and seems to be a bit of a memory hog

The Task being processed determines how much RAM is required.
Present Tasks are using much less RAM (400MB to 800MB max) than ones from a week ago (400MB to 1.3GB max).

---

Grant
Darwin NT

Got 56 CF_monomer/Rosetta Mini work units that all failed with an instant "Error while computing". Running Linux x64. Other work units seem fine, just not these ones. I ended up aborting the few that hadn't committed suicide.

I notice the scheduler is down now so maybe they are removing them from the queue.

Example: https://boinc.bakerlab.org/rosetta/result.php?resultid=1142716718

Stderr
<core_client_version>7.16.1</core_client_version>
<![CDATA[
<message>
process exited with code 255 (0xff, -1)</message>
<stderr_txt>
[2020- 4- 8 8:49:35:] :: BOINC:: Initializing ... ok.
[2020- 4- 8 8:49:35:] :: BOINC :: boinc_init()
BOINC:: Setting up shared resources ... ok.
BOINC:: Setting up semaphores ... ok.
BOINC:: Updating status ... ok.
BOINC:: Registering timer callback... ok.
BOINC:: Worker initialized successfully.
command: ../../projects/boinc.bakerlab.org_rosetta/minirosetta_3.78_x86_64-pc-linux-gnu -abinitio::fastrelax 1 -ex2aro 1 -frag3 00001.200.3mers -in:file:native 00001.pdb -corrections::beta_nov16 -silent_gz 1 -frag9 00001.200.9mers -out:file:silent default.out -ex1 1 -abinitio::rsd_wt_loop 0.5 -relax::default_repeats 15 -abinitio::use_filters false -abinitio::increase_cycles 10 -abinitio::rsd_wt_helix 0.5 -abinitio::rg_reweight 0.5 -in:file:boinc_wu_zip CF_monomer_28_data.zip -out:file:silent default.out -silent_gz -mute all -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 600 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -run::rng mt19937 -constant_seed -jran 2362735
Registering options..
Registered extra options.
Initializing broker options ...
Registered extra options.
Initializing core...
Initializing options.... ok
Options::initialize()
Options::adding_options()
Options::initialize() Check specs.
Options::initialize() End reached
ERROR: Option matching -corrections:beta_nov16 not found in command line top-level context

</stderr_txt>
]]>

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BOINC blog

Trying and even eager to be of help, but...

All these short deadline units are troublesome. Is it accomplishing anything if my contributions are just discarded? And discarded for the sake of deadlines that seem quite arbitrary, even silly. Exacerbated by more checkpoint problems, too.

Actually writing from the machine that has the most problems dealing with the deadlines, but even some of my bigger machines clearly have more queued tasks than they can possibly complete within the short deadlines. Obvious workaround (though it's tedious) is to manually abort the tasks that can't be completed, but that causes problems because the flow of tasks has become sporadic again... Plus its wasting the bandwidth at the project end when they send data that is just discarded.

On top of that, some of the machines wind up wasting time because of large batches of tasks with large memory requirements that cause the "Waiting for memory" status on some tasks. Again, selective nuking of tasks can get the CPU's busy again, but I'm NOT supposed to be spending time managing memory problems because the people running Rosetta@home can't figure it out... I'm fairly confident that BOINC has those capabilities to assess and manage memory, but it seems they are not being used by the Baker Lab people.

I've currently earned over 12 million points, which is supposed to indicate a moderate contribution, but I'm thinking about moving along. The reason I switched to Rosetta was because the projects I used to support were not well managed. I'm sure I could even shop around for projects that are also working on Covid projects.

In addition, if I were still supporting researchers, I would not recommend that they rely on data processed on Rosetta because such problems make the entire thing dubious... There were a couple of teams in the lab that are probably doing Covid stuff now (but I'm retired, so I have no idea).

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#1 Freedom = (Meaningful - Constrained) Choice{5} != (Beer^3 | Speech)