Posts by Johannes Kingma

1) Questions and Answers : Windows : Virtualbox (Message 105944)
Posted 15 Apr 2022 by Profile Johannes Kingma
Post:
Ok. I can no longer contribute to Rosetta. I hate this as it used to be a great place. But no longer works for me. Let someone let Dr. Baker know please?
2) Message boards : News : Thank you! (Message 103621)
Posted 30 Nov 2021 by Profile Johannes Kingma
Post:
Thanks Falconet.

I will move my attention to another project than
3) Questions and Answers : Windows : Virtualbox (Message 103619)
Posted 30 Nov 2021 by Profile Johannes Kingma
Post:
Thanks, Grant

I hope it will not interfere with the Hyper-V machines I"m running.
4) Message boards : News : Thank you! (Message 103488)
Posted 23 Nov 2021 by Profile Johannes Kingma
Post:
But server status now states everything is honky-dory. Maybe include downtime on the start page? So people dont have to guess. My PC has not received new work for two weeks now. Reinstalled everything.,
5) Questions and Answers : Windows : Virtualbox (Message 103486)
Posted 23 Nov 2021 by Profile Johannes Kingma
Post:
Do I understand that Rosetta@home requires new VirtualBox? I have and user HyperV and virtualbox crashes my PC. Do you recommend something else? Or should I just go away (with my 10.000.000 work done)
6) Questions and Answers : Windows : Nothing happening anymore (Message 103445)
Posted 20 Nov 2021 by Profile Johannes Kingma
Post:
Hi
For some time now the Rosetta@home project is sitting there doing nothing. I checked the servers status and all is green all systems go.

In Projects I see
Project;Account;Team;Work done;Avg. work done;Resource share; status
Rosetta@home;Johannes Kingma;;9,429,335;1,749,30;100 (100.0%);

Tasks is empty, Transfers is empty.

What is going on?
7) Questions and Answers : Windows : Computation error (Message 101761)
Posted 7 May 2021 by Profile Johannes Kingma
Post:
I went out and aborted all the pre_helical_bundles jobs and suggest you do the same on windows
8) Questions and Answers : Windows : Computation error (Message 101760)
Posted 7 May 2021 by Profile Johannes Kingma
Post:
Computation error after 8hours + of CPU usage is a bit harsh. Certainly if it happens to three tasks in a row. Is this something that is monitored by the boind team? Is there something I can do, or should not do?

pre_helical_bundles_round1_attmept1_SAITR
9) Message boards : Rosetta@home Science : "IGNORE_THE_REST" vs. "SAVE_ALL_OUT" What does it mean? (Message 101460)
Posted 23 Apr 2021 by Profile Johannes Kingma
Post:
So really what does it mean? Save all out ignore the rest?

(Mod.Sense is talking gibberish)
10) Message boards : Rosetta@home Science : Use Rosetta as Benchmark framework (Message 101322)
Posted 16 Apr 2021 by Profile Johannes Kingma
Post:
Why not team up with userbenchmark, passmark, speccy, novabench to use the benchmark to actually compute something sensible like protein folding.
just a thought
11) Questions and Answers : Windows : Error while computing (Message 101320)
Posted 16 Apr 2021 by Profile Johannes Kingma
Post:
Hi. I suddenly and quit unexpectedly receive are large number of Error while computing . For tasks that actually run for quit a number of CPU cycles. Rosetta v4.20
exit status: 1 (0x00000001) Unknown error code, sample work unit name NTvpOdNd_BAYAAB_AAA_AA_AYAABAAAAA_X_CGGGGGGCGGGCGGCGGGGGGGGGGCGC_1-4_2-6_3-5.pdb_0001_abinitio_1_abinitio_SAVE_ALL_OUT_1390509_350_1
Work unit sample 1223053766


This work unit has failed on other hard ware as well.

My computer is a bit sad about all the work and effort it took. Is there something I can sooth it with?
12) Message boards : Technical News : Due to user feedback and an attempt to reduce the load on our servers, we increased the default target run time from 3 to 6 hours, increased job deadlines to 14 days, and added the target cpu runtime option of 2 days (Message 100735)
Posted 14 Mar 2021 by Profile Johannes Kingma
Post:
As I use my computer as heating It is fine for me to run it 24/7. Energy is cheap hear and I can lower the central heating. So go ahead.
13) Message boards : Rosetta@home Science : Errors (Message 100432)
Posted 17 Jan 2021 by Profile Johannes Kingma
Post:
Recently I got quite a number of calculation errors on Rosetta. Is this a inherent problem of the algoritm? Also how can I move to another language?
14) Message boards : Number crunching : Remove? Rosetta lost its mind (Message 96454)
Posted 13 May 2020 by Profile Johannes Kingma
Post:
Rosetta@home: Notice from BOINC
This project is using an old URL. When convenient, remove the project, then add https://boinc.bakerlab.org/rosetta/
5/13/2020 7:00:20 PM


But if I remove the project I won't get the credits?
15) Questions and Answers : Windows : Upload: pending (project backoff) Progress 100% (Message 91706)
Posted 15 Feb 2020 by Profile Johannes Kingma
Post:
Here you find a video of the behaviour allong with the log file:
https://youtu.be/Z8JTmngeUmU
16) Questions and Answers : Windows : Upload: pending (project backoff) Progress 100% (Message 91693)
Posted 13 Feb 2020 by Profile Johannes Kingma
Post:
http://boinc.bakerlab.org/rosetta_cgi/file_upload_handler
returns
<data_server_reply>
    <status>1</status>
    <message>no command</message>
</data_server_reply>
17) Questions and Answers : Windows : Upload: pending (project backoff) Progress 100% (Message 91692)
Posted 13 Feb 2020 by Profile Johannes Kingma
Post:
I again have a number of job upload transfers with progress 100% Size xx.xx/xx.xx MB where xx.xx == xx.xx and Status "Upload: pending (projekt backoff: 00:xx:yy"

Closing and opening has no effect.

This typically seems to happen when our firewall closes and I have to refresh my Internet session (logon again to gain access to internet). What I see in stedoutae.txt
is:
13-Feb-2020 17:43:50 [Rosetta@home] [fxd] starting upload, upload_offset -1
13-Feb-2020 17:43:50 [Rosetta@home] Started upload of foldit_2008663_0000_00_asym_dock_SAVE_ALL_OUT_890050_221_0_r967414752_0
13-Feb-2020 17:43:50 [Rosetta@home] [file_xfer] URL: http://boinc.bakerlab.org/rosetta_cgi/file_upload_handler
13-Feb-2020 17:43:50 [Rosetta@home] [fxd] starting upload, upload_offset -1
13-Feb-2020 17:43:50 [Rosetta@home] Started upload of foldit_2008663_y239_00_asym_dock_SAVE_ALL_OUT_890052_221_0_r1281210648_0
13-Feb-2020 17:43:50 [Rosetta@home] [file_xfer] URL: http://boinc.bakerlab.org/rosetta_cgi/file_upload_handler
13-Feb-2020 17:43:50 [---] [notice] start fetch from http://boinc.bakerlab.org/rosetta/notices.php?userid=1965758&auth=1965758_622400646b10aee4b7aa3015fd6bf4aa
13-Feb-2020 17:43:59 [---] [notice] handling reply from http://boinc.bakerlab.org/rosetta/notices.php?userid=1965758&auth=1965758_622400646b10aee4b7aa3015fd6bf4aa
13-Feb-2020 17:43:59 [---] [notice] parsed RSS feed: total 0 error 0 added 0
13-Feb-2020 17:43:59 [Rosetta@home] [file_xfer] http op done; retval 0 (Success)
13-Feb-2020 17:43:59 [Rosetta@home] [file_xfer] parsing upload response: <data_server_reply>
    <status>0</status>
    <file_size>0</file_size>
</data_server_reply>
13-Feb-2020 17:43:59 [Rosetta@home] [file_xfer] parsing status: 0
13-Feb-2020 17:43:59 [Rosetta@home] [fxd] starting upload, upload_offset 0
13-Feb-2020 17:43:59 [Rosetta@home] [file_xfer] http op done; retval 0 (Success)
13-Feb-2020 17:43:59 [Rosetta@home] [file_xfer] parsing upload response: <data_server_reply>
    <status>0</status>
    <file_size>0</file_size>


but I do not know if this relates to a current upload attempt. What I don't understand is why retry an upload when it was uploaded for 100%. Was this not registered with the rosetta servers? Could someone check that for me?

In the projects folder I find

03.02.2020  13:57        17’056’209 foldit_2008663_0000_00_asym_dock_SAVE_ALL_OUT_890050_221_0_r967414752_0
03.02.2020  08:36               382 foldit_2008663_0000_global_dock_flags
04.02.2020  23:07        16’894’107 foldit_2008663_0001_00_asym_dock_SAVE_ALL_OUT_890054_221_0_r1747213757_0
03.02.2020  08:38               382 foldit_2008663_0001_global_dock_flags
04.02.2020  16:02        15’428’807 foldit_2008663_0009_00_asym_dock_SAVE_ALL_OUT_890043_221_0_r169019485_0
03.02.2020  08:38               382 foldit_2008663_0009_global_dock_flags
05.02.2020  15:15         3’305’197 foldit_2008663_c029_data.zip
05.02.2020  03:23        14’675’260 foldit_2008663_c030_00_asym_dock_SAVE_ALL_OUT_890053_221_0_r1653133956_0
03.02.2020  08:38               382 foldit_2008663_c030_global_dock_flags
04.02.2020  15:47        15’860’146 foldit_2008663_y047_00_asym_dock_SAVE_ALL_OUT_890049_221_0_r1271556116_0
03.02.2020  08:39               382 foldit_2008663_y047_global_dock_flags
05.02.2020  06:46        14’232’966 foldit_2008663_y239_00_asym_dock_SAVE_ALL_OUT_890052_221_0_r1281210648_0
03.02.2020  08:37               382 foldit_2008663_y239_global_dock_flags
05.02.2020  02:35        15’055’155 foldit_2008663_y688_00_asym_dock_SAVE_ALL_OUT_890048_221_0_r1802263664_0
03.02.2020  08:39               382 foldit_2008663_y688_global_dock_flags
18) Message boards : Cafe Rosetta : No new work (Message 91607)
Posted 24 Jan 2020 by Profile Johannes Kingma
Post:
Who else is getting now new work?
19) Questions and Answers : Windows : Rosetta discontinued? (Message 91602)
Posted 23 Jan 2020 by Profile Johannes Kingma
Post:
Was Rosetta discontinued? I'm not receiving any new work.
20) Message boards : Number crunching : Rosetta 4.0+ (Message 91452)
Posted 12 Dec 2019 by Profile Johannes Kingma
Post:
Since a couple of months I face a problem that the Windows 4.07 stalls on uploads reaching 100%. The than move to status Upload: pending (project backoff). All data seems to upload fine. stdouae.txt reads:


    12-Dec-2019 10:36:27 [Rosetta@home] update requested by user
    12-Dec-2019 10:36:29 [Rosetta@home] Sending scheduler request: Requested by user.
    12-Dec-2019 10:36:29 [Rosetta@home] Reporting 1 completed tasks
    12-Dec-2019 10:36:29 [Rosetta@home] Not requesting tasks: too many uploads in progress
    12-Dec-2019 10:36:31 [Rosetta@home] Scheduler request completed
    12-Dec-2019 10:36:48 [Rosetta@home] work fetch suspended by user
    12-Dec-2019 10:36:49 [Rosetta@home] work fetch resumed by user



There are about 50 uploads with progress 100% like this. I can Abort them but next time the same thing happen.



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