Posts by M.L.

1) Message boards : Number crunching : minirosetta v1.19 bug thread (Message 52988) Posted 11 May 2008 by M.L. Post: Task ID 162368970 Name SSPAIR_MIN_ABINITIO_1fna_3115_6915_2 Workunit 145958649 Created 10 May 2008 22:29:48 UTC Sent 10 May 2008 22:30:26 UTC Received 11 May 2008 15:18:04 UTC Server state Over Outcome Client error Client state Compute error Exit status 1 (0x1) Computer ID 735230 Report deadline 20 May 2008 22:30:26 UTC CPU time 0 stderr out <core_client_version>5.10.45</core_client_version> <![CDATA[ <message> Incorrect function. (0x1) - exit code 1 (0x1) </message> <stderr_txt> ERROR: Option matching -fudge not found in command line top-level context </stderr_txt> ]]> Validate state Invalid Claimed credit 0 Granted credit 0 application version 1.19 Fudge is gooood, except in this case.
2) Message boards : Number crunching : Problems with Rosetta version 5.82 (Message 52703) Posted 25 Apr 2008 by M.L. Post: Why are these 5.82 tasks recirculating with the same errors as before?
3) Message boards : Number crunching : Problems with Rosetta version 5.82 (Message 52699) Posted 25 Apr 2008 by M.L. Post: Task ID 157787749 Name CNTRL_01ABRELAX_SAVE_ALL_OUT_-1ubi_-_filters_1782_3334970_0 Workunit 144107264 Created 22 Apr 2008 15:54:10 UTC Sent 22 Apr 2008 15:54:32 UTC Received 25 Apr 2008 6:18:22 UTC Server state Over Outcome Client error Client state Compute error Exit status 1 (0x1) Computer ID 735230 Report deadline 2 May 2008 15:54:32 UTC CPU time 15.8125 stderr out <core_client_version>5.10.45</core_client_version> <![CDATA[ <message> Incorrect function. (0x1) - exit code 1 (0x1) </message> <stderr_txt> # cpu_run_time_pref: 14400 # random seed: -55929 bad seed ERROR:: Exit from: .dock_structure.cc line: 429 </stderr_txt> ]]> Validate state Invalid Claimed credit 0.0660334348150834 Granted credit 0 application version 5.82 ... Seems I might have posted here before!
4) Message boards : Number crunching : FIXED CREDIT or COINCIDENCE? (Message 52323) Posted 7 Apr 2008 by M.L. Post: 153409278 140023066 4 Apr 2008 14:08:28 UTC 7 Apr 2008 20:24:35 UTC Over Success Done 13,740.86 57.10 52.01 153405349 140019344 4 Apr 2008 13:47:19 UTC 7 Apr 2008 18:39:14 UTC Over Success Done 13,667.34 56.80 52.01 153355441 139973958 4 Apr 2008 9:20:47 UTC 7 Apr 2008 15:54:55 UTC Over Success Done 13,140.11 54.61 52.01 153349191 139968568 4 Apr 2008 8:45:37 UTC 7 Apr 2008 14:39:39 UTC Over Success Done 13,398.94 55.68 52.01 153309984 139932620 4 Apr 2008 4:56:00 UTC 7 Apr 2008 12:25:52 UTC Over Success Done 13,726.11 57.04 52.01 My last five tasks.
5) Message boards : Number crunching : PC downtime advancing science (Message 52312) Posted 7 Apr 2008 by M.L. Post: Page last updated at 16:03 GMT, Friday, 4 April 2008 17:03 UK PC downtime advancing science By David Reid Reporter, BBC Click Volunteer or distributed computing allows researchers to harness idle computers to make mammoth calculations for the good of mankind. The war against malaria is waged on many fronts: mosquito nets, insecticide and treatment are all options. But there are now vaccines on the horizon against this mosquito-borne illness which kills around one million children a year. Volunteer computing is helping scientists combat malaria Breakthroughs can throw up difficult questions. For example, researchers at the Swiss Tropical Institute in Basel are asking whether a vaccine is always going to be the best weapon. To find the answer, they have developed mathematical models of how malaria spreads in different situations and how each remedy combats it. But rather than using a supercomputer to find the solution, they are outsourcing their calculations across the net. Universal computing The distributed computing program they use is called malariacontrol.net, part of Africa@home, which uses a screensaver that taps the processing power of volunteer's personal computers to crunch the numbers. "Obviously, we are very grateful to all the volunteers who are covering the cost of the computer hardware that we're using," said Professor Tom Smith of the Institute. "We don't need to invest as much ... in keeping the computers running as we would have to if we had some in-house supercomputing." The research is paying off. Results show that a vaccine might not always be the best solution in all circumstances. "Some of our simulations are suggesting that people need to think a bit more out of the box on how to deploy these vaccines, and not to make too many assumptions about how they would be used and who would get the vaccine," said Professor Smith. This model of computing was pioneered by the Seti@home project which scanned data from radio telescopes for signs of extra-terrestrial life. ET has kept quiet, but thanks to an open-source platform called BOINC, which helps projects share their research with volunteers, distributed computing is now a big noise, with a stunning variety of projects to choose from. PCs can fold proteins, do climate modelling, crunch prime numbers or continue the search for elusive extra-terrestrials. Amateur scientists So is volunteer computing poised to elbow aside the supercomputer? At Europe's Centre for Nuclear Research, Cern, where the web was invented, they think not. The trend of citizen science is being accelerated by the web Supercomputers are indispensable for real-time analysis of streaming data. But, just like so much on the internet, it could change the extent to which amateurs can get involved in serious science. "Volunteer computing represents a trend, an age old tradition, which is citizen science," explained François Grey, head of IT communications at Cern. "That tradition, which has produced some very good science, is being accelerated by the web into something where you can take a scientific problem and give it to people on the web and they can actively help to solve that problem. "Many more people can take part in many more scientific problems and are amateur scientists contributing in a real way, not just watching science from the outside, but being part of the scientific process themselves."
6) Message boards : Number crunching : Problems with version 5.96 (Message 52250) Posted 5 Apr 2008 by M.L. Post: 05-Apr-2008 00:40:59 [rosetta@home] Task FRA_t035_CAPRI15_hom1dyoB_2_IGNORE_THE_RESTt035_2_t035.1dyo.second_round_starting_pdb.pdb_3020_54511_0 exited with a DLL initialization error. 05-Apr-2008 00:40:59 [rosetta@home] If this happens repeatedly you may need to reboot your computer. 05-Apr-2008 00:40:59 [rosetta@home] Task FRA_t848_hom1jnx_1_IGNORE_THE_RESTt848_1_t848_1jnx.template_0002.pdb_3021_2209_0 exited with a DLL initialization error. 05-Apr-2008 00:40:59 [rosetta@home] If this happens repeatedly you may need to reboot your computer. 05-Apr-2008 00:41:01 [rosetta@home] Restarting task FRA_t035_CAPRI15_hom1dyoB_2_IGNORE_THE_RESTt035_2_t035.1dyo.second_round_starting_pdb.pdb_3020_54511_0 using rosetta_beta version 596 05-Apr-2008 00:41:01 [rosetta@home] Restarting task FRA_t848_hom1jnx_1_IGNORE_THE_RESTt848_1_t848_1jnx.template_0002.pdb_3021_2209_0 using rosetta_beta version 596 Both seem good now but will check in a while. (did not reboot {see the time}).
7) Message boards : Number crunching : Reports and plots for user. (Message 52207) Posted 31 Mar 2008 by M.L. Post: Thanks. Looking good here.
8) Message boards : Number crunching : Reports and plots for user. (Message 52136) Posted 26 Mar 2008 by M.L. Post: Still not working!! Any news on possible repair??
9) Message boards : Number crunching : Problems with Minirosetta version 1.09 (Message 52091) Posted 23 Mar 2008 by M.L. Post: Task ID 149658030 Name score13_hb_envtest62_A_1tif__2980_128_1 Workunit 135110106 Created 20 Mar 2008 16:14:25 UTC Sent 20 Mar 2008 16:14:29 UTC Received 23 Mar 2008 15:47:22 UTC Server state Over Outcome Success Client state Done Exit status 0 (0x0) Computer ID 735230 Report deadline 30 Mar 2008 16:14:29 UTC CPU time 7550.813 stderr out <core_client_version>5.10.45</core_client_version> <![CDATA[ <stderr_txt> Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 Created semaphore # cpu_run_time_pref: 14400 ====================================================== DONE :: 1 starting structures 7550 cpu seconds This process generated 1 decoys from 1 attempts ====================================================== BOINC :: Watchdog shutting down... BOINC :: BOINC support services shutting down... called boinc_finish </stderr_txt> ]]> Validate state Valid Claimed credit 31.2496508284666 Granted credit 4.36744078692198 application version 1.09
10) Message boards : Number crunching : Reports and plots for user. (Message 52084) Posted 22 Mar 2008 by M.L. Post: For me the it has been ''Sorry, the requested data does not exist'' for about two days. Seems the site is more broken than working.
11) Message boards : Number crunching : Problems with Rosetta version 5.82 (Message 52041) Posted 20 Mar 2008 by M.L. Post: And yet another!! Task ID 148790003 Name CNTRL_01ABRELAX_SAVE_ALL_OUT_-1ubi_-_filters_1782_3327481_0 Workunit 135677965 Created 17 Mar 2008 7:07:55 UTC Sent 17 Mar 2008 7:08:04 UTC Received 20 Mar 2008 16:14:29 UTC Server state Over Outcome Client error Client state Compute error Exit status 1 (0x1) Computer ID 735230 Report deadline 27 Mar 2008 7:08:04 UTC CPU time 15.75 stderr out <core_client_version>5.10.45</core_client_version> <![CDATA[ <message> Incorrect function. (0x1) - exit code 1 (0x1) </message> <stderr_txt> # cpu_run_time_pref: 14400 # random seed: -48440 bad seed ERROR:: Exit from: .dock_structure.cc line: 429 </stderr_txt> ]]> Validate state Invalid Claimed credit 0.0651995163017775 Granted credit 0 application version 5.82
12) Message boards : Number crunching : Problems with Rosetta 5.95 (Message 51990) Posted 17 Mar 2008 by M.L. Post: Task ID 148077157 Name t028_1_NMRREF_1_t028_1_id_model_01_idlIGNORE_THE_REST_core_2979_14912_0 Workunit 135014118 Created 14 Mar 2008 12:12:52 UTC Sent 14 Mar 2008 12:13:01 UTC Received 17 Mar 2008 7:03:54 UTC Server state Over Outcome Success Client state Done Exit status 0 (0x0) Computer ID 735230 Report deadline 24 Mar 2008 12:13:01 UTC CPU time 8796.89 stderr out <core_client_version>5.10.45</core_client_version> <![CDATA[ <stderr_txt> # cpu_run_time_pref: 14400 # random seed: 1213689 # cpu_run_time_pref: 14400 ====================================================== DONE :: 1 starting structures 8796.41 cpu seconds This process generated 10829700 decoys from -863090173 attempts 0 starting pdbs were skipped ====================================================== BOINC :: Watchdog shutting down... BOINC :: BOINC support services shutting down... </stderr_txt> ]]> Validate state Valid Claimed credit 36.3455313825437 Granted credit 32.0810913987817 application version 5.95 The number of decoys is suspicious!! If genuine is this a record?
13) Message boards : Number crunching : Problems with Rosetta version 5.93 (Message 51981) Posted 16 Mar 2008 by M.L. Post: Task ID 147927265 Name t028_1_NMRREF_1_t028_1_id_model_14_idlIGNORE_THE_REST_core_2979_7573_0 Workunit 134873464 Created 13 Mar 2008 22:50:16 UTC Sent 13 Mar 2008 22:50:33 UTC Received 16 Mar 2008 12:43:37 UTC Server state Over Outcome Success Client state Done Exit status 0 (0x0) Computer ID 735230 Report deadline 23 Mar 2008 22:50:33 UTC CPU time 12113.984375 stderr out <core_client_version>5.10.45</core_client_version> <![CDATA[ <stderr_txt> # cpu_run_time_pref: 14400 # random seed: 3952428 No heartbeat from core client for 31 sec - exiting # cpu_run_time_pref: 14400 ====================================================== DONE :: 1 starting structures 12113.3 cpu seconds This process generated 4 decoys from 4 attempts 0 starting pdbs were skipped ====================================================== BOINC :: Watchdog shutting down... BOINC :: BOINC support services shutting down... </stderr_txt> ]]> Validate state Valid Claimed credit 50.0505518733559 Granted credit 43.4203813594983 application version 5.93
14) Message boards : Number crunching : Problems with Rosetta version 5.82 (Message 51869) Posted 9 Mar 2008 by M.L. Post: CAN SOMEONE PLEASE PLEASE CHECK 082 FAILED TASKS BEFORE!! THEY ARE RESENT. on all these recent posts of mine the tasks had failed on another PC.
15) Message boards : Number crunching : Problems with Rosetta version 5.82 (Message 51867) Posted 9 Mar 2008 by M.L. Post: Task ID 146408102 Name CNTRL_01ABRELAX_SAVE_ALL_OUT_-1ubi_-_filters_1782_3304550_1 Workunit 133371200 Created 7 Mar 2008 18:29:42 UTC Sent 7 Mar 2008 18:29:45 UTC Received 9 Mar 2008 14:20:42 UTC Server state Over Outcome Client error Client state Compute error Exit status 1 (0x1) Computer ID 735230 Report deadline 17 Mar 2008 18:29:45 UTC CPU time 16 stderr out <core_client_version>5.10.30</core_client_version> <![CDATA[ <message> Incorrect function. (0x1) - exit code 1 (0x1) </message> <stderr_txt> # cpu_run_time_pref: 7200 # random seed: -25509 bad seed ERROR:: Exit from: .dock_structure.cc line: 429 </stderr_txt> ]]> Validate state Invalid Claimed credit 0.0665808235156088 Granted credit 0 application version 5.82
16) Message boards : Number crunching : Problems with Rosetta version 5.82 (Message 51866) Posted 9 Mar 2008 by M.L. Post: ANY MORE??
17) Message boards : Number crunching : Problems with Rosetta version 5.82 (Message 51865) Posted 9 Mar 2008 by M.L. Post: Task ID 146600876 Name CNTRL_01ABRELAX_SAVE_ALL_OUT_-1ubi_-_filters_1782_3307397_1 Workunit 133600137 Created 8 Mar 2008 13:03:32 UTC Sent 8 Mar 2008 13:03:33 UTC Received 9 Mar 2008 14:20:42 UTC Server state Over Outcome Client error Client state Compute error Exit status 1 (0x1) Computer ID 735230 Report deadline 18 Mar 2008 13:03:33 UTC CPU time 15.671875 stderr out <core_client_version>5.10.30</core_client_version> <![CDATA[ <message> Incorrect function. (0x1) - exit code 1 (0x1) </message> <stderr_txt> # cpu_run_time_pref: 7200 # random seed: -28356 bad seed ERROR:: Exit from: .dock_structure.cc line: 429 </stderr_txt> ]]> Validate state Invalid Claimed credit 0.0652153964708551 Granted credit 0 application version 5.82
18) Message boards : Number crunching : Problems with Rosetta version 5.82 (Message 51864) Posted 9 Mar 2008 by M.L. Post: This is getting ridiculous! Task ID 146248500 Name CNTRL_01ABRELAX_SAVE_ALL_OUT_-1ubi_-_filters_1782_3303631_0 Workunit 133323579 Created 7 Mar 2008 4:08:25 UTC Sent 7 Mar 2008 4:08:27 UTC Received 9 Mar 2008 12:31:55 UTC Server state Over Outcome Client error Client state Compute error Exit status 1 (0x1) Computer ID 735230 Report deadline 17 Mar 2008 4:08:27 UTC CPU time 15.90625 stderr out <core_client_version>5.10.30</core_client_version> <![CDATA[ <message> Incorrect function. (0x1) - exit code 1 (0x1) </message> <stderr_txt> # cpu_run_time_pref: 7200 # random seed: -24590 bad seed ERROR:: Exit from: .dock_structure.cc line: 429 </stderr_txt> ]]> Validate state Invalid Claimed credit 0.066190701502822 Granted credit 0 application version 5.82
19) Message boards : Number crunching : Problems with Rosetta version 5.82 (Message 51860) Posted 9 Mar 2008 by M.L. Post: Tasks 146196149 - 146196064 - 146196122. Each had prev failed on other PCs.
20) Message boards : Number crunching : Problems with Rosetta version 5.82 (Message 51859) Posted 9 Mar 2008 by M.L. Post: Task ID 146196122 Name CNTRL_01ABRELAX_SAVE_ALL_OUT_-1ubi_-_filters_1782_3302698_0 Workunit 133275070 Created 6 Mar 2008 22:54:56 UTC Sent 6 Mar 2008 22:55:13 UTC Received 9 Mar 2008 8:56:18 UTC Server state Over Outcome Client error Client state Compute error Exit status 1 (0x1) Computer ID 735230 Report deadline 16 Mar 2008 22:55:13 UTC CPU time 15.46875 stderr out <core_client_version>5.10.30</core_client_version> <![CDATA[ <message> Incorrect function. (0x1) - exit code 1 (0x1) </message> <stderr_txt> # cpu_run_time_pref: 10800 # random seed: -23657 bad seed ERROR:: Exit from: .dock_structure.cc line: 429 </stderr_txt> ]]> Validate state Invalid Claimed credit 0.0643701321098171 Granted credit 0 application version 5.82

Next 20