Message boards : RALPH@home bug list : Bug Reports for Minirosetta v1.38
Author | Message |
---|---|
Chu Volunteer moderator Project developer Project scientist Send message Joined: 26 Sep 06 Posts: 61 Credit: 12,545 RAC: 0 |
Hi everyone, Long time no see! Please post issues/bugs relating to minirosetta version 1.38 here. In this version, we added two important applications to minirosetta, docking and protein folding with explicit zinc metal ion. Please pay extra attention to some new features of the graphics such as "color by chain" and "spacefill display of metal ligand" and let us know if you observe any problem or have suggestions or feedbacks. Thanks. Here are two screen shots, one for protein folding with zinc metal (red ball) and one for docking of two protein structures (color by protein chain) to get their complex form. |
feet1st Send message Joined: 7 Mar 06 Posts: 313 Credit: 116,623 RAC: 0 |
Chu! Long time no "see"! Welcome back. What's with the little red ball? Make this thread sticky. Maybe unsticky some others. |
Chu Volunteer moderator Project developer Project scientist Send message Joined: 26 Sep 06 Posts: 61 Credit: 12,545 RAC: 0 |
That is the Zinc metal ion "ZN2+", modeled together with proteins which naturally bind them for structure stability and/or functional catalysis. I will post a more detailed description to explain the background of this prject and the goal we are hoping to achieve. Chu! Long time no "see"! Welcome back. |
Conan Send message Joined: 16 Feb 06 Posts: 364 Credit: 1,368,421 RAC: 0 |
Got a Segmentation Violation on result 1169994 <core_client_version>5.10.21</core_client_version> <![CDATA[ <message> process exited with code 193 (0xc1, -63) </message> <stderr_txt> SIGSEGV: segmentation violation Stack trace (7 frames): [0x8ab9c07] [0x8ae4300] [0xb7f7a420] [0x819dc96] [0x804c2ea] [0x8b3fdfc] [0x8048111] Exiting... Also got an error on result 1170096 <core_client_version>5.10.21</core_client_version> <![CDATA[ <message> process exited with code 1 (0x1, -255) </message> <stderr_txt> ERROR: Unable to open weights. Neither .//work/rvernon/frag_48kinds/boinc_submit/mini_oct22_08/fixed_bb_hb.wts nor minirosetta_database/scoring/weights//work/rvernon/frag_48kinds/boinc_submit/mini_oct22_08/fixed_bb_hb.wts exist ERROR:: Exit from: src/core/scoring/ScoreFunctionFactory.cc line: 57 called boinc_finish |
Jack Shaftoe Send message Joined: 8 Aug 06 Posts: 13 Credit: 105,163 RAC: 0 |
https://ralph.bakerlab.org/result.php?resultid=1170135 And several more. 10/23/2008 5:02:34 PM|ralph@home|Starting 1c8cA_BOINC_CASP8_ABRELAX_SPLIT_SPLIT_IGNORE_THE_REST-S25-9-S3-3--1c8cA-_5221_3_0 10/23/2008 5:02:34 PM|ralph@home|Starting task 1c8cA_BOINC_CASP8_ABRELAX_SPLIT_SPLIT_IGNORE_THE_REST-S25-9-S3-3--1c8cA-_5221_3_0 using minirosetta_split_terms version 101 10/23/2008 5:02:35 PM|ralph@home|Computation for task 1bkrA_BOINC_CASP8_ABRELAX_SPLIT_SPLIT_IGNORE_THE_REST-S25-9-S3-3--1bkrA-_5221_3_0 finished 10/23/2008 5:02:35 PM|ralph@home|Output file 1bkrA_BOINC_CASP8_ABRELAX_SPLIT_SPLIT_IGNORE_THE_REST-S25-9-S3-3--1bkrA-_5221_3_0_0 for task 1bkrA_BOINC_CASP8_ABRELAX_SPLIT_SPLIT_IGNORE_THE_REST-S25-9-S3-3--1bkrA-_5221_3_0 absent |
feet1st Send message Joined: 7 Mar 06 Posts: 313 Credit: 116,623 RAC: 0 |
Nearly 38 hrs on a 24hr preferred runtime. Still on model one. hombench_olange_foldcst_single_alignment_t374_ foldcst_single_alignment_t374__IGNORE_THE_REST_2FCKA_3_5191_5_0 Workunit 1006002 |
Conan Send message Joined: 16 Feb 06 Posts: 364 Credit: 1,368,421 RAC: 0 |
Another two with the weight problem and also the wrong application number of 1.01 See this WU and this WU <core_client_version>5.10.21</core_client_version> <![CDATA[ <message> process exited with code 1 (0x1, -255) </message> <stderr_txt> ERROR: Unable to open weights. Neither .//work/rvernon/frag_48kinds/boinc_submit/mini_oct22_08/fixed_bb_hb.wts nor minirosetta_database/scoring/weights//work/rvernon/frag_48kinds/boinc_submit/mini_oct22_08/fixed_bb_hb.wts exist ERROR:: Exit from: src/core/scoring/ScoreFunctionFactory.cc line: 57 called boinc_finish </stderr_txt> ]]> Validate state Invalid Claimed credit 0.00944960901350064 Granted credit 0 application version 1.01 |
feet1st Send message Joined: 7 Mar 06 Posts: 313 Credit: 116,623 RAC: 0 |
FYI, v1.39 is still showing the issue where BOINC Manager is unable to suspend the task to run other projects. And so I'm still seeing my HT processor running 3 tasks at the same time on Win XP Pro. I was able to suspend the task, it continued to run. I then resumed it, and of course it continued to run. But then when I suspended it again, it did stop normally. |
Tonno Send message Joined: 23 Nov 06 Posts: 16 Credit: 49,841 RAC: 0 |
Version 1.39 error: <core_client_version>6.2.19</core_client_version> <![CDATA[ <message> - exit code -1073741819 (0xc0000005) </message> <stderr_txt> recovering checkpoint of tag S_1D5WA_2_00000001 with id abrelax_rg_state Unhandled Exception Detected... - Unhandled Exception Record - Reason: Access Violation (0xc0000005) at address 0x008106CA read attempt to address 0x00000000 Engaging BOINC Windows Runtime Debugger... |
sqweeser Send message Joined: 19 Jun 06 Posts: 5 Credit: 66,131 RAC: 0 |
Version 1.39: Workunit https://ralph.bakerlab.org/result.php?resultid=1171026 Got this: 25/10/2008 16:30:48|ralph@home|Computation for task 1SPB_dockprotocol_BOUND_MRTM_PERT38_DOCK_5220_11_1 finished 25/10/2008 16:30:48|ralph@home|Output file 1SPB_dockprotocol_BOUND_MRTM_PERT38_DOCK_5220_11_1_0 for task 1SPB_dockprotocol_BOUND_MRTM_PERT38_DOCK_5220_11_1 exceeds size limit. 25/10/2008 16:30:48|ralph@home|File size: 60636800.000000 bytes. Limit: 25000000.000000 bytes |
Message boards :
RALPH@home bug list :
Bug Reports for Minirosetta v1.38
©2024 University of Washington
http://www.bakerlab.org