RALPH@home

Bug reports for 5.89

  UW Seal
 
[ Home ] [ Join ] [ About ] [ Participants ] [ Community ] [ Statistics ]
  [ login/out ]


Advanced search

Message boards : RALPH@home bug list : Bug reports for 5.89

AuthorMessage
Ingemar
Forum moderator
Project developer
Project scientist

Joined: Mar 7 07
Posts: 9
ID: 2729
Credit: 76
RAC: 0
Message 3532 - Posted 13 Dec 2007 2:24:04 UTC

    Please report bugs for version 5.89 here.

    Pieface

    Joined: Feb 16 06
    Posts: 64
    ID: 234
    Credit: 203,513
    RAC: 0
    Message 3534 - Posted 13 Dec 2007 21:00:11 UTC

      wowzers, takes a while to run these guys thru. I just finished my first, took almost six hours (21,240 secs)to do one decoy on my p-4 2.8ghz Win-xp box. I\'m gonna have to up my preferences if they are all going to run this long!

      Resid 709016

      Rhiju
      Forum moderator
      Project developer
      Project scientist

      Joined: Feb 14 06
      Posts: 161
      ID: 4
      Credit: 3,725
      RAC: 0
      Message 3536 - Posted 15 Dec 2007 2:51:36 UTC - in response to Message 3534.

        Hi: yup, they\'re going to take a while... when we apply filters (to allow premature exits for unpromising model), they will average 2-3 hours per model. But these are totally worth it!

        wowzers, takes a while to run these guys thru. I just finished my first, took almost six hours (21,240 secs)to do one decoy on my p-4 2.8ghz Win-xp box. I\'m gonna have to up my preferences if they are all going to run this long!

        Resid 709016


        ____________

        Klimax

        Joined: Nov 7 07
        Posts: 9
        ID: 3773
        Credit: 10,317
        RAC: 0
        Message 3537 - Posted 15 Dec 2007 6:14:19 UTC

          Well,one of them was very quickly thrown out...
          This task took too much memory and since BOINC tried second RALPH task if that one will run quickly virtual memory was insufficently small for this and task crashed.(975MB of VM)

          Cruncher is notebook and I cannnot increase VM for disk is too small.

          sqweeser

          Joined: Jun 19 06
          Posts: 5
          ID: 1539
          Credit: 66,131
          RAC: 0
          Message 3538 - Posted 15 Dec 2007 8:30:40 UTC

            Last modified: 15 Dec 2007 8:32:38 UTC

            Noticed graphic bug in accepted energy bar in this work unit:
            http://ralph.bakerlab.org/workunit.php?wuid=632126
            It looked like that few minutes but disappeared after while.


            Edit: As you can see, it appeared when 43.69% was completed.

            Klimax

            Joined: Nov 7 07
            Posts: 9
            ID: 3773
            Credit: 10,317
            RAC: 0
            Message 3540 - Posted 15 Dec 2007 11:39:09 UTC

              Argh,second task crashed.Same reason.May be they should come with warning about high usage of VM...

              sqweeser

              Joined: Jun 19 06
              Posts: 5
              ID: 1539
              Credit: 66,131
              RAC: 0
              Message 3541 - Posted 15 Dec 2007 12:39:42 UTC

                Actually I can see high VM usage too but my computer/tasks haven\'t crashed because my VM is set to 1,5 GBs. At the moment mem usage is 106 MBs and VM usage 923 MBs. Same WU that I mentioned above...

                BigMike
                Avatar

                Joined: Feb 23 06
                Posts: 63
                ID: 738
                Credit: 58,730
                RAC: 0
                Message 3543 - Posted 16 Dec 2007 6:25:04 UTC

                  Is it just me, or is the Time To Completion acting strangely?

                  It seems to get stuck when it says there are about 10 minutes left. Meanwhile the WU continues to run for another hour, then it all goes to 100% and it\'s done.

                  It shouldn\'t have anything to do with my Result Duration Correction Factor, or CPU Effiency, because I\'ve been doing this for a while and those were calculated a long time ago for this system.

                  My impression is that it\'s a fairly recent phenomenon, maybe since 5.85 or so.

                  Anyone else have thoughts about this?

                  ==Mike
                  ____________
                  Don't believe everything you think.

                  BigMike
                  Avatar

                  Joined: Feb 23 06
                  Posts: 63
                  ID: 738
                  Credit: 58,730
                  RAC: 0
                  Message 3544 - Posted 16 Dec 2007 17:25:26 UTC - in response to Message 3534.

                    wowzers, takes a while to run these guys thru.

                    I\'ve seen this also. My preferences are set to 3600 seconds, and some of these are taking between 7000-9000 seconds to generate 1 decoy.

                    ==Mike
                    ____________
                    Don't believe everything you think.

                    Profile feet1st

                    Joined: Mar 7 06
                    Posts: 312
                    ID: 1028
                    Credit: 110,522
                    RAC: 10
                    Message 3545 - Posted 16 Dec 2007 19:09:09 UTC

                      That is always the case with long running models. Once they get down to 10 min the time estimate goes down the tubes. So they just keep increasing the % completed when it is refigured every 5 seconds, and that way the time keeps generally steady or falling. But it actually doesn\'t know how much longer it will run. So, yes, it is odd, but it is normal when the models take a long time. Especially if they take longer then your runtime preference.
                      ____________

                      Pepo
                      Avatar

                      Joined: Sep 8 06
                      Posts: 104
                      ID: 1812
                      Credit: 36,890
                      RAC: 0
                      Message 3546 - Posted 16 Dec 2007 21:02:04 UTC

                        My observation at the model end was, the % completed was steady and ETA was moving up and down, mostly up (off course).

                        And the mentioned graphics bug was hapening at the last few % of progress too.

                        Peter

                        Dr Who Fan
                        Avatar

                        Joined: Sep 2 06
                        Posts: 63
                        ID: 1787
                        Credit: 43,843
                        RAC: 14
                        Message 3548 - Posted 17 Dec 2007 9:29:50 UTC

                          Outcome Client error
                          Client state Downloading

                          http://ralph.bakerlab.org/result.php?resultid=713635

                          Exit status -186 (0xffffffffffffff46)

                          CPU time 0
                          stderr out

                          <core_client_version>5.10.28</core_client_version>
                          <![CDATA[
                          <message>
                          WU download error: couldn\'t get input files:
                          <file_xfer_error>
                          <file_name>native_1zpy_.psipred_ss2.gz</file_name>
                          <error_code>-200</error_code>
                          </file_xfer_error>

                          </message>
                          ]]>

                          Validate state Invalid
                          Claimed credit 0
                          Granted credit 0
                          application version 5.89

                          Dr Who Fan
                          Avatar

                          Joined: Sep 2 06
                          Posts: 63
                          ID: 1787
                          Credit: 43,843
                          RAC: 14
                          Message 3549 - Posted 17 Dec 2007 9:31:43 UTC

                            Outcome Client error
                            Client state Downloading

                            http://ralph.bakerlab.org/result.php?resultid=713620

                            Exit status -186 (0xffffffffffffff46)

                            CPU time 0
                            stderr out

                            <core_client_version>5.10.28</core_client_version>
                            <![CDATA[
                            <message>
                            WU download error: couldn\'t get input files:
                            <file_xfer_error>
                            <file_name>native_1zpy_.fasta.gz</file_name>
                            <error_code>-200</error_code>
                            </file_xfer_error>
                            <file_xfer_error>
                            <file_name>native_1zpy_.psipred_ss2.gz</file_name>
                            <error_code>-200</error_code>
                            </file_xfer_error>

                            </message>
                            ]]>

                            Validate state Invalid
                            Claimed credit 0
                            Granted credit 0
                            application version 5.89
                            ____________

                            Dr Who Fan
                            Avatar

                            Joined: Sep 2 06
                            Posts: 63
                            ID: 1787
                            Credit: 43,843
                            RAC: 14
                            Message 3550 - Posted 17 Dec 2007 9:33:57 UTC

                              Outcome Client error
                              Client state Downloading

                              http://ralph.bakerlab.org/result.php?resultid=713599

                              Exit status -186 (0xffffffffffffff46)

                              CPU time 0
                              stderr out

                              <core_client_version>5.10.28</core_client_version>
                              <![CDATA[
                              <message>
                              WU download error: couldn\'t get input files:
                              <file_xfer_error>
                              <file_name>native_1zpy_.fasta.gz</file_name>
                              <error_code>-200</error_code>
                              </file_xfer_error>
                              <file_xfer_error>
                              <file_name>native_1zpy_.psipred_ss2.gz</file_name>
                              <error_code>-200</error_code>
                              </file_xfer_error>

                              </message>
                              ]]>

                              Validate state Invalid
                              Claimed credit 0
                              Granted credit 0
                              application version 5.89

                              Rhiju
                              Forum moderator
                              Project developer
                              Project scientist

                              Joined: Feb 14 06
                              Posts: 161
                              ID: 4
                              Credit: 3,725
                              RAC: 0
                              Message 3553 - Posted 20 Dec 2007 1:23:54 UTC - in response to Message 3538.

                                Thanks for the screenshot -- we\'re looking into this, but the craziness may not be fixed for a few updates...

                                Noticed graphic bug in accepted energy bar in this work unit:
                                http://ralph.bakerlab.org/workunit.php?wuid=632126
                                It looked like that few minutes but disappeared after while.


                                Edit: As you can see, it appeared when 43.69% was completed.


                                ____________

                                Profile Conan
                                Avatar

                                Joined: Feb 16 06
                                Posts: 344
                                ID: 145
                                Credit: 1,309,534
                                RAC: 0
                                Message 3555 - Posted 20 Dec 2007 10:31:11 UTC

                                  Computational errors on two 5.89 WU\'s
                                  This WU and this WU both have the same error and ran for zero time

                                  <core_client_version>5.8.15</core_client_version>
                                  <![CDATA[
                                  <message>
                                  Incorrect function. (0x1) - exit code 1 (0x1)
                                  </message>
                                  <stderr_txt>
                                  # cpu_run_time_pref: 21600
                                  ERROR:: Exit from: .\\input_pdb.cc line: 3028

                                  ____________

                                  Message boards : RALPH@home bug list : Bug reports for 5.89


                                  Home | Join | About | Participants | Community | Statistics

                                  Copyright © 2017 University of Washington

                                  Last Modified: 20 Nov 2008 19:41:56 UTC
                                  Back to top ^