RALPH@home

Rosetta_beta 4.0+

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


Advanced search

Message boards : RALPH@home bug list : Rosetta_beta 4.0+

AuthorMessage
Profile dekim
Forum moderator
Project administrator
Project developer
Project scientist

Joined: Jan 20 06
Posts: 219
ID: 1
Credit: 492,249
RAC: 721
Message 6198 - Posted 18 Aug 2017 20:04:12 UTC

    Last modified: 18 Aug 2017 23:55:41 UTC

    Please post issues/bugs regarding the 'rosetta_beta_4.0+' application versions here.
    ____________

    Dr. Merkwürdigliebe

    Joined: Jun 12 15
    Posts: 16
    ID: 49181
    Credit: 23,473
    RAC: 0
    Message 6199 - Posted 19 Aug 2017 15:11:16 UTC

      I would love to try but there is no work available.

      Profile [VENETO] boboviz

      Joined: Apr 9 08
      Posts: 522
      ID: 4205
      Credit: 758,216
      RAC: 767
      Message 6200 - Posted 20 Aug 2017 21:37:13 UTC - in response to Message 6199.

        I would love to try but there is no work available.


        +1

        P.S. Is this version the beginning of new "c++ wave"??

        Profile dekim
        Forum moderator
        Project administrator
        Project developer
        Project scientist

        Joined: Jan 20 06
        Posts: 219
        ID: 1
        Credit: 492,249
        RAC: 721
        Message 6201 - Posted 21 Aug 2017 20:52:08 UTC - in response to Message 6200.

          Sorry, I was busy during the weekend and only added a small batch just in case there were issues. I also noticed the assimilator and validator wasn't turned on for the new app.

          The latest app update will be named "rosetta". This is mainly because it is not backwards compatible with the current app for "rosetta scripts XML" protocols.
          ____________

          Profile [VENETO] boboviz

          Joined: Apr 9 08
          Posts: 522
          ID: 4205
          Credit: 758,216
          RAC: 767
          Message 6202 - Posted 22 Aug 2017 20:52:46 UTC

            Screensaver is black on all my computers (3 Windows 10)

            Profile dekim
            Forum moderator
            Project administrator
            Project developer
            Project scientist

            Joined: Jan 20 06
            Posts: 219
            ID: 1
            Credit: 492,249
            RAC: 721
            Message 6203 - Posted 22 Aug 2017 22:37:56 UTC - in response to Message 6202.

              Last modified: 22 Aug 2017 22:48:48 UTC

              Yes, I just updated the app to 4.02 to address this.

              The issue was that we are using the new BOINC graphics api which uses a new to us font rendering framework. The BOINC ttfont.cpp code necessary for the fonts to work does not resolve the filename (using the boinc_resolve_filename api function) of the ttf font file so the graphics app would crash under the boinc client but not with a local test. This is because we passed the current run directory to the ttf_load_fonts function and not the project directory. Luckily it didn't take me that long to find the cause of this bug and hopefully I fixed it.
              ____________

              Profile [VENETO] boboviz

              Joined: Apr 9 08
              Posts: 522
              ID: 4205
              Credit: 758,216
              RAC: 767
              Message 6204 - Posted 23 Aug 2017 19:47:37 UTC - in response to Message 6203.

                Yes, I just updated the app to 4.02 to address this.


                The screensaver is not so important (i report this only for bugfixing), but thanks anyway

                Profile [VENETO] boboviz

                Joined: Apr 9 08
                Posts: 522
                ID: 4205
                Credit: 758,216
                RAC: 767
                Message 6205 - Posted 27 Aug 2017 10:57:07 UTC - in response to Message 6203.

                  Yes, I just updated the app to 4.02 to address this....

                  ..... to find the cause of this bug and hopefully I fixed it.


                  Obviously we volunteers need some wus to test it!! :-P

                  Profile [VENETO] boboviz

                  Joined: Apr 9 08
                  Posts: 522
                  ID: 4205
                  Credit: 758,216
                  RAC: 767
                  Message 6206 - Posted 28 Aug 2017 19:03:29 UTC

                    Avg free stops the new screensaver as "suspect".
                    I resolved this problem adding \Appdata\Roaming\Ralph folder as exception

                    Profile dekim
                    Forum moderator
                    Project administrator
                    Project developer
                    Project scientist

                    Joined: Jan 20 06
                    Posts: 219
                    ID: 1
                    Credit: 492,249
                    RAC: 721
                    Message 6207 - Posted 29 Aug 2017 17:39:03 UTC - in response to Message 6206.

                      Aside from this issue, are the graphics ok?
                      ____________

                      Profile [VENETO] boboviz

                      Joined: Apr 9 08
                      Posts: 522
                      ID: 4205
                      Credit: 758,216
                      RAC: 767
                      Message 6208 - Posted 29 Aug 2017 20:21:10 UTC - in response to Message 6207.

                        Aside from this issue, are the graphics ok?


                        Yes!
                        With the return of classic "all black" background.
                        No more blue :-P

                        P.S.
                        If i'm not wrong, blue background has a scientific motivation...

                        Profile [VENETO] boboviz

                        Joined: Apr 9 08
                        Posts: 522
                        ID: 4205
                        Credit: 758,216
                        RAC: 767
                        Message 6216 - Posted 5 Oct 2017 15:19:53 UTC

                          Last modified: 5 Oct 2017 15:20:31 UTC

                          Rosetta beta 4.04 seems to be good on Win 10 64 bit

                          Dr Who Fan
                          Avatar

                          Joined: Sep 2 06
                          Posts: 64
                          ID: 1787
                          Credit: 58,885
                          RAC: 234
                          Message 6222 - Posted 3 Nov 2017 4:14:14 UTC

                            Workunit 3680728 FAILED immediately upon starting for BOTH ME & WING PERSON.

                            Task# 4172557
                            Exit status -185 (0xffffffffffffff47)

                            application version 4.05

                            Name: rb_05_04_73708_117593__t000__ab_robetta_IGNORE_THE_REST_20692_26445_1

                            stderr out
                            <core_client_version>7.8.3</core_client_version>
                            <![CDATA[
                            <message>
                            couldn't start app: CreateProcess() failed - (unknown error)</message>
                            ]]>


                            ____________

                            Profile robertmiles

                            Joined: Jan 13 09
                            Posts: 80
                            ID: 5137
                            Credit: 246,177
                            RAC: 16
                            Message 6223 - Posted 3 Nov 2017 5:23:14 UTC

                              One of my computers ran a few tasks for rosetta_beta_4.05 under Windows 10.

                              All failed in less than one minute each, with error messages suggesting that the application has problems reading something in one of the input files.

                              Mad_Max

                              Joined: Nov 15 12
                              Posts: 11
                              ID: 18322
                              Credit: 297,065
                              RAC: 93
                              Message 6224 - Posted 3 Nov 2017 5:31:12 UTC

                                All of my rosetta_beta_4.05 WUs also failed immediately after start.
                                Actually it even can not start - BOINC fails to launch R@H process.

                                And if I try to launch rosetta_beta_4.05_windows_intelx86.exe from project folder - there is an error about "rosetta_beta_4.05_windows_intelx86.exe is not a Win32 application".

                                Maurice Goulois

                                Joined: May 23 15
                                Posts: 1
                                ID: 49052
                                Credit: 55,267
                                RAC: 853
                                Message 6225 - Posted 3 Nov 2017 5:33:20 UTC

                                  Last modified: 3 Nov 2017 5:38:42 UTC

                                  Different error but all fail on pc 38733: (ubuntu 16.04 LTS)

                                  <code><core_client_version>7.8.3</core_client_version>
                                  <![CDATA[
                                  <message>
                                  finish file present too long</message>
                                  <stderr_txt>
                                  command: ../../projects/ralph.bakerlab.org/rosetta_beta_4.05_x86_64-pc-linux-gnu @flags_rb_05_04_73708_117593__t000__ab_robetta -in:file:boinc_wu_zip input_rb_05_04_73708_117593__t000__ab_robetta.zip -in:file:fasta t000_.fasta -frag3 t000_.200.3mers.gz -fragB t000_.200.3mers.gz -fragA t000_.200.9mers.gz -constraints::cst_file t000_.fasta.CB.cst -constraints:cst_weight 3.0 -constraints::cst_fa_file t000_.fasta.MIN.cst -constraints:cst_fa_weight 3.0 -nstruct 10000 -cpu_run_time 3600 -boinc:max_nstruct 600 -checkpoint_interval 120 -mute all -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -run::rng mt19937 -constant_seed -jran 2635422
                                  Starting watchdog...
                                  Watchdog active.

                                  ERROR: unrecognized aa type OU3_ALA
                                  ERROR:: Exit from: src/core/chemical/AA.cc line: 270
                                  </code>
                                  ____________

                                  Profile dekim
                                  Forum moderator
                                  Project administrator
                                  Project developer
                                  Project scientist

                                  Joined: Jan 20 06
                                  Posts: 219
                                  ID: 1
                                  Credit: 492,249
                                  RAC: 721
                                  Message 6226 - Posted 3 Nov 2017 5:55:21 UTC

                                    Sorry! I've canceled this test batch. Looks like a database issue I'll have to troubleshoot.
                                    ____________

                                    Profile [VENETO] boboviz

                                    Joined: Apr 9 08
                                    Posts: 522
                                    ID: 4205
                                    Credit: 758,216
                                    RAC: 767
                                    Message 6227 - Posted 3 Nov 2017 6:33:04 UTC - in response to Message 6225.

                                      ERROR: unrecognized aa type OU3_ALA
                                      ERROR:: Exit from: src/core/chemical/AA.cc line: 270
                                      </code>


                                      +1
                                      All my wus in Win10.
                                      Hope this help the debug

                                      mmonnin

                                      Joined: Dec 6 16
                                      Posts: 4
                                      ID: 50914
                                      Credit: 90,478
                                      RAC: 1,474
                                      Message 6228 - Posted 3 Nov 2017 13:48:35 UTC

                                        I had errors with the output file in Linux. They had compute errors in 9 seconds each.

                                        http://ralph.bakerlab.org/forum_thread.php?id=589

                                        Profile [VENETO] boboviz

                                        Joined: Apr 9 08
                                        Posts: 522
                                        ID: 4205
                                        Credit: 758,216
                                        RAC: 767
                                        Message 6229 - Posted 9 Nov 2017 9:44:40 UTC

                                          No work to test :-(

                                          P.S.
                                          Do you plan to upgrade also the android version with 4.x wave?

                                          Profile [VENETO] boboviz

                                          Joined: Apr 9 08
                                          Posts: 522
                                          ID: 4205
                                          Credit: 758,216
                                          RAC: 767
                                          Message 6230 - Posted 20 Nov 2017 9:17:21 UTC - in response to Message 6226.

                                            Sorry! I've canceled this test batch. Looks like a database issue I'll have to troubleshoot.


                                            News??

                                            Profile dekim
                                            Forum moderator
                                            Project administrator
                                            Project developer
                                            Project scientist

                                            Joined: Jan 20 06
                                            Posts: 219
                                            ID: 1
                                            Credit: 492,249
                                            RAC: 721
                                            Message 6231 - Posted 21 Nov 2017 1:45:14 UTC

                                              Finally finished the builds. It took some time because we updated the source again to include additional bug fixes. I also updated the android version. We'll submit some tests soon.
                                              ____________

                                              Joe

                                              Joined: Aug 12 11
                                              Posts: 3
                                              ID: 17059
                                              Credit: 13,568
                                              RAC: 787
                                              Message 6232 - Posted 21 Nov 2017 5:19:33 UTC - in response to Message 6231.

                                                Happy to see work but unfortunately everything erring out

                                                ******

                                                stderr out
                                                <core_client_version>6.2.19</core_client_version>
                                                <![CDATA[
                                                <message>
                                                ��������ȷ�� (0x1) - exit code 1 (0x1)
                                                </message>
                                                <stderr_txt>
                                                [2011-10-23 3:34:58:] :: BOINC:: Initializing ... ok.
                                                [2011-10-23 3:34:58:] :: 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.
                                                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
                                                Loaded options.... ok
                                                Processed options.... ok
                                                Initializing random generators... ok
                                                Initialization complete.
                                                Initializing options.... ok
                                                Options::initialize()
                                                Options::adding_options()
                                                Options::initialize() Check specs.
                                                Options::initialize() End reached
                                                Loaded options.... ok
                                                Processed options.... ok
                                                Initializing random generators... ok
                                                Initialization complete.
                                                Setting WU description ...
                                                Unpacking zip data: ../../projects/ralph.bakerlab.org/minirosetta_database_rev42272.zip
                                                Unpacking WU data ...
                                                Unpacking data: ../../projects/ralph.bakerlab.org/3essA_cen.zip
                                                Setting database description ...
                                                Setting up checkpointing ...
                                                Setting up graphics native ...
                                                Setting up folding (abrelax) ...

                                                ERROR: [ERROR] Unable to open constraints file: 3essA.cst
                                                ERROR:: Exit from: ..\..\..\src\core\scoring\constraints\ConstraintIO.cc line: 402
                                                BOINC:: Error reading and gzipping output datafile: default.out
                                                called boinc_finish

                                                </stderr_txt>
                                                ]]>
                                                Validate state Invalid
                                                Claimed credit 0.14096248528502
                                                Granted credit 0
                                                application version 3.14

                                                Joe

                                                Joined: Aug 12 11
                                                Posts: 3
                                                ID: 17059
                                                Credit: 13,568
                                                RAC: 787
                                                Message 6233 - Posted 21 Nov 2017 5:27:52 UTC - in response to Message 6232.

                                                  Had a few that validated

                                                  stderr out
                                                  <core_client_version>7.6.33</core_client_version>
                                                  <![CDATA[
                                                  <stderr_txt>
                                                  command: projects/ralph.bakerlab.org/rosetta_beta_4.06_windows_x86_64.exe -use_filters true -silent_gz -mute all -abinitio::fastrelax -abinitio::rg_reweight 0.5 -abinitio::rsd_wt_helix 0.5 -abinitio::rsd_wt_loop 0.5 -in:file:native ab_12_01__vall_2011__1tulA.pdb -in::file::fasta ab_12_01__vall_2011__1tulA.fasta -psipred_ss2 ab_12_01__vall_2011__1tulA.psipred_ss2 -kill_hairpins ab_12_01__vall_2011__1tulA.nobuformat.psipred_ss2 -frag3 ab_12_01__vall_2011__1tulA.200.3mers.index -fragA ab_12_01__vall_2011__1tulA.200.9mers.index -fragB ab_12_01__vall_2011__1tulA.200.3mers.index -nstruct 10000 -cpu_run_time 3600 -boinc:max_nstruct 600 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -run::rng mt19937 -constant_seed -jran 2628579
                                                  Starting watchdog...
                                                  Watchdog active.
                                                  ======================================================
                                                  DONE :: 1 starting structures 3515.09 cpu seconds
                                                  This process generated 24 decoys from 24 attempts
                                                  ======================================================
                                                  BOINC :: WS_max 3.37977e+08

                                                  BOINC :: Watchdog shutting down...
                                                  21:23:56 (3312): called boinc_finish(0)

                                                  </stderr_txt>
                                                  ]]>

                                                  Profile [VENETO] boboviz

                                                  Joined: Apr 9 08
                                                  Posts: 522
                                                  ID: 4205
                                                  Credit: 758,216
                                                  RAC: 767
                                                  Message 6234 - Posted 21 Nov 2017 6:45:47 UTC - in response to Message 6232.

                                                    Happy to see work but unfortunately everything erring out

                                                    stderr out
                                                    <core_client_version>6.2.19</core_client_version>
                                                    <![CDATA[
                                                    <message>


                                                    It's VERY old version of boinc client.
                                                    Maybe this is a problem
                                                    Try to update this, if you can

                                                    Profile [VENETO] boboviz

                                                    Joined: Apr 9 08
                                                    Posts: 522
                                                    ID: 4205
                                                    Credit: 758,216
                                                    RAC: 767
                                                    Message 6235 - Posted 21 Nov 2017 6:46:05 UTC - in response to Message 6231.

                                                      Finally finished the builds. It took some time because we updated the source again to include additional bug fixes. I also updated the android version. We'll submit some tests soon.


                                                      Welcome back!!

                                                      Joe

                                                      Joined: Aug 12 11
                                                      Posts: 3
                                                      ID: 17059
                                                      Credit: 13,568
                                                      RAC: 787
                                                      Message 6236 - Posted 21 Nov 2017 9:19:57 UTC - in response to Message 6234.

                                                        Happy to see work but unfortunately everything erring out

                                                        stderr out
                                                        <core_client_version>6.2.19</core_client_version>
                                                        <![CDATA[
                                                        <message>


                                                        It's VERY old version of boinc client.
                                                        Maybe this is a problem
                                                        Try to update this, if you can


                                                        Nope I won't be updating the client lol..

                                                        What I have works fine for every other project I run...with boinc newer is definitely not better

                                                        Profile [VENETO] boboviz

                                                        Joined: Apr 9 08
                                                        Posts: 522
                                                        ID: 4205
                                                        Credit: 758,216
                                                        RAC: 767
                                                        Message 6237 - Posted 21 Nov 2017 10:16:28 UTC - in response to Message 6236.

                                                          Last modified: 21 Nov 2017 10:17:18 UTC

                                                          What I have works fine for every other project I run...with boinc newer is definitely not better


                                                          The 7.8.x release has some problems, but 7.6.x or 7.4.x versions have not problems and you can download and install it. These versions have a lot of new features (for example, virtualbox support or OpenCl support), bugfix, security patch, etc.

                                                          https://boinc.berkeley.edu/download_all.php

                                                          I repeat: maybe these is not the problem of this ralph release, but i suggest you to upgrade

                                                          Profile dekim
                                                          Forum moderator
                                                          Project administrator
                                                          Project developer
                                                          Project scientist

                                                          Joined: Jan 20 06
                                                          Posts: 219
                                                          ID: 1
                                                          Credit: 492,249
                                                          RAC: 721
                                                          Message 6238 - Posted 21 Nov 2017 18:39:42 UTC - in response to Message 6232.

                                                            Not sure why but this error is from a very old app version.
                                                            ____________

                                                            Trotador

                                                            Joined: May 7 10
                                                            Posts: 20
                                                            ID: 15474
                                                            Credit: 9,186,640
                                                            RAC: 14,042
                                                            Message 6239 - Posted 21 Nov 2017 20:25:33 UTC

                                                              I seems that there are lots of units to download but I can't downoload any in my hosts (linux), is it only for windows?

                                                              Profile [VENETO] boboviz

                                                              Joined: Apr 9 08
                                                              Posts: 522
                                                              ID: 4205
                                                              Credit: 758,216
                                                              RAC: 767
                                                              Message 6240 - Posted 21 Nov 2017 21:31:56 UTC - in response to Message 6239.

                                                                I seems that there are lots of units to download but I can't downoload any in my hosts (linux), is it only for windows?


                                                                I cannot download wu for my Windows 10 pcs
                                                                It's only for linux??

                                                                :-P

                                                                mmonnin

                                                                Joined: Dec 6 16
                                                                Posts: 4
                                                                ID: 50914
                                                                Credit: 90,478
                                                                RAC: 1,474
                                                                Message 6241 - Posted 21 Nov 2017 23:11:26 UTC - in response to Message 6240.

                                                                  I have received some tasks on Linux and Android. No Windows tasks though.

                                                                  Mad_Max

                                                                  Joined: Nov 15 12
                                                                  Posts: 11
                                                                  ID: 18322
                                                                  Credit: 297,065
                                                                  RAC: 93
                                                                  Message 6242 - Posted 22 Nov 2017 4:51:08 UTC

                                                                    Same as previous (http://ralph.bakerlab.org/forum_thread.php?id=586&nowrap=true#6224) - all wus have failed immediately after start.
                                                                    Actually it even can not start - BOINC fails to launch R@H process.


                                                                    .....................
                                                                    22/11/2017 05:26:23 | ralph@home | [error] Process creation failed: (unknown error) - error code 193 (0xc1)
                                                                    22/11/2017 05:26:24 | ralph@home | [error] Process creation failed: (unknown error) - error code 193 (0xc1)
                                                                    22/11/2017 05:26:24 | ralph@home | [error] Process creation failed: (unknown error) - error code 193 (0xc1)
                                                                    22/11/2017 05:26:25 | ralph@home | [error] Process creation failed: (unknown error) - error code 193 (0xc1)
                                                                    22/11/2017 05:26:25 | ralph@home | [error] Process creation failed: (unknown error) - error code 193 (0xc1)
                                                                    22/11/2017 05:26:27 | ralph@home | Computation for task ab_12_01__vall_2011_2ci2I_vall_2011_9mers_3mers_20693_63_0 finished
                                                                    22/11/2017 05:26:27 | ralph@home | Output file ab_12_01__vall_2011_2ci2I_vall_2011_9mers_3mers_20693_63_0_0 for task ab_12_01__vall_2011_2ci2I_vall_2011_9mers_3mers_20693_63_0 absent
                                                                    22/11/2017 05:26:29 | ralph@home | [error] Process creation failed: (unknown error) - error code 193 (0xc1)
                                                                    22/11/2017 05:26:30 | ralph@home | [error] Process creation failed: (unknown error) - error code 193 (0xc1)
                                                                    22/11/2017 05:26:30 | ralph@home | [error] Process creation failed: (unknown error) - error code 193 (0xc1)
                                                                    22/11/2017 05:26:31 | ralph@home | [error] Process creation failed: (unknown error) - error code 193 (0xc1)
                                                                    22/11/2017 05:26:31 | ralph@home | [error] Process creation failed: (unknown error) - error code 193 (0xc1)
                                                                    22/11/2017 05:26:34 | ralph@home | Computation for task cp11d2v1_cpp_11_D2_v1_SAVE_ALL_OUT_20695_1177_0 finished
                                                                    22/11/2017 05:26:34 | ralph@home | Output file cp11d2v1_cpp_11_D2_v1_SAVE_ALL_OUT_20695_1177_0_0 for task cp11d2v1_cpp_11_D2_v1_SAVE_ALL_OUT_20695_1177_0 absent
                                                                    ..............

                                                                    Profile [VENETO] boboviz

                                                                    Joined: Apr 9 08
                                                                    Posts: 522
                                                                    ID: 4205
                                                                    Credit: 758,216
                                                                    RAC: 767
                                                                    Message 6243 - Posted 22 Nov 2017 8:09:26 UTC - in response to Message 6241.

                                                                      I have received some tasks on Linux and Android. No Windows tasks though.



                                                                      During the night (in Italy) some wus for Windows.
                                                                      Seems a "mixed" queue

                                                                      Profile Conan
                                                                      Avatar

                                                                      Joined: Feb 16 06
                                                                      Posts: 345
                                                                      ID: 145
                                                                      Credit: 1,328,309
                                                                      RAC: 299
                                                                      Message 6244 - Posted 22 Nov 2017 8:29:06 UTC

                                                                        Last modified: 22 Nov 2017 8:29:52 UTC

                                                                        Credit issue, I have had 2 work units that only received the credit they claimed, and no adjustment for final credit amount.

                                                                        See Result 4178106
                                                                        Also Result=4178099

                                                                        Or did these two work units just not do enough work?

                                                                        Conan
                                                                        ____________

                                                                        Message boards : RALPH@home bug list : Rosetta_beta 4.0+


                                                                        Home | Join | About | Participants | Community | Statistics

                                                                        Copyright © 2017 University of Washington

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