Task 38691159

Stderr output

<core_client_version>8.2.11</core_client_version>
<![CDATA[
<stderr_txt>
12:32:29 (23144): wrapper (7.9.26016): starting
12:32:29 (23144): wrapper: running Library/usr/bin/tar.exe (xjvf input.tar.bz2)
QB_A34_A12_0.pdb
QB_A34_A12_0.xml
QB_A34_A12_input.yaml
QB_A34_A12.pdb
QB_A34_A12.prmtop
QB_A34_A12_sys.xml
run.bat
run.sh
12:32:30 (23144): Library/usr/bin/tar.exe exited; CPU time 0.000000
12:32:30 (23144): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
  WARNING: The script pyaml.exe is installed in 'C:\ProgramData\BOINC\slots\1\Scripts' which is not on PATH.
  Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
  WARNING: The scripts abfe_production.exe, abfe_structprep.exe, make_atm_system_from_amber.exe, make_atm_system_from_pdb.exe, make_atm_system_from_rcpt_lig.exe, rbfe_production.exe and rbfe_structprep.exe are installed in 'C:\ProgramData\BOINC\slots\1\Scripts' which is not on PATH.
  Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {3835102} normal block at 0x00000277A0F8FFA0, 8 bytes long.
 Data: <    w   > 00 00 9F A2 77 02 00 00 
..\lib\diagnostics_win.cpp(417) : {3833962} normal block at 0x00000277A2CC5820, 1080 bytes long.
 Data: <l/              > 6C 2F 00 00 CD CD CD CD 90 02 00 00 00 00 00 00 
..\zip\boinc_zip.cpp(122) : {313} normal block at 0x00000277A0F86730, 260 bytes long.
 Data: <                > 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 
Object dump complete.
13:01:28 (8556): wrapper (7.9.26016): starting
13:01:28 (8556): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1446} normal block at 0x00000137FFDF57C0, 8 bytes long.
 Data: <  ' 7   > 00 00 27 80 37 01 00 00 
..\lib\diagnostics_win.cpp(417) : {306} normal block at 0x00000137FFDF66A0, 1080 bytes long.
 Data: < C      (       > BC 43 00 00 CD CD CD CD 28 01 00 00 00 00 00 00 
Object dump complete.
14:45:03 (9584): wrapper (7.9.26016): starting
14:45:03 (9584): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1446} normal block at 0x00000166365855E0, 8 bytes long.
 Data: <   6f   > 00 00 A4 36 66 01 00 00 
..\lib\diagnostics_win.cpp(417) : {306} normal block at 0x00000166365866A0, 1080 bytes long.
 Data: < O      D       > D8 4F 00 00 CD CD CD CD 44 01 00 00 00 00 00 00 
Object dump complete.
15:28:56 (13228): wrapper (7.9.26016): starting
15:28:56 (13228): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1446} normal block at 0x000002545C045A90, 8 bytes long.
 Data: <  ]\T   > 00 00 5D 5C 54 02 00 00 
..\lib\diagnostics_win.cpp(417) : {306} normal block at 0x000002545C0466A0, 1080 bytes long.
 Data: <@S      H       > 40 53 00 00 CD CD CD CD 48 01 00 00 00 00 00 00 
Object dump complete.
11:33:53 (20380): wrapper (7.9.26016): starting
11:33:53 (20380): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1446} normal block at 0x0000018BFBF35810, 8 bytes long.
 Data: <  G     > 00 00 47 FC 8B 01 00 00 
..\lib\diagnostics_win.cpp(417) : {306} normal block at 0x0000018BFBF366A0, 1080 bytes long.
 Data: <xK      H       > 78 4B 00 00 CD CD CD CD 48 01 00 00 00 00 00 00 
Object dump complete.
12:14:42 (3716): wrapper (7.9.26016): starting
12:14:42 (3716): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1446} normal block at 0x000001ACE85C5630, 8 bytes long.
 Data: <        > 00 00 A5 E8 AC 01 00 00 
..\lib\diagnostics_win.cpp(417) : {306} normal block at 0x000001ACE85C66A0, 1080 bytes long.
 Data: <        0       > 20 11 00 00 CD CD CD CD 30 01 00 00 00 00 00 00 
Object dump complete.
12:42:53 (21136): wrapper (7.9.26016): starting
12:42:53 (21136): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1446} normal block at 0x000001DEDC025360, 8 bytes long.
 Data: <        > 00 00 FF DB DE 01 00 00 
..\lib\diagnostics_win.cpp(417) : {306} normal block at 0x000001DEDC0266A0, 1080 bytes long.
 Data: < J      H       > 88 4A 00 00 CD CD CD CD 48 01 00 00 00 00 00 00 
Object dump complete.
11:36:17 (8296): wrapper (7.9.26016): starting
11:36:17 (8296): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1446} normal block at 0x0000026287C457D0, 8 bytes long.
 Data: <    b   > 00 00 1D 88 62 02 00 00 
..\lib\diagnostics_win.cpp(417) : {306} normal block at 0x0000026287C46660, 1080 bytes long.
 Data: <X3      L       > 58 33 00 00 CD CD CD CD 4C 01 00 00 00 00 00 00 
Object dump complete.
12:16:37 (13788): wrapper (7.9.26016): starting
12:16:37 (13788): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1446} normal block at 0x000002689E3A5B90, 8 bytes long.
 Data: <    h   > 00 00 81 9E 68 02 00 00 
..\lib\diagnostics_win.cpp(417) : {306} normal block at 0x000002689E3A6660, 1080 bytes long.
 Data: <P>      H       > 50 3E 00 00 CD CD CD CD 48 01 00 00 00 00 00 00 
Object dump complete.
13:01:02 (19380): wrapper (7.9.26016): starting
13:01:02 (19380): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1446} normal block at 0x000001B556995F00, 8 bytes long.
 Data: <  >X    > 00 00 3E 58 B5 01 00 00 
..\lib\diagnostics_win.cpp(417) : {306} normal block at 0x000001B556996660, 1080 bytes long.
 Data: < <      `       > A8 3C 00 00 CD CD CD CD 60 00 00 00 00 00 00 00 
Object dump complete.
09:58:21 (4168): wrapper (7.9.26016): starting
09:58:21 (4168): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1444} normal block at 0x0000021682714E70, 8 bytes long.
 Data: <        > 00 00 C7 82 16 02 00 00 
..\lib\diagnostics_win.cpp(417) : {304} normal block at 0x0000021682715C60, 1080 bytes long.
 Data: < V      L       > E8 56 00 00 CD CD CD CD 4C 01 00 00 00 00 00 00 
Object dump complete.
11:15:23 (19364): wrapper (7.9.26016): starting
11:15:23 (19364): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1444} normal block at 0x00000263E96B4A10, 8 bytes long.
 Data: <    c   > 00 00 B4 E9 63 02 00 00 
..\lib\diagnostics_win.cpp(417) : {304} normal block at 0x00000263E96B5C60, 1080 bytes long.
 Data: < D      4       > A4 44 00 00 CD CD CD CD 34 01 00 00 00 00 00 00 
Object dump complete.
11:47:41 (20424): wrapper (7.9.26016): starting
11:47:41 (20424): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
Ein Unterverzeichnis oder eine Datei mit dem Namen "C:\ProgramData\BOINC\slots\1\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
tar: run.log: file changed as we read it
tar: r*/*.dcd: Cannot stat: No such file or directory
tar: r*/*.xtc: Cannot stat: No such file or directory
tar: Exiting with failure status due to previous errors
11:53:40 (20424): C:/Windows/system32/cmd.exe exited; CPU time 341.500000
11:53:40 (20424): called boinc_finish(0)
0 bytes in 0 Free Blocks.
256 bytes in 6 Normal Blocks.
1144 bytes in 1 CRT Blocks.
0 bytes in 0 Ignore Blocks.
0 bytes in 0 Client Blocks.
Largest number used: 0 bytes.
Total allocations: 5686736 bytes.
Dumping objects ->
{1532} normal block at 0x0000029758234380, 48 bytes long.
 Data: <PATH=C:\ProgramD> 50 41 54 48 3D 43 3A 5C 50 72 6F 67 72 61 6D 44 
{1521} normal block at 0x00000297582344D0, 48 bytes long.
 Data: <HOME=C:\ProgramD> 48 4F 4D 45 3D 43 3A 5C 50 72 6F 67 72 61 6D 44 
{1510} normal block at 0x0000029758234690, 48 bytes long.
 Data: <TMP=C:\ProgramDa> 54 4D 50 3D 43 3A 5C 50 72 6F 67 72 61 6D 44 61 
{1499} normal block at 0x0000029758234620, 48 bytes long.
 Data: <TEMP=C:\ProgramD> 54 45 4D 50 3D 43 3A 5C 50 72 6F 67 72 61 6D 44 
{1488} normal block at 0x0000029758234540, 48 bytes long.
 Data: <TMPDIR=C:\Progra> 54 4D 50 44 49 52 3D 43 3A 5C 50 72 6F 67 72 61 
{1457} normal block at 0x0000029758229640, 64 bytes long.
 Data: <PATH=C:\ProgramD> 50 41 54 48 3D 43 3A 5C 50 72 6F 67 72 61 6D 44 
..\api\boinc_api.cpp(309) : {1444} normal block at 0x00000297582350A0, 8 bytes long.
 Data: <  pX    > 00 00 70 58 97 02 00 00 
{305} normal block at 0x0000029758234EC0, 8 bytes long.
 Data: <`\#X    > 60 5C 23 58 97 02 00 00 
{296} normal block at 0x00000297582267D0, 80 bytes long.
 Data: </c call Scripts\> 2F 63 20 63 61 6C 6C 20 53 63 72 69 70 74 73 5C 
{295} normal block at 0x00000297582355F0, 16 bytes long.
 Data: <h[#X            > 68 5B 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{294} normal block at 0x0000029758235050, 16 bytes long.
 Data: <@[#X            > 40 5B 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{293} normal block at 0x0000029758230690, 32 bytes long.
 Data: <r0/checkpoint.xm> 72 30 2F 63 68 65 63 6B 70 6F 69 6E 74 2E 78 6D 
{292} normal block at 0x0000029758235280, 16 bytes long.
 Data: < [#X            > 18 5B 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{291} normal block at 0x0000029758235000, 16 bytes long.
 Data: < Z#X            > F0 5A 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{290} normal block at 0x0000029758235550, 16 bytes long.
 Data: < Z#X            > C8 5A 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{289} normal block at 0x0000029758234F10, 16 bytes long.
 Data: < Z#X            > A0 5A 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{288} normal block at 0x00000297582345B0, 48 bytes long.
 Data: <ComSpec=C:\Windo> 43 6F 6D 53 70 65 63 3D 43 3A 5C 57 69 6E 64 6F 
{287} normal block at 0x0000029758234970, 16 bytes long.
 Data: <x !X            > 78 B5 21 58 97 02 00 00 00 00 00 00 00 00 00 00 
{286} normal block at 0x00000297582301B0, 32 bytes long.
 Data: <SystemRoot=C:\Wi> 53 79 73 74 65 6D 52 6F 6F 74 3D 43 3A 5C 57 69 
{285} normal block at 0x0000029758235500, 16 bytes long.
 Data: <P !X            > 50 B5 21 58 97 02 00 00 00 00 00 00 00 00 00 00 
{283} normal block at 0x00000297582354B0, 16 bytes long.
 Data: <( !X            > 28 B5 21 58 97 02 00 00 00 00 00 00 00 00 00 00 
{282} normal block at 0x00000297582351E0, 16 bytes long.
 Data: <  !X            > 00 B5 21 58 97 02 00 00 00 00 00 00 00 00 00 00 
{281} normal block at 0x0000029758234A60, 16 bytes long.
 Data: <  !X            > D8 B4 21 58 97 02 00 00 00 00 00 00 00 00 00 00 
{280} normal block at 0x0000029758235730, 16 bytes long.
 Data: <  !X            > B0 B4 21 58 97 02 00 00 00 00 00 00 00 00 00 00 
{279} normal block at 0x0000029758234FB0, 16 bytes long.
 Data: <  !X            > 88 B4 21 58 97 02 00 00 00 00 00 00 00 00 00 00 
{278} normal block at 0x0000029758230BD0, 32 bytes long.
 Data: <CUDA_DEVICE=0 PU> 43 55 44 41 5F 44 45 56 49 43 45 3D 30 00 50 55 
{277} normal block at 0x0000029758235320, 16 bytes long.
 Data: <` !X            > 60 B4 21 58 97 02 00 00 00 00 00 00 00 00 00 00 
{276} normal block at 0x000002975821B460, 320 bytes long.
 Data: < S#X      #X    > 20 53 23 58 97 02 00 00 D0 0B 23 58 97 02 00 00 
{275} normal block at 0x0000029758234880, 16 bytes long.
 Data: < Z#X            > 80 5A 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{274} normal block at 0x0000029758234920, 16 bytes long.
 Data: <XZ#X            > 58 5A 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{273} normal block at 0x000002975822FEB0, 32 bytes long.
 Data: <C:/Windows/syste> 43 3A 2F 57 69 6E 64 6F 77 73 2F 73 79 73 74 65 
{272} normal block at 0x0000029758234D80, 16 bytes long.
 Data: <0Z#X            > 30 5A 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{271} normal block at 0x0000029758230990, 32 bytes long.
 Data: <xjvf input.tar.b> 78 6A 76 66 20 69 6E 70 75 74 2E 74 61 72 2E 62 
{270} normal block at 0x0000029758234E70, 16 bytes long.
 Data: <xY#X            > 78 59 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{269} normal block at 0x00000297582352D0, 16 bytes long.
 Data: <PY#X            > 50 59 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{268} normal block at 0x0000029758234F60, 16 bytes long.
 Data: <(Y#X            > 28 59 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{267} normal block at 0x0000029758235140, 16 bytes long.
 Data: < Y#X            > 00 59 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{266} normal block at 0x0000029758235370, 16 bytes long.
 Data: < X#X            > D8 58 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{265} normal block at 0x00000297582356E0, 16 bytes long.
 Data: < X#X            > B0 58 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{263} normal block at 0x00000297582350F0, 16 bytes long.
 Data: < A#X            > C0 41 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{262} normal block at 0x00000297582341C0, 40 bytes long.
 Data: < P#X    @ "X    > F0 50 23 58 97 02 00 00 40 96 22 58 97 02 00 00 
{261} normal block at 0x00000297582353C0, 16 bytes long.
 Data: < X#X            > 90 58 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{260} normal block at 0x00000297582348D0, 16 bytes long.
 Data: <hX#X            > 68 58 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{259} normal block at 0x0000029758230150, 32 bytes long.
 Data: <Library/usr/bin/> 4C 69 62 72 61 72 79 2F 75 73 72 2F 62 69 6E 2F 
{258} normal block at 0x0000029758234E20, 16 bytes long.
 Data: <@X#X            > 40 58 23 58 97 02 00 00 00 00 00 00 00 00 00 00 
{257} normal block at 0x0000029758235840, 992 bytes long.
 Data: < N#X    P #X    > 20 4E 23 58 97 02 00 00 50 01 23 58 97 02 00 00 
{93} normal block at 0x0000029758230A50, 32 bytes long.
 Data: <windows_x86_64__> 77 69 6E 64 6F 77 73 5F 78 38 36 5F 36 34 5F 5F 
{92} normal block at 0x000002975822F120, 16 bytes long.
 Data: <` !X            > 60 E5 21 58 97 02 00 00 00 00 00 00 00 00 00 00 
{91} normal block at 0x000002975821E560, 40 bytes long.
 Data: <  "X    P #X    > 20 F1 22 58 97 02 00 00 50 0A 23 58 97 02 00 00 
{70} normal block at 0x000002975822F8F0, 16 bytes long.
 Data: <  iL            > 80 EA 69 4C F7 7F 00 00 00 00 00 00 00 00 00 00 
{69} normal block at 0x000002975822EF40, 16 bytes long.
 Data: <@ iL            > 40 E9 69 4C F7 7F 00 00 00 00 00 00 00 00 00 00 
{68} normal block at 0x000002975822ED10, 16 bytes long.
 Data: < WfL            > F8 57 66 4C F7 7F 00 00 00 00 00 00 00 00 00 00 
{67} normal block at 0x000002975822F850, 16 bytes long.
 Data: < WfL            > D8 57 66 4C F7 7F 00 00 00 00 00 00 00 00 00 00 
{66} normal block at 0x000002975822F260, 16 bytes long.
 Data: <P fL            > 50 04 66 4C F7 7F 00 00 00 00 00 00 00 00 00 00 
{65} normal block at 0x000002975822F940, 16 bytes long.
 Data: <0 fL            > 30 04 66 4C F7 7F 00 00 00 00 00 00 00 00 00 00 
{64} normal block at 0x000002975822EFE0, 16 bytes long.
 Data: <  fL            > E0 02 66 4C F7 7F 00 00 00 00 00 00 00 00 00 00 
{63} normal block at 0x000002975822EEF0, 16 bytes long.
 Data: <  fL            > 10 04 66 4C F7 7F 00 00 00 00 00 00 00 00 00 00 
{62} normal block at 0x000002975822F210, 16 bytes long.
 Data: <p fL            > 70 04 66 4C F7 7F 00 00 00 00 00 00 00 00 00 00 
{61} normal block at 0x000002975822F300, 16 bytes long.
 Data: <  dL            > 18 C0 64 4C F7 7F 00 00 00 00 00 00 00 00 00 00 
Object dump complete.

</stderr_txt>
]]>

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