Task 38655757

Stderr output

<core_client_version>8.2.11</core_client_version>
<![CDATA[
<message>
Das Betriebssystem kann (null) nicht ausf�hren.
 (0xc3) - exit code 195 (0xc3)</message>
<stderr_txt>
12:28:55 (25236): wrapper (7.9.26016): starting
12:28:55 (25236): 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
12:28:56 (25236): Library/usr/bin/tar.exe exited; CPU time 0.015625
12:28:56 (25236): 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 'D:\BOINC\slots\0\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 'D:\BOINC\slots\0\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) : {3835115} normal block at 0x000001DDD9FDD7A0, 8 bytes long.
 Data: <        > 00 00 E4 D9 DD 01 00 00 
..\lib\diagnostics_win.cpp(417) : {3833960} normal block at 0x000001DDDC263500, 1080 bytes long.
 Data: <        $       > 04 82 00 00 CD CD CD CD 24 02 00 00 00 00 00 00 
..\zip\boinc_zip.cpp(122) : {312} normal block at 0x000001DDD9FD5E60, 260 bytes long.
 Data: <                > 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 
Object dump complete.
12:34:05 (5056): wrapper (7.9.26016): starting
12:34:05 (5056): 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 "D:\BOINC\slots\0\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1460} normal block at 0x0000027292B94880, 8 bytes long.
 Data: <    r   > 00 00 92 92 72 02 00 00 
..\lib\diagnostics_win.cpp(417) : {305} normal block at 0x0000027292B96280, 1080 bytes long.
 Data: <        |       > C8 8F 00 00 CD CD CD CD 7C 00 00 00 00 00 00 00 
Object dump complete.
12:35:33 (396): wrapper (7.9.26016): starting
12:35:33 (396): 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 "D:\BOINC\slots\0\tmp" existiert bereits.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Traceback (most recent call last):
  File "D:\BOINC\slots\0\Lib\site-packages\atom_openmm\openmm_async_re.py", line 432, in __init__
    replica = OMMReplicaATM(i, self.basename, self.service_worker, self.logger, self.keywords)
              ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "D:\BOINC\slots\0\Lib\site-packages\atom_openmm\ommreplica.py", line 41, in __init__
    self.load_checkpoint()
  File "D:\BOINC\slots\0\Lib\site-packages\atom_openmm\ommreplica.py", line 79, in load_checkpoint
    self.worker.simulation.loadState(ckptfile)
  File "D:\BOINC\slots\0\Lib\site-packages\openmm\app\simulation.py", line 363, in loadState
    self.context.setState(mm.XmlSerializer.deserialize(xml))
                          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "D:\BOINC\slots\0\Lib\site-packages\openmm\openmm.py", line 19618, in deserialize
    raise ValueError("Invalid input string")
ValueError: Invalid input string

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "<frozen runpy>", line 198, in _run_module_as_main
  File "<frozen runpy>", line 88, in _run_code
  File "D:\BOINC\slots\0\Scripts\rbfe_production.exe\__main__.py", line 7, in <module>
  File "D:\BOINC\slots\0\Lib\site-packages\atom_openmm\rbfe_production.py", line 29, in rbfe_production
    rx = openmm_job_RBFE(
         ^^^^^^^^^^^^^^^^
  File "D:\BOINC\slots\0\Lib\site-packages\atom_openmm\openmm_async_re.py", line 434, in __init__
    self._exit("Error when creating replica.")
  File "D:\BOINC\slots\0\Lib\site-packages\atom_openmm\async_re.py", line 69, in _exit
    self.checkpointJob()
  File "D:\BOINC\slots\0\Lib\site-packages\atom_openmm\openmm_async_re.py", line 48, in checkpointJob
    self.update_state_of_replica(repl)
  File "D:\BOINC\slots\0\Lib\site-packages\atom_openmm\openmm_async_re.py", line 86, in update_state_of_replica
    stateid = self.status[repl]['stateid_current']
              ^^^^^^^^^^^
  File "D:\BOINC\slots\0\Lib\site-packages\atom_openmm\async_re.py", line 131, in __getattribute__
    return object.__getattribute__(self,name)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
AttributeError: 'openmm_job_RBFE' object has no attribute 'status'
12:35:47 (396): C:/Windows/system32/cmd.exe exited; CPU time 9.687500
12:35:47 (396): app exit status: 0x16
12:35:47 (396): called boinc_finish(195)
0 bytes in 0 Free Blocks.
176 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: 393252 bytes.
Dumping objects ->
{1548} normal block at 0x000001B5C63F6150, 48 bytes long.
 Data: <PATH=D:\BOINC\sl> 50 41 54 48 3D 44 3A 5C 42 4F 49 4E 43 5C 73 6C 
{1537} normal block at 0x000001B5C63F04D0, 32 bytes long.
 Data: <HOME=D:\BOINC\sl> 48 4F 4D 45 3D 44 3A 5C 42 4F 49 4E 43 5C 73 6C 
{1526} normal block at 0x000001B5C63EF990, 32 bytes long.
 Data: <TMP=D:\BOINC\slo> 54 4D 50 3D 44 3A 5C 42 4F 49 4E 43 5C 73 6C 6F 
{1515} normal block at 0x000001B5C63F06B0, 32 bytes long.
 Data: <TEMP=D:\BOINC\sl> 54 45 4D 50 3D 44 3A 5C 42 4F 49 4E 43 5C 73 6C 
{1504} normal block at 0x000001B5C63F05F0, 32 bytes long.
 Data: <TMPDIR=D:\BOINC\> 54 4D 50 44 49 52 3D 44 3A 5C 42 4F 49 4E 43 5C 
{1473} normal block at 0x000001B5C63F5B30, 48 bytes long.
 Data: <PATH=D:\BOINC\sl> 50 41 54 48 3D 44 3A 5C 42 4F 49 4E 43 5C 73 6C 
..\api\boinc_api.cpp(309) : {1460} normal block at 0x000001B5C63F4E20, 8 bytes long.
 Data: <  ,     > 00 00 2C C6 B5 01 00 00 
{306} normal block at 0x000001B5C63F4830, 8 bytes long.
 Data: < b?     > 80 62 3F C6 B5 01 00 00 
{297} normal block at 0x000001B5C63EEEC0, 80 bytes long.
 Data: </c call Scripts\> 2F 63 20 63 61 6C 6C 20 53 63 72 69 70 74 73 5C 
{296} normal block at 0x000001B5C63F4880, 16 bytes long.
 Data: <xY?             > 78 59 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{295} normal block at 0x000001B5C63F4F60, 16 bytes long.
 Data: <PY?             > 50 59 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{294} normal block at 0x000001B5C63EFE10, 32 bytes long.
 Data: <r0/checkpoint.xm> 72 30 2F 63 68 65 63 6B 70 6F 69 6E 74 2E 78 6D 
{293} normal block at 0x000001B5C63F4330, 16 bytes long.
 Data: <(Y?             > 28 59 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{292} normal block at 0x000001B5C63F51E0, 16 bytes long.
 Data: < Y?             > 00 59 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{291} normal block at 0x000001B5C63F4C90, 16 bytes long.
 Data: < X?             > D8 58 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{290} normal block at 0x000001B5C63F42E0, 16 bytes long.
 Data: < X?             > B0 58 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{289} normal block at 0x000001B5C63F5DD0, 48 bytes long.
 Data: <ComSpec=C:\Windo> 43 6F 6D 53 70 65 63 3D 43 3A 5C 57 69 6E 64 6F 
{288} normal block at 0x000001B5C63F5190, 16 bytes long.
 Data: <8 =             > 38 F0 3D C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{287} normal block at 0x000001B5C63F0410, 32 bytes long.
 Data: <SystemRoot=C:\Wi> 53 79 73 74 65 6D 52 6F 6F 74 3D 43 3A 5C 57 69 
{286} normal block at 0x000001B5C63F47E0, 16 bytes long.
 Data: <  =             > 10 F0 3D C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{284} normal block at 0x000001B5C63F46A0, 16 bytes long.
 Data: <  =             > E8 EF 3D C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{283} normal block at 0x000001B5C63F4560, 16 bytes long.
 Data: <  =             > C0 EF 3D C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{282} normal block at 0x000001B5C63F4B50, 16 bytes long.
 Data: <  =             > 98 EF 3D C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{281} normal block at 0x000001B5C63F4FB0, 16 bytes long.
 Data: <p =             > 70 EF 3D C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{280} normal block at 0x000001B5C63F5140, 16 bytes long.
 Data: <H =             > 48 EF 3D C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{279} normal block at 0x000001B5C63F0710, 32 bytes long.
 Data: <CUDA_DEVICE=0 PU> 43 55 44 41 5F 44 45 56 49 43 45 3D 30 00 50 55 
{278} normal block at 0x000001B5C63F4A60, 16 bytes long.
 Data: <  =             > 20 EF 3D C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{277} normal block at 0x000001B5C63DEF20, 320 bytes long.
 Data: <`J?       ?     > 60 4A 3F C6 B5 01 00 00 10 07 3F C6 B5 01 00 00 
{276} normal block at 0x000001B5C63F5050, 16 bytes long.
 Data: < X?             > 90 58 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{275} normal block at 0x000001B5C63F4B00, 16 bytes long.
 Data: <hX?             > 68 58 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{274} normal block at 0x000001B5C63F0110, 32 bytes long.
 Data: <C:/Windows/syste> 43 3A 2F 57 69 6E 64 6F 77 73 2F 73 79 73 74 65 
{273} normal block at 0x000001B5C63F4470, 16 bytes long.
 Data: <@X?             > 40 58 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{272} normal block at 0x000001B5C63F02F0, 32 bytes long.
 Data: <xjvf input.tar.b> 78 6A 76 66 20 69 6E 70 75 74 2E 74 61 72 2E 62 
{271} normal block at 0x000001B5C63F49C0, 16 bytes long.
 Data: < W?             > 88 57 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{270} normal block at 0x000001B5C63F4510, 16 bytes long.
 Data: <`W?             > 60 57 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{269} normal block at 0x000001B5C63F4920, 16 bytes long.
 Data: <8W?             > 38 57 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{268} normal block at 0x000001B5C63F4290, 16 bytes long.
 Data: < W?             > 10 57 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{267} normal block at 0x000001B5C63F4970, 16 bytes long.
 Data: < V?             > E8 56 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{266} normal block at 0x000001B5C63F50F0, 16 bytes long.
 Data: < V?             > C0 56 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{264} normal block at 0x000001B5C63F4BF0, 16 bytes long.
 Data: <p >             > 70 E3 3E C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{263} normal block at 0x000001B5C63EE370, 40 bytes long.
 Data: < K?     0[?     > F0 4B 3F C6 B5 01 00 00 30 5B 3F C6 B5 01 00 00 
{262} normal block at 0x000001B5C63F48D0, 16 bytes long.
 Data: < V?             > A0 56 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{261} normal block at 0x000001B5C63F50A0, 16 bytes long.
 Data: <xV?             > 78 56 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{260} normal block at 0x000001B5C63EF930, 32 bytes long.
 Data: <Library/usr/bin/> 4C 69 62 72 61 72 79 2F 75 73 72 2F 62 69 6E 2F 
{259} normal block at 0x000001B5C63F4D30, 16 bytes long.
 Data: <PV?             > 50 56 3F C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{258} normal block at 0x000001B5C63F5650, 992 bytes long.
 Data: <0M?     0 >     > 30 4D 3F C6 B5 01 00 00 30 F9 3E C6 B5 01 00 00 
{94} normal block at 0x000001B5C63EF8D0, 32 bytes long.
 Data: <windows_x86_64__> 77 69 6E 64 6F 77 73 5F 78 38 36 5F 36 34 5F 5F 
{93} normal block at 0x000001B5C63EC9E0, 16 bytes long.
 Data: <  =             > D0 F3 3D C6 B5 01 00 00 00 00 00 00 00 00 00 00 
{92} normal block at 0x000001B5C63DF3D0, 40 bytes long.
 Data: <  >       >     > E0 C9 3E C6 B5 01 00 00 D0 F8 3E C6 B5 01 00 00 
{71} normal block at 0x000001B5C63ECDF0, 16 bytes long.
 Data: <                > 80 EA A5 D5 F6 7F 00 00 00 00 00 00 00 00 00 00 
{70} normal block at 0x000001B5C63ECEE0, 16 bytes long.
 Data: <@               > 40 E9 A5 D5 F6 7F 00 00 00 00 00 00 00 00 00 00 
{69} normal block at 0x000001B5C63ED020, 16 bytes long.
 Data: < W              > F8 57 A2 D5 F6 7F 00 00 00 00 00 00 00 00 00 00 
{68} normal block at 0x000001B5C63ED6B0, 16 bytes long.
 Data: < W              > D8 57 A2 D5 F6 7F 00 00 00 00 00 00 00 00 00 00 
{67} normal block at 0x000001B5C63ECA30, 16 bytes long.
 Data: <P               > 50 04 A2 D5 F6 7F 00 00 00 00 00 00 00 00 00 00 
{66} normal block at 0x000001B5C63ED750, 16 bytes long.
 Data: <0               > 30 04 A2 D5 F6 7F 00 00 00 00 00 00 00 00 00 00 
{65} normal block at 0x000001B5C63ED430, 16 bytes long.
 Data: <                > E0 02 A2 D5 F6 7F 00 00 00 00 00 00 00 00 00 00 
{64} normal block at 0x000001B5C63ECF30, 16 bytes long.
 Data: <                > 10 04 A2 D5 F6 7F 00 00 00 00 00 00 00 00 00 00 
{63} normal block at 0x000001B5C63ED610, 16 bytes long.
 Data: <p               > 70 04 A2 D5 F6 7F 00 00 00 00 00 00 00 00 00 00 
{62} normal block at 0x000001B5C63ED070, 16 bytes long.
 Data: <                > 18 C0 A0 D5 F6 7F 00 00 00 00 00 00 00 00 00 00 
Object dump complete.

</stderr_txt>
]]>

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