Task 38617199

Stderr output

<core_client_version>8.2.4</core_client_version>
<![CDATA[
<message>
 nelze spustit.
 (0xc3) - exit code 195 (0xc3)</message>
<stderr_txt>
00:03:46 (2576): wrapper (7.9.26016): starting
00:03:46 (2576): wrapper: running Library/usr/bin/tar.exe (xjvf input.tar.bz2)
QB_A02_A26_0.pdb
QB_A02_A26_0.xml
QB_A02_A26.inpcrd
QB_A02_A26_input.yaml
QB_A02_A26.pdb
QB_A02_A26.prmtop
QB_A02_A26_sys.xml
run.bat
run.sh
00:03:47 (2576): Library/usr/bin/tar.exe exited; CPU time 0.000000
00:03:47 (2576): 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) : {3835379} normal block at 0x000002AADD0FD940, 8 bytes long.
 Data: <  o     > 00 00 6F DD AA 02 00 00 
..\lib\diagnostics_win.cpp(417) : {3833958} normal block at 0x000002AADEFE51A0, 1080 bytes long.
 Data: < #              > 80 23 00 00 CD CD CD CD 94 01 00 00 00 00 00 00 
..\zip\boinc_zip.cpp(122) : {311} normal block at 0x000002AADD0F0A90, 260 bytes long.
 Data: <                > 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 
Object dump complete.
06:49:18 (23148): wrapper (7.9.26016): starting
06:49:18 (23148): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
A subdirectory or file C:\ProgramData\BOINC\slots\1\tmp already exists.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1725} normal block at 0x0000010BF18E5FC0, 8 bytes long.
 Data: <        > 00 00 E4 F1 0B 01 00 00 
..\lib\diagnostics_win.cpp(417) : {304} normal block at 0x0000010BF18E6810, 1080 bytes long.
 Data: <                > 04 1D 00 00 CD CD CD CD A8 01 00 00 00 00 00 00 
Object dump complete.
07:18:37 (5360): wrapper (7.9.26016): starting
07:18:37 (5360): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
A subdirectory or file C:\ProgramData\BOINC\slots\1\tmp already exists.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Detected memory leaks!
Dumping objects ->
..\api\boinc_api.cpp(309) : {1725} normal block at 0x0000019D57875520, 8 bytes long.
 Data: <   W    > 00 00 DA 57 9D 01 00 00 
..\lib\diagnostics_win.cpp(417) : {304} normal block at 0x0000019D57876810, 1080 bytes long.
 Data: < O              > 84 4F 00 00 CD CD CD CD A8 01 00 00 00 00 00 00 
Object dump complete.
08:01:54 (16368): wrapper (7.9.26016): starting
08:01:54 (16368): wrapper: running C:/Windows/system32/cmd.exe (/c call Scripts\activate.bat && Scripts\conda-unpack.exe && run.bat)
A subdirectory or file C:\ProgramData\BOINC\slots\1\tmp already exists.
Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
Traceback (most recent call last):
  File "<frozen runpy>", line 198, in _run_module_as_main
  File "<frozen runpy>", line 88, in _run_code
  File "C:\ProgramData\BOINC\slots\1\Scripts\rbfe_production.exe\__main__.py", line 7, in <module>
  File "C:\ProgramData\BOINC\slots\1\Lib\site-packages\atom_openmm\rbfe_production.py", line 29, in rbfe_production
    rx = openmm_job_RBFE(
         ^^^^^^^^^^^^^^^^
  File "C:\ProgramData\BOINC\slots\1\Lib\site-packages\atom_openmm\openmm_async_re.py", line 427, in __init__
    self.service_worker = ommworkercls(self.basename, service_ommsys, self.keywords, compute = False, logger = self.logger)
                          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "C:\ProgramData\BOINC\slots\1\Lib\site-packages\atom_openmm\ommworker.py", line 53, in __init__
    self.start_worker()
  File "C:\ProgramData\BOINC\slots\1\Lib\site-packages\atom_openmm\ommworker.py", line 443, in start_worker
    self._openmm_worker_body()
  File "C:\ProgramData\BOINC\slots\1\Lib\site-packages\atom_openmm\ommworker.py", line 198, in _openmm_worker_body
    self.ommsystem.create_system()
  File "C:\ProgramData\BOINC\slots\1\Lib\site-packages\atom_openmm\ommsystem.py", line 872, in create_system
    self.load_system()
  File "C:\ProgramData\BOINC\slots\1\Lib\site-packages\atom_openmm\ommsystem.py", line 105, in load_system
    self.system = XmlSerializer.deserialize(input.read())
                  ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "C:\ProgramData\BOINC\slots\1\Lib\site-packages\openmm\openmm.py", line 19621, in deserialize
    return XmlSerializer.deserializeSystem(inputString)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "C:\ProgramData\BOINC\slots\1\Lib\site-packages\openmm\openmm.py", line 19530, in deserializeSystem
    return _openmm.XmlSerializer_deserializeSystem(inputString)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
openmm.OpenMMException: bad allocation
08:03:52 (16368): C:/Windows/system32/cmd.exe exited; CPU time 1.515625
08:03:52 (16368): app exit status: 0x16
08:03:52 (16368): called boinc_finish(195)
0 bytes in 0 Free Blocks.
616 bytes in 8 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: 604836 bytes.
Dumping objects ->
{1814} normal block at 0x0000021808D003A0, 48 bytes long.
 Data: <PATH=C:\ProgramD> 50 41 54 48 3D 43 3A 5C 50 72 6F 67 72 61 6D 44 
{1803} normal block at 0x0000021808D004F0, 48 bytes long.
 Data: <HOME=C:\ProgramD> 48 4F 4D 45 3D 43 3A 5C 50 72 6F 67 72 61 6D 44 
{1792} normal block at 0x0000021808D00720, 48 bytes long.
 Data: <TMP=C:\ProgramDa> 54 4D 50 3D 43 3A 5C 50 72 6F 67 72 61 6D 44 61 
{1781} normal block at 0x0000021808D005D0, 48 bytes long.
 Data: <TEMP=C:\ProgramD> 54 45 4D 50 3D 43 3A 5C 50 72 6F 67 72 61 6D 44 
{1770} normal block at 0x0000021808D002C0, 48 bytes long.
 Data: <TMPDIR=C:\Progra> 54 4D 50 44 49 52 3D 43 3A 5C 50 72 6F 67 72 61 
{1739} normal block at 0x0000021808D00A10, 64 bytes long.
 Data: <PATH=C:\ProgramD> 50 41 54 48 3D 43 3A 5C 50 72 6F 67 72 61 6D 44 
{1728} normal block at 0x0000021808CEB5C0, 180 bytes long.
 Data: <<project_prefere> 3C 70 72 6F 6A 65 63 74 5F 70 72 65 66 65 72 65 
..\api\boinc_api.cpp(309) : {1725} normal block at 0x0000021808D05FC0, 8 bytes long.
 Data: <  !     > 00 00 21 09 18 02 00 00 
{1007} normal block at 0x0000021808CF0400, 180 bytes long.
 Data: <<project_prefere> 3C 70 72 6F 6A 65 63 74 5F 70 72 65 66 65 72 65 
{305} normal block at 0x0000021808D059D0, 8 bytes long.
 Data: < h      > 10 68 D0 08 18 02 00 00 
{296} normal block at 0x0000021808CF2380, 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 0x0000021808D05C50, 16 bytes long.
 Data: < g              > 18 67 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{294} normal block at 0x0000021808D05480, 16 bytes long.
 Data: < f              > F0 66 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{293} normal block at 0x0000021808D01500, 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 0x0000021808D05A20, 16 bytes long.
 Data: < f              > C8 66 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{291} normal block at 0x0000021808D05F70, 16 bytes long.
 Data: < f              > A0 66 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{290} normal block at 0x0000021808D05430, 16 bytes long.
 Data: <xf              > 78 66 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{289} normal block at 0x0000021808D05840, 16 bytes long.
 Data: <Pf              > 50 66 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{288} normal block at 0x0000021808D00870, 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 0x0000021808D05700, 16 bytes long.
 Data: <8*              > 38 2A CF 08 18 02 00 00 00 00 00 00 00 00 00 00 
{286} normal block at 0x0000021808D00CC0, 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 0x0000021808D05D40, 16 bytes long.
 Data: < *              > 10 2A CF 08 18 02 00 00 00 00 00 00 00 00 00 00 
{283} normal block at 0x0000021808D05610, 16 bytes long.
 Data: < )              > E8 29 CF 08 18 02 00 00 00 00 00 00 00 00 00 00 
{282} normal block at 0x0000021808D054D0, 16 bytes long.
 Data: < )              > C0 29 CF 08 18 02 00 00 00 00 00 00 00 00 00 00 
{281} normal block at 0x0000021808D06240, 16 bytes long.
 Data: < )              > 98 29 CF 08 18 02 00 00 00 00 00 00 00 00 00 00 
{280} normal block at 0x0000021808D05C00, 16 bytes long.
 Data: <p)              > 70 29 CF 08 18 02 00 00 00 00 00 00 00 00 00 00 
{279} normal block at 0x0000021808D05DE0, 16 bytes long.
 Data: <H)              > 48 29 CF 08 18 02 00 00 00 00 00 00 00 00 00 00 
{278} normal block at 0x0000021808D00C00, 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 0x0000021808D06290, 16 bytes long.
 Data: < )              > 20 29 CF 08 18 02 00 00 00 00 00 00 00 00 00 00 
{276} normal block at 0x0000021808CF2920, 320 bytes long.
 Data: < b              > 90 62 D0 08 18 02 00 00 00 0C D0 08 18 02 00 00 
{275} normal block at 0x0000021808D06060, 16 bytes long.
 Data: <0f              > 30 66 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{274} normal block at 0x0000021808D05ED0, 16 bytes long.
 Data: < f              > 08 66 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{273} normal block at 0x0000021808D01920, 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 0x0000021808D05B10, 16 bytes long.
 Data: < e              > E0 65 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{271} normal block at 0x0000021808D00D20, 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 0x0000021808D06330, 16 bytes long.
 Data: <(e              > 28 65 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{269} normal block at 0x0000021808D061A0, 16 bytes long.
 Data: < e              > 00 65 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{268} normal block at 0x0000021808D05CF0, 16 bytes long.
 Data: < d              > D8 64 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{267} normal block at 0x0000021808D05B60, 16 bytes long.
 Data: < d              > B0 64 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{266} normal block at 0x0000021808D05F20, 16 bytes long.
 Data: < d              > 88 64 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{265} normal block at 0x0000021808D05CA0, 16 bytes long.
 Data: <`d              > 60 64 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{263} normal block at 0x0000021808D05AC0, 16 bytes long.
 Data: <P               > 50 09 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{262} normal block at 0x0000021808D00950, 40 bytes long.
 Data: < Z              > C0 5A D0 08 18 02 00 00 10 0A D0 08 18 02 00 00 
{261} normal block at 0x0000021808D06380, 16 bytes long.
 Data: <@d              > 40 64 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{260} normal block at 0x0000021808D061F0, 16 bytes long.
 Data: < d              > 18 64 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{259} normal block at 0x0000021808D00EA0, 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 0x0000021808D05BB0, 16 bytes long.
 Data: < c              > F0 63 D0 08 18 02 00 00 00 00 00 00 00 00 00 00 
{257} normal block at 0x0000021808D063F0, 992 bytes long.
 Data: < [              > B0 5B D0 08 18 02 00 00 A0 0E D0 08 18 02 00 00 
{93} normal block at 0x0000021808D013E0, 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 0x0000021808CFDBC0, 16 bytes long.
 Data: <@               > 40 D3 CE 08 18 02 00 00 00 00 00 00 00 00 00 00 
{91} normal block at 0x0000021808CED340, 40 bytes long.
 Data: <                > C0 DB CF 08 18 02 00 00 E0 13 D0 08 18 02 00 00 
{70} normal block at 0x0000021808CFD5D0, 16 bytes long.
 Data: <                > 80 EA AF AC F7 7F 00 00 00 00 00 00 00 00 00 00 
{69} normal block at 0x0000021808CFD6C0, 16 bytes long.
 Data: <@               > 40 E9 AF AC F7 7F 00 00 00 00 00 00 00 00 00 00 
{68} normal block at 0x0000021808CFD3F0, 16 bytes long.
 Data: < W              > F8 57 AC AC F7 7F 00 00 00 00 00 00 00 00 00 00 
{67} normal block at 0x0000021808CFDAD0, 16 bytes long.
 Data: < W              > D8 57 AC AC F7 7F 00 00 00 00 00 00 00 00 00 00 
{66} normal block at 0x0000021808CFDA30, 16 bytes long.
 Data: <P               > 50 04 AC AC F7 7F 00 00 00 00 00 00 00 00 00 00 
{65} normal block at 0x0000021808CFDD50, 16 bytes long.
 Data: <0               > 30 04 AC AC F7 7F 00 00 00 00 00 00 00 00 00 00 
{64} normal block at 0x0000021808CFD3A0, 16 bytes long.
 Data: <                > E0 02 AC AC F7 7F 00 00 00 00 00 00 00 00 00 00 
{63} normal block at 0x0000021808CFDF30, 16 bytes long.
 Data: <                > 10 04 AC AC F7 7F 00 00 00 00 00 00 00 00 00 00 
{62} normal block at 0x0000021808CFDC10, 16 bytes long.
 Data: <p               > 70 04 AC AC F7 7F 00 00 00 00 00 00 00 00 00 00 
{61} normal block at 0x0000021808CFD670, 16 bytes long.
 Data: <                > 18 C0 AA AC F7 7F 00 00 00 00 00 00 00 00 00 00 
Object dump complete.

</stderr_txt>
]]>

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