Avogadro 2 don't show chemicals

Questions about Wine on Linux
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theeast
Level 1
Level 1
Posts: 8
Joined: Mon Jan 10, 2022 11:01 am

Avogadro 2 don't show chemicals

Post by theeast »

The Avogadrolibs in the AUR is having issue with VTK and therefore cannot be compiled on my machine. So I tried using the Windows version with Wine and it successfully installed. But when I open the program it won't display chemicals on the blackboard while everything else works fine.
theeast
Level 1
Level 1
Posts: 8
Joined: Mon Jan 10, 2022 11:01 am

Re: Avogadro 2 don't show chemicals

Post by theeast »

Forgot to add, this is where I get the .exe: https://www.openchemistry.org/downloads/
jkfloris
Level 12
Level 12
Posts: 3136
Joined: Thu Aug 14, 2014 10:10 am

Re: Avogadro 2 don't show chemicals

Post by jkfloris »

Does the program work if you use the LIBGL_ALWAYS_SOFTWARE=1 variable?
Version 1 suffers with this problem: viewtopic.php?f=8&t=35585

Code: Select all

LIBGL_ALWAYS_SOFTWARE=1 wine avogadro2.exe
If not, can you post a terminal output?
theeast
Level 1
Level 1
Posts: 8
Joined: Mon Jan 10, 2022 11:01 am

Re: Avogadro 2 don't show chemicals

Post by theeast »

Avogadro2 crashed when I execute

Code: Select all

LIBGL_ALWAYS_SOFTWARE=1 wine ~/path/to/avogadro2.exe
Here is the terminal output

Code: Select all

MESA-INTEL: warning: Ivy Bridge Vulkan support is incomplete
Locale:  "en_US"
0108:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0108:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0108:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0108:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0108:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0108:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0108:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0108:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0108:fixme:d3d:wined3d_guess_card No card selector available for card vendor 0000 (using GL_RENDERER "llvmpipe (LLVM 13.0.0, 256 bits)").
wine: Unhandled page fault on execute access to 0000000000000000 at address 0000000000000000 (thread 0108), starting debugger...
0110:fixme:imm:ImeSetActiveContext (0x2548f0, 1): stub
0110:fixme:imm:ImmReleaseContext (0000000000010084, 00000000002548F0): stub
0098:fixme:imm:ImeSetActiveContext (0x258320, 0): stub
0098:fixme:imm:ImmReleaseContext (0000000000010020, 0000000000258320): stub
Unhandled exception: page fault on execute access to 0x0000000000000000 in 64-bit code (0x0000000000000000).
Register dump:
 rip:0000000000000000 rsp:000000000011e378 rbp:0000000000009598 eflags:00010246 (  R- --  I  Z- -P- )
 rax:000000007fbf6bf0 rbx:000000000011e428 rcx:00007fa25347e7cc rdx:000000000000005c
 rsi:000000000011e430 rdi:000000007f44f5a0  r8:000000007fc05840  r9:0000000000000000 r10:000000000011e430
 r11:000000007fbf3020 r12:00007fa2538f1b00 r13:0000000000000000 r14:000000007fc05840 r15:00007fa253482a7d
Stack dump:
0x000000000011e378:  00007fa25243e4f8 0000000000000000
0x000000000011e388:  000000000011e430 0000000000000000
0x000000000011e398:  0000000000000003 0000000000000004
0x000000000011e3a8:  0000000000000000 0000000200008367
0x000000000011e3b8:  0000000085892d00 000000007fc05840
0x000000000011e3c8:  0000000000000001 000000000011e580
0x000000000011e3d8:  1de17ae085892d00 0000000000000000
0x000000000011e3e8:  0000000000188f20 000000000018f8a0
0x000000000011e3f8:  000000000011e430 0000000000000003
0x000000000011e408:  0000000000188f28 00007fa254334de0
0x000000000011e418:  00007fa25244125d 00007fa254334de0
0x000000000011e428:  0000000000000000 0000000000000000
Backtrace:
=>0 0x0000000000000000 (0x0000000000009598)
0x0000000000000000: -- no code accessible --
Modules:
Module  Address                                 Debug info      Name (121 modules)
PE      0000000000010000-000000000001f000       Deferred        vtkviewscontext2d-8.2
PE      0000000000250000-000000000029d000       Deferred        avogadrorendering
PE      00000000002a0000-0000000000323000       Deferred        glew32
PE      0000000000330000-00000000003c2000       Deferred        avogadroqtgui
PE      00000000003d0000-000000000044f000       Deferred        avogadroio
PE      0000000000450000-00000000005a8000       Deferred        avogadrocore
PE      00000000005b0000-0000000000b05000       Deferred        qt5widgets
PE      0000000000b10000-000000000114b000       Deferred        qt5gui
PE      0000000001150000-000000000170c000       Deferred        qt5core
PE      0000000001710000-0000000001913000       Deferred        avogadroqtplugins
PE      0000000001920000-0000000001977000       Deferred        qt5svg
PE      0000000001980000-0000000001995000       Deferred        avogadrovtk
PE      00000000019a0000-00000000019e6000       Deferred        vtkguisupportqt-8.2
PE      00000000019f0000-0000000001b5f000       Deferred        vtkrenderingopengl2-8.2
PE      0000000001b60000-0000000001cc7000       Deferred        vtkrenderingcore-8.2
PE      0000000001cd0000-0000000001cec000       Deferred        vtkcommoncolor-8.2
PE      0000000001cf0000-0000000001f8d000       Deferred        vtkcommoncore-8.2
PE      0000000001f90000-0000000001fdc000       Deferred        vtksys-8.2
PE      0000000001fe0000-000000000203b000       Deferred        vtkfiltersgeometry-8.2
PE      0000000002040000-000000000230b000       Deferred        vtkfilterscore-8.2
PE      0000000002310000-0000000002398000       Deferred        vtkcommonexecutionmodel-8.2
PE      00000000023a0000-0000000002654000       Deferred        vtkcommondatamodel-8.2
PE      0000000002660000-000000000268d000       Deferred        vtkcommontransforms-8.2
PE      0000000002690000-00000000026b1000       Deferred        vtkcommonmath-8.2
PE      00000000026c0000-00000000026dd000       Deferred        vtkcommonmisc-8.2
PE      00000000026e0000-00000000026fc000       Deferred        vtkcommonsystem-8.2
PE      0000000002700000-0000000002771000       Deferred        vtkfilterssources-8.2
PE      0000000002780000-000000000299d000       Deferred        vtkfiltersgeneral-8.2
PE      00000000029a0000-00000000029c8000       Deferred        vtkcommoncomputationalgeometry-8.2
PE      00000000029d0000-0000000002a4b000       Deferred        vtkglew-8.2
PE      0000000002a50000-0000000002a84000       Deferred        vtkinteractionstyle-8.2
PE      0000000002a90000-0000000002b34000       Deferred        vtkfiltersextraction-8.2
PE      0000000002b40000-0000000002bd2000       Deferred        vtkfiltersstatistics-8.2
PE      0000000002be0000-0000000002bfd000       Deferred        vtkimagingfourier-8.2
PE      0000000002c00000-0000000002d3b000       Deferred        vtkimagingcore-8.2
PE      0000000002d40000-0000000002dbb000       Deferred        vtkrenderingvolumeopengl2-8.2
PE      0000000002dc0000-0000000002df1000       Deferred        vtkimagingmath-8.2
PE      0000000002e00000-00000000031ac000       Deferred        vtkrenderingvolume-8.2
PE      00000000031b0000-0000000003283000       Deferred        vtkchartscore-8.2
PE      0000000003290000-00000000032c4000       Deferred        vtkrenderingcontext2d-8.2
PE      00000000032d0000-0000000003373000       Deferred        vtkrenderingfreetype-8.2
PE      0000000003380000-00000000033f4000       Deferred        vtkfreetype-8.2
PE      0000000003400000-000000000341a000       Deferred        zlib1
PE      0000000003420000-00000000034b7000       Deferred        vtkinfoviscore-8.2
PE      00000000034c0000-00000000034dd000       Deferred        vtkviewscore-8.2
PE      00000000034e0000-000000000350e000       Deferred        vtkrenderingcontextopengl2-8.2
PE      0000000003510000-000000000355e000       Deferred        vtkdomainschemistry-8.2
PE      0000000003560000-000000000357b000       Deferred        vtkioxmlparser-8.2
PE      0000000003580000-00000000035d4000       Deferred        vtkiocore-8.2
PE      00000000035e0000-00000000035f7000       Deferred        vtklz4-8.2
PE      0000000003600000-000000000362a000       Deferred        vtklzma-8.2
PE      0000000003630000-0000000003641000       Deferred        vtkdoubleconversion-8.2
PE      0000000003650000-0000000003677000       Deferred        vtkexpat-8.2
PE      0000000003680000-00000000036cb000       Deferred        avogadromolequeue
PE      00000000036d0000-000000000381a000       Deferred        qt5network
PE      0000000003820000-0000000003863000       Deferred        avogadroquantumio
PE      0000000003870000-0000000003917000       Deferred        archive
PE      0000000003920000-0000000003940000       Deferred        msym
PE      0000000003940000-000000000394b000       Deferred        qt5concurrent
PE      0000000003950000-0000000003968000       Deferred        molequeueservercore
PE      0000000003970000-0000000003985000       Deferred        molequeueclient
PE      0000000004340000-00000000044ae000       Deferred        qwindows
PE      00000000044e0000-0000000004506000       Deferred        qwindowsvistastyle
PE      000000007a850000-000000007a854000       Deferred        opengl32
PE      000000007b000000-000000007b0d5000       Deferred        kernelbase
PE      000000007b600000-000000007b812000       Deferred        kernel32
PE      0000000140000000-00000001400ee000       Deferred        avogadro2
PE      0000000170000000-000000017009a000       Deferred        ntdll
PE      0000000180000000-0000000180012000       Deferred        avogadroqtopengl
PE      00000001c69e0000-00000001c72fc000       Deferred        shell32
PE      00000001c8b40000-00000001c8b60000       Deferred        msacm32
PE      00000001c8db0000-00000001c8e46000       Deferred        msvcrt
PE      00000001cd860000-00000001cd863000       Deferred        api-ms-win-crt-utility-l1-1-0
PE      00000001dd3f0000-00000001dd4bd000       Deferred        crypt32
PE      00000001ec2b0000-00000001ec2d5000       Deferred        ws2_32
PE      000000021a7e0000-000000021a855000       Deferred        setupapi
PE      0000000231ae0000-0000000231b62000       Deferred        rpcrt4
PE      000000023d820000-000000023da6a000       Deferred        user32
PE      0000000240030000-000000024005e000       Deferred        iphlpapi
PE      0000000241850000-0000000241853000       Deferred        api-ms-win-crt-environment-l1-1-0
PE      000000024f470000-000000024f48f000       Deferred        mpr
PE      000000025d740000-000000025d74e000       Deferred        dwmapi
PE      0000000262250000-0000000262254000       Deferred        api-ms-win-crt-runtime-l1-1-0
PE      000000026b4c0000-000000026b53b000       Deferred        gdi32
PE      000000026ed50000-000000026ed6b000       Deferred        vcruntime140
PE      00000002739c0000-0000000273af6000       Deferred        oleaut32
PE      000000028ba60000-000000028ba63000       Deferred        api-ms-win-crt-time-l1-1-0
PE      000000028dfa0000-000000028dfac000       Deferred        nsi
PE      00000002967b0000-00000002967e5000       Deferred        d3d9
PE      000000029cfc0000-000000029cfd6000       Deferred        dnsapi
PE      00000002a4090000-00000002a409e000       Deferred        wtsapi32
PE      00000002b8510000-00000002b8522000       Deferred        wintab32
PE      00000002d4d40000-00000002d4d56000       Deferred        bcrypt
PE      00000002e3540000-00000002e3591000       Deferred        shlwapi
PE      00000002e8f10000-00000002e902b000       Deferred        ole32
PE      00000002f1fa0000-00000002f1fad000       Deferred        version
PE      00000002f7230000-00000002f725e000       Deferred        uxtheme
PE      00000002f7f20000-00000002f7f2c000       Deferred        vcruntime140_1
PE      00000002fe110000-00000002fe115000       Deferred        api-ms-win-crt-multibyte-l1-1-0
PE      000000030a2c0000-000000030a2c4000       Deferred        api-ms-win-crt-stdio-l1-1-0
PE      00000003126f0000-0000000312709000       Deferred        shcore
PE      0000000316370000-000000031637b000       Deferred        psapi
PE      0000000327020000-0000000327072000       Deferred        combase
PE      000000032a700000-000000032a729000       Deferred        sechost
PE      0000000330260000-000000033029f000       Deferred        advapi32
PE      000000033ea00000-000000033ea04000       Deferred        api-ms-win-crt-string-l1-1-0
PE      0000000344840000-0000000344843000       Deferred        api-ms-win-crt-filesystem-l1-1-0
PE      0000000350a30000-0000000350a34000       Deferred        api-ms-win-crt-convert-l1-1-0
PE      0000000355100000-0000000355103000       Deferred        api-ms-win-crt-locale-l1-1-0
PE      0000000360a80000-0000000360a85000       Deferred        api-ms-win-crt-math-l1-1-0
PE      0000000360e10000-0000000360e9d000       Deferred        msvcp140
PE      00000003673d0000-00000003673f8000       Deferred        netapi32
PE      0000000375610000-0000000375648000       Deferred        win32u
PE      00000003871c0000-000000038720e000       Deferred        concrt140
PE      0000000388e20000-0000000388e2e000       Deferred        userenv
PE      000000039b510000-000000039b513000       Deferred        api-ms-win-crt-heap-l1-1-0
PE      00000003af670000-00000003af76c000       Deferred        ucrtbase
PE      00000003afd00000-00000003afd1a000       Deferred        imm32
PE      00000003b8f00000-00000003b8fc1000       Deferred        winmm
PE      00007fa254190000-00007fa254194000       Deferred        wined3d
PE      00007fa2547a0000-00007fa2547a4000       Deferred        winex11
Threads:
process  tid      prio (all id:s are in hex)
00000020 start.exe
        00000024    0
00000038 services.exe
        0000003c    0
        00000040    0
        0000004c    0
        00000064    0
        00000080    0
        0000008c    0
        000000b0    0
        000000c4    0
        000000dc    0
        000000e0    0
00000044 svchost.exe
        00000048    0
        00000054    0
        00000058    0
0000005c winedevice.exe
        00000060    0
        00000068    0
        0000006c    0
        00000070    0
        00000074    0
        000000c0    0
00000078 winedevice.exe
        0000007c    0
        00000084    0
        00000088    0
        00000090    0
        0000009c    0
        000000a0    0
        000000a4    0
00000094 explorer.exe
        00000098    0
        000000c8    0
        000000cc    0
000000a8 plugplay.exe
        000000ac    0
        000000b4    0
        000000b8    0
        000000bc    0
000000d4 rpcss.exe
        000000d8    0
        000000e4    0
        000000e8    0
        000000ec    0
        000000f0    0
        000000f4    0
000000fc conhost.exe
        00000100    0
00000104 (D) Z:\home\theeast\.wine\drive_c\Program Files\Avogadro2\bin\avogadro2.exe
        00000108    0 <==
        00000114    0
System information:
    Wine build: wine-7.0-rc5
    Platform: x86_64
    Version: Windows 7
    Host system: Linux
    Host version: 5.15.12-artix1-1
theeast
Level 1
Level 1
Posts: 8
Joined: Mon Jan 10, 2022 11:01 am

Re: Avogadro 2 don't show chemicals

Post by theeast »

I looked into

Code: Select all

0108:fixme:d3d:wined3d_guess_card No card selector available for card vendor 0000 (using GL_RENDERER "llvmpipe (LLVM 13.0.0, 256 bits)").
Seems to be a driver problem. glxgears works fine, glxinfo | grep 'OpenGL renderer' returned OpenGL renderer string: Mesa DRI Intel(R) HD Graphics 4000 (IVB GT2) and I tried winetricks d3dx9_24 wmp11 but it still show the same error.
I'm quite busy so I won't be able to do much research so I really appreciate the help.
jkfloris
Level 12
Level 12
Posts: 3136
Joined: Thu Aug 14, 2014 10:10 am

Re: Avogadro 2 don't show chemicals

Post by jkfloris »

The LIBGL_ALWAYS_SOFTWARE=1 triggers the use of the software renderer (llvm).
Could you also post the terminal output without LIBGL_ALWAYS_SOFTWARE=1?
theeast
Level 1
Level 1
Posts: 8
Joined: Mon Jan 10, 2022 11:01 am

Re: Avogadro 2 don't show chemicals

Post by theeast »

This is without LIBGL_ALWAYS_SOFTWARE=1

Code: Select all

MESA-INTEL: warning: Ivy Bridge Vulkan support is incomplete
Locale:  "en_US"
0104:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0104:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0104:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0104:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0104:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0104:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0104:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0104:fixme:nls:get_dummy_preferred_ui_language (0x8 000000000011F580 000000000011F4D0 000000000011F588) returning a dummy value (current locale)
0104:fixme:ntdll:NtQuerySystemInformation info_class SYSTEM_PERFORMANCE_INFORMATION
qt.qpa.gl: Unable to disable rotation.
0104:fixme:wgl:X11DRV_wglGetPixelFormatAttribivARB unsupported 2008 WGL Attribute
Extension plugins dynamically found
 41
Checking for  "commands"  scripts in "C:/users/theeast/AppData/Local/OpenChemistry/Avogadro/commands"
Checking for  "commands"  scripts in "C:/ProgramData/OpenChemistry/Avogadro/commands"
Checking for  "commands"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/commands"
Checking for  "commands"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/data/commands"
Checking for  "commands"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/data/OpenChemistry/Avogadro/commands"
Checking for  "commands"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/../lib/avogadro2/scripts/commands"
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/comman
ds/scale.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/commands/scale.py --displa
y-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
OBProcess::executeObabel: Running "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/obabel.exe" "-L formats read"
OBProcess::executeObabel: Running "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/obabel.exe" "-L formats write"
OBProcess::executeObabel: Running "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/obabel.exe" "-L forcefields"
OBProcess::executeObabel: Running "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/obabel.exe" "-L charges"
OBProcess::executeObabel: Running "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/obabel.exe" "-V"
0138:fixme:msvcp:_Locinfo__Locinfo_ctor_cat_cstr (000000000011F840 1 C) semi-stub
"Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/obabel.exe"  found:  "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/obabel.exe: 
Open Babel 3.1.0 -- Dec 11 2021 -- 20:32:19"
0104:fixme:font:find_matching_face Untranslated charset 255
0104:fixme:font:get_nearest_charset returning DEFAULT_CHARSET face->fs.fsCsb[0] = 00000000 file = L"\\??\\Z:\\usr\\share\\fonts\\noto\\NotoKufiArabic-Regular.ttf"
0104:fixme:font:find_matching_face Untranslated charset 255
0104:fixme:font:get_nearest_charset returning DEFAULT_CHARSET face->fs.fsCsb[0] = 00000000 file = L"\\??\\Z:\\usr\\share\\fonts\\noto\\NotoKufiArabic-Bold.ttf"
0104:fixme:font:find_matching_face Untranslated charset 255
0104:fixme:font:get_nearest_charset returning DEFAULT_CHARSET face->fs.fsCsb[0] = 00000000 file = L"\\??\\Z:\\usr\\share\\fonts\\noto\\NotoKufiArabic-Black.ttf"
0104:fixme:font:find_matching_face Untranslated charset 255
0104:fixme:font:get_nearest_charset returning DEFAULT_CHARSET face->fs.fsCsb[0] = 00000000 file = L"\\??\\Z:\\usr\\share\\fonts\\noto\\NotoKufiArabic-Light.ttf"
0104:fixme:font:find_matching_face Untranslated charset 255
0104:fixme:font:get_nearest_charset returning DEFAULT_CHARSET face->fs.fsCsb[0] = 00000000 file = L"\\??\\Z:\\usr\\share\\fonts\\noto\\NotoKufiArabic-Medium.ttf"
0104:fixme:font:find_matching_face Untranslated charset 255
0104:fixme:font:get_nearest_charset returning DEFAULT_CHARSET face->fs.fsCsb[0] = 00000000 file = L"\\??\\Z:\\usr\\share\\fonts\\noto\\NotoKufiArabic-Thin.ttf"
0130:fixme:msvcp:_Locinfo__Locinfo_ctor_cat_cstr (000000000011F510 1 C) semi-stub
0110:fixme:msvcp:_Locinfo__Locinfo_ctor_cat_cstr (000000000011F510 1 C) semi-stub
0120:fixme:msvcp:_Locinfo__Locinfo_ctor_cat_cstr (000000000011F510 1 C) semi-stub
0128:fixme:msvcp:_Locinfo__Locinfo_ctor_cat_cstr (000000000011F510 1 C) semi-stub
0120:fixme:msvcp:_Locinfo__Locinfo_ctor_cat_cstr (000000000011F5B0 1 C) semi-stub
0120:fixme:msvcp:_Locinfo__Locinfo_ctor_cat_cstr (000000000011F2E0 1 C) semi-stub
Checking for  "inputGenerators"  scripts in "C:/users/theeast/AppData/Local/OpenChemistry/Avogadro/inputGenerators"
Checking for  "inputGenerators"  scripts in "C:/ProgramData/OpenChemistry/Avogadro/inputGenerators"
Checking for  "inputGenerators"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/inputGenerators"
Checking for  "inputGenerators"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/data/inputGenerators"
Checking for  "inputGenerators"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/data/OpenChemistry/Avogadro/inputGenerators"
Checking for  "inputGenerators"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/../lib/avogadro2/scripts/inputGenerators"
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/dalton.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/da
lton.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/gamessuk.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/
gamessuk.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/gaussian.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/
gaussian.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/molpro.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/mo
lpro.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/mopac.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/mop
ac.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/nwchem.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/nw
chem.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/orca.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/orca
.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/psi4.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/psi4
.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/pyscf.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/pys
cf.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/qchem.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/qch
em.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputG
enerators/terachem.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/inputGenerators/
terachem.py --display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
Checking for  "formatScripts"  scripts in "C:/users/theeast/AppData/Local/OpenChemistry/Avogadro/formatScripts"
Checking for  "formatScripts"  scripts in "C:/ProgramData/OpenChemistry/Avogadro/formatScripts"
Checking for  "formatScripts"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/formatScripts"
Checking for  "formatScripts"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/data/formatScripts"
Checking for  "formatScripts"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/data/OpenChemistry/Avogadro/formatScripts"
Checking for  "formatScripts"  scripts in "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/bin/../lib/avogadro2/scripts/formatScripts"
Python interpreter "C:/hostedtoolcache/windows/Python/3.10.0/x64/python3.exe" does not exist trying "python" in your path. Please set a path to the pyt
hon interpreter.
Can't find python in your path
ScriptLoader::queryProgramName: Unable to retrieve program name for "Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/format
Scripts/zyx.py" ; "Error running script 'python.exe Z:/home/theeast/.wine/drive_c/Program Files/Avogadro2/lib/avogadro2/scripts/formatScripts/zyx.py --
display-name --lang en_US': Timed out waiting for finish (Script failed to start.)."
0104:fixme:wgl:X11DRV_wglGetPixelFormatAttribivARB unsupported 2008 WGL Attribute
0104:fixme:wgl:X11DRV_wglGetPixelFormatAttribivARB unsupported 2008 WGL Attribute
0104:fixme:dwmapi:DwmEnableBlurBehindWindow 0000000000030074 000000000011E670
0094:fixme:imm:ImeSetActiveContext (0x2583c0, 0): stub
0094:fixme:imm:ImmReleaseContext (0000000000010020, 00000000002583C0): stub
0104:fixme:imm:ImeSetActiveContext (0x193b50, 1): stub
0104:fixme:imm:ImmReleaseContext (000000000002006C, 0000000000193B50): stub
0104:fixme:wgl:X11DRV_wglGetPixelFormatAttribivARB unsupported 2008 WGL Attribute
0104:fixme:dwmapi:DwmEnableBlurBehindWindow 000000000002006C 000000000011AD50
Open Babel formats ready:  142
0104:fixme:dwmapi:DwmEnableBlurBehindWindow 000000000003004E 000000000011F310
theeast
Level 1
Level 1
Posts: 8
Joined: Mon Jan 10, 2022 11:01 am

Re: Avogadro 2 don't show chemicals

Post by theeast »

Alright, I'm back. After messing with some config, I found out that the bug will be fixed if Avogadro2 is installed in a fresh WINEPREFIX although Create Surfaces seems to be missing some functions. obabel.exe will have to be installed separately then symlink to Avogadro2's folder.
theeast
Level 1
Level 1
Posts: 8
Joined: Mon Jan 10, 2022 11:01 am

Re: Avogadro 2 don't show chemicals

Post by theeast »

although Create Surfaces seems to be missing some functions.
Nevermind, that is just an uncompleted feature.
theeast
Level 1
Level 1
Posts: 8
Joined: Mon Jan 10, 2022 11:01 am

Re: Avogadro 2 don't show chemicals

Post by theeast »

The Windows installation file above is of version 1.91.0, which is outdated. If you want to use v1.95.1, I recommend installing nightly version here https://nightly.link/OpenChemistry/avog ... 64.exe.zip as the official one display weird behaviors even on my Windows 7 dual-boot. If you have problem with OpenBable, symlink obable.exe from a separate OpenBable install.
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