Hi julian
I would suggest changing to Tk graphics rather than open gl as detailed by wayne in this post (assuming you are using version 2)
https://www.jiscmail.ac.uk/cgi-bin/wa.exe?A2=CCPNMR;e411a42b.0902
regards
gary
> On 8 Aug 2019, at 00:00, CCPNMR automatic digest system <[log in to unmask]> wrote:
>
> There are 2 messages totaling 981 lines in this issue.
>
> Topics of the day:
>
> 1. problem opening project
> 2. NSException
>
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> ----------------------------------------------------------------------
>
> Date: Wed, 7 Aug 2019 15:01:34 +0800
> From: Xuehui Liu <[log in to unmask]>
> Subject: problem opening project
>
> Hello,
>
> There is a problem when I try to open a saved project.
>
> The project was called "defaultProject", but I renamed it an other name
> and continued to work on it without any problem. When I am done with the
> assignment and tried to run aria??? I got the following error:
>
>
> /Error during Exo link dereferencing. Object was:
> <ccp.molecule.MolSystem.Chain ['MS1', 'A']>//
> //values were: ['defaultProject_xhliu_2019-08-05-15-44-28-216_00001']//
> //tag name was: molecule//
> ///home/xhliu/programs/ccpnmr/ccpnmr2.4/python/memops/xml/Implementation.py:5356:
> FutureWarning: The behavior of this method will change in future
> versions. Use specific 'len(elem)' or 'elem is not None' test instead.//
> // if elem://
> //Error loading file for: <ccp.molecule.MolSystem.MolSystem ['MS1']>//
> //Reading: <open file
> '/home/xhliu/Data/Projects/maming_C24_V3A/ccp/molecule/MolSystem/MS1+defaultProject_xhliu_2019-08-05-15-44-28-869_00001.xml',
> mode 'r' at 0x4a88660>//
> //Last xml tag read: _StorageUnit//
> //Parser state was: postprocessing data//
> //Object stack was empty//
> //Traceback (most recent call last)://
> // File "/home/xhliu/programs/aria2.3/aria2.py", line 903, in <module>//
> // verbose_level, use_condor=condor)//
> // File "/home/xhliu/programs/aria2.3/aria2.py", line 811, in run_aria//
> // project.load_and_preprocess_data()//
> // File "/home/xhliu/programs/aria2.3/src/py/aria/Project.py", line
> 1468, in load_and_preprocess_data//
> // self.read_data()//
> // File "/home/xhliu/programs/aria2.3/src/py/aria/Project.py", line
> 1198, in read_data//
> // self.read_ccpn_data()//
> // File "/home/xhliu/programs/aria2.3/src/py/aria/Project.py", line
> 704, in read_ccpn_data//
> // ccpChains = ccpnImport.getCcpnChains(ccpn_project,
> molsystem_id)#[0]//
> // File "/home/xhliu/programs/aria2.3/src/py/aria/importFromCcpn.py",
> line 310, in getCcpnChains//
> // chain = molSystem.findFirstChain(code=chainCode)//
> // File
> "/home/xhliu/programs/ccpnmr/ccpnmr2.4/python/ccp/api/molecule/MolSystem.py",
> line 13418, in findFirstChain//
> // self.load()//
> // File
> "/home/xhliu/programs/ccpnmr/ccpnmr2.4/python/memops/api/Implementation.py",
> line 5027, in load//
> // self.loadFrom(repositories[0])//
> // File
> "/home/xhliu/programs/ccpnmr/ccpnmr2.4/python/memops/api/Implementation.py",
> line 5061, in loadFrom//
> // XmlIO.loadTopObject(repository.url.getDataLocation(), self)//
> // File
> "/home/xhliu/programs/ccpnmr/ccpnmr2.4/python/memops/format/xml/XmlIO.py",
> line 236, in loadTopObject//
> // return loadFromStream(open(filePath), topObjId=topObjId,
> topObject=topObject)//
> // File
> "/home/xhliu/programs/ccpnmr/ccpnmr2.4/python/memops/format/xml/XmlIO.py",
> line 267, in loadFromStream//
> // partialLoad=partialLoad)//
> // File
> "/home/xhliu/programs/ccpnmr/ccpnmr2.4/python/memops/xml/Implementation.py",
> line 5324, in loadFromStream//
> // delayedLoadLinksExo(topObjByGuid, exoTopLinkData)//
> // File
> "/home/xhliu/programs/ccpnmr/ccpnmr2.4/python/memops/xml/Implementation.py",
> line 5641, in delayedLoadLinksExo//
> // + ": %s:%s:%s" % (obj, name, vv)//
> //memops.general.Implementation.ApiError: Linked-to object with ID not
> found: <ccp.molecule.MolSystem.Chain ['MS1',
> 'A']>:molecule:defaultProject_xhliu_2019-08-05-15-44-28-216_00001//
> //
> /
>
> Then I tried to reopen the project with analysis, I got the above dialog
> window. Could someone give me some hints on what should I do with this?
>
> Thank you very much!
>
>
> Best Regards,
>
>
> Xuehui
>
>
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> ------------------------------
>
> Date: Wed, 7 Aug 2019 14:32:39 +0000
> From: Orts Julien <[log in to unmask]>
> Subject: NSException
>
> Dear All,
>
> I unfortunately cannot open spectra ‘windows' anymore in my project.
> I can load the project but if I open a spectrum, the program analysis will immediately crash.
> This is happening independently of the project.
> This is also happening if I want to load one spectrum in a new project.
>
> The machine I use is a MacBook pro with Mojave 10.14.5.
>
> The terminal log output is below:
>
> Any idea how to solve that problem? Please let me know.
>
> Kind regards
>
> Julien
>
>
>
>>>> GL_VENDOR = Intel Inc.
> GL_RENDERER = Intel(R) Iris(TM) Plus Graphics 655
> GL_VERSION = 2.1 INTEL-12.9.22
> 2019-08-07 15:22:37.027 python2.7[3690:514822] *** Assertion failure in BOOL NSScreenConfigurationInvalidateIfNeededForReason(_NSScreenConfigurationUpdateReason)(), /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671.50.111/AppKit.subproj/NSScreenConfiguration.m:481
> 2019-08-07 15:22:37.028 python2.7[3690:514822] *** Terminating app due to uncaught exception 'NSInternalInconsistencyException', reason: 'NSScreen reconfig must only happen on the main thread.'
> *** First throw call stack:
> (
> 0 CoreFoundation 0x00007fff53e0bcfd __exceptionPreprocess + 256
> 1 libobjc.A.dylib 0x00007fff7e4b1a17 objc_exception_throw + 48
> 2 CoreFoundation 0x00007fff53e26a1a +[NSException raise:format:arguments:] + 98
> 3 Foundation 0x00007fff561141e5 -[NSAssertionHandler handleFailureInFunction:file:lineNumber:description:] + 166
> 4 AppKit 0x00007fff513e2cb3 +[_NSScreenConfiguration invalidateConfigurationIfNeededForReason:] + 386
> 5 AppKit 0x00007fff514190dc -[NSApplication(ScreenHandling) _reactToDockChanged] + 51
> 6 AppKit 0x00007fff5141895a _NSCGSDockMessageReceive + 265
> 7 HIToolbox 0x00007fff5305b8b8 _ZL12DockCallbackjjPvS_ + 2006
> 8 HIServices 0x00007fff525bc614 dockClientNotificationProc + 208
> 9 SkyLight 0x00007fff78e9a57c _ZN12_GLOBAL__N_123notify_datagram_handlerEj15CGSDatagramTypePvmS1_ + 629
> 10 SkyLight 0x00007fff78e9961a CGSSnarfAndDispatchDatagrams + 1586
> 11 SkyLight 0x00007fff790ed03a SLSGetNextEventRecordInternal + 81
> 12 SkyLight 0x00007fff78fa2f9e SLEventCreateNextEvent + 136
> 13 libXplugin.1.dylib 0x0000000106b9beca ___xp_init_service_cg_event_port_block_invoke + 106
> 14 libdispatch.dylib 0x00007fff7fc3263d _dispatch_client_callout + 8
> 15 libdispatch.dylib 0x00007fff7fc34de6 _dispatch_continuation_pop + 414
> 16 libdispatch.dylib 0x00007fff7fc43f42 _dispatch_source_invoke + 2056
> 17 libdispatch.dylib 0x00007fff7fc38792 _dispatch_lane_serial_drain + 268
> 18 libdispatch.dylib 0x00007fff7fc39396 _dispatch_lane_invoke + 385
> 19 libdispatch.dylib 0x00007fff7fc416ed _dispatch_workloop_worker_thread + 598
> 20 libsystem_pthread.dylib 0x00007fff7fe72611 _pthread_wqthread + 421
> 21 libsystem_pthread.dylib 0x00007fff7fe723fd start_wqthread + 13
> )
> libc++abi.dylib: terminating with uncaught exception of type NSException
> /Applications/ccpnmr/bin/analysis: line 9: 3690 Abort trap: 6 ${CCPNMR_TOP_DIR}/python2.7/bin/python2.7 -i -O ${CCPNMR_TOP_DIR}/ccpnmr2.4/python/ccpnmr/analysis/AnalysisGui.py $*
>
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> ------------------------------
>
> End of CCPNMR Digest - 5 Aug 2019 to 7 Aug 2019 (#2019-88)
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