Repository: biolab/orange3

Issue:
exception with Load Model widget
1) double-click the Load Model widget to select a pkcls file to load, sometimes (not always), an exception is raised immediately

2) if it isn't and you get to select the pkcls file, the attached model (saved from a previous neural network training session, see the DB link) consistently raises an exception and fails to load. Also, this model fails to load directly from python, so maybe there are 2 problems, with the Save Model and Load Model?

Orange v3.33
macOS 10.14.6 (happens on different Macs, all running Mojave)
How you installed Orange: from your dmg (but also happens when I installed via Anaconda)

The models are too large to upload to github so you can find them and the ows file here:

https://www.dropbox.com/s/2cwcthf7uuqs3ui/orangeBug.zip?dl=0

The smaller model loads OK, the larger one generated by a more complex NN fails every time.


Discussion:
I can confirm the issue also on Linux.

Did you process your files differently? The working model seems to be build on the raw data, while for the non-working one it seems that you used PCA somewhere. Can you confirm? Thanks!
I get: 
```
Traceback (most recent call last):
  File "/home/marko/dev/orange3/Orange/widgets/model/owloadmodel.py", line 71, in browse_file
    self.open_file()
  File "/home/marko/dev/orange3/Orange/widgets/model/owloadmodel.py", line 87, in open_file
    model = pickle.load(f)
  File "/home/marko/dev/orange3/Orange/data/variable.py", line 417, in __hash__
    return hash((self.name, var.name, type(self), var._compute_value))
  File "/home/marko/dev/orange3/Orange/data/util.py", line 102, in __hash__
    return hash((type(self), self.compute_shared, self.variable))
AttributeError: 'ComputeValueProjector' object has no attribute 'compute_shared'
```

which to me points to PCA or manifold learning.
I don't recall but it is possible. I will re-run with vs w/o PCA pre-processing on exactly the same dataset and let you know.

I should mention that i occasionally see this error (or at least AN exception not sure if it's the same) with a blank project containing only a Load Model widget that i dbl-click, even before selecting a pickle file.

> On Nov 17, 2022, at 4:41 AM, Marko Toplak ***@***.***> wrote:
> 
> 
> I can confirm the issue also on Linux.
> 
> Did you process your files differently? The working model seems to be build on the raw data, while for the non-working one it seems that you used PCA somewhere. Can you confirm? Thanks!
> 
> —
> Reply to this email directly, view it on GitHub <https://github.com/biolab/orange3/issues/6206#issuecomment-1318511363>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/A4HJKKZN7WFCXYSM2FS6RRTWIYKXPANCNFSM6AAAAAASCVCPYM>.
> You are receiving this because you authored the thread.
> 


Hi Marko:

I ran the exact same training on a dataset, one with PCA pre-processing, one without. Both raised exceptions on model reload in a new project with only a Model Load widget:

https://www.dropbox.com/s/8upbeuqw7w6xdbp/orangebug2.zip?dl=0 <https://www.dropbox.com/s/8upbeuqw7w6xdbp/orangebug2.zip?dl=0>

so it does not seem to be a PCA issue. Hope this helps. Let me know if you want me to try out anything else.

Best
Peter


> On Nov 17, 2022, at 4:42 AM, Marko Toplak ***@***.***> wrote:
> 
> 
> I get:
> 
> Traceback (most recent call last):
>   File "/home/marko/dev/orange3/Orange/widgets/model/owloadmodel.py", line 71, in browse_file
>     self.open_file()
>   File "/home/marko/dev/orange3/Orange/widgets/model/owloadmodel.py", line 87, in open_file
>     model = pickle.load(f)
>   File "/home/marko/dev/orange3/Orange/data/variable.py", line 417, in __hash__
>     return hash((self.name, var.name, type(self), var._compute_value))
>   File "/home/marko/dev/orange3/Orange/data/util.py", line 102, in __hash__
>     return hash((type(self), self.compute_shared, self.variable))
> AttributeError: 'ComputeValueProjector' object has no attribute 'compute_shared'```
> 
> which to me points to PCA or manifold learning.
> —
> Reply to this email directly, view it on GitHub <https://github.com/biolab/orange3/issues/6206#issuecomment-1318512270>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/A4HJKKY27GV2DCX5LXDUUGDWIYK2PANCNFSM6AAAAAASCVCPYM>.
> You are receiving this because you authored the thread.
> 



---------------------------------------------------------
Peter K. Stys, MD
Professor, Dept. of Clinical Neurosciences
Cumming School of Medicine
University of Calgary
tel (403) 210-8646
fax (403) 210-7446
---------------------------------------------------------


Hi Marko,

thanks very much for fixing this in 3.34, greatly appreciated.

Here is a crash I experienced doing Louvain clustering. Looking at the crash log I suspect the problem is deep inside python and not something you can fix, but i thought i’d pass it on anyway.

All the best
Peter.




> On Nov 17, 2022, at 4:41 AM, Marko Toplak ***@***.***> wrote:
> 
> 
> I can confirm the issue also on Linux.
> 
> Did you process your files differently? The working model seems to be build on the raw data, while for the non-working one it seems that you used PCA somewhere. Can you confirm? Thanks!
> 
> —
> Reply to this email directly, view it on GitHub <https://github.com/biolab/orange3/issues/6206#issuecomment-1318511363>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/A4HJKKZN7WFCXYSM2FS6RRTWIYKXPANCNFSM6AAAAAASCVCPYM>.
> You are receiving this because you authored the thread.
> 


Process:               Python [69228]
Path:                  /Applications/Orange3.app/Contents/MacOS/PythonApp
Identifier:            si.biolab.orange
Version:               3.34.0 (3.34.0)
Code Type:             X86-64 (Native)
Parent Process:        ??? [1]
Responsible:           Python [69228]
User ID:               501

Date/Time:             2022-12-16 11:10:14.762 -0700
OS Version:            Mac OS X 10.14.6 (18G103)
Report Version:        12
Anonymous UUID:        F1EE18DB-1661-98B8-E3A6-D93C0B42532A


Time Awake Since Boot: 1500000 seconds

System Integrity Protection: enabled

Crashed Thread:        3

Exception Type:        EXC_BAD_ACCESS (SIGBUS)
Exception Codes:       KERN_PROTECTION_FAILURE at 0x000000010d1e7000
Exception Note:        EXC_CORPSE_NOTIFY

Termination Signal:    Bus error: 10
Termination Reason:    Namespace SIGNAL, Code 0xa
Terminating Process:   exc handler [69228]

VM Regions Near 0x10d1e7000:
    VM_ALLOCATE            00000001071e7000-000000010d1e7000 [ 96.0M] rw-/rwx SM=PRV  
--> __TEXT                 000000010d1e7000-000000010d1fb000 [   80K] r-x/rwx SM=COW  /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/core/_multiarray_tests.cpython-39-darwin.so
    __DATA                 000000010d1fb000-000000010d1ff000 [   16K] rw-/rwx SM=COW  /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/core/_multiarray_tests.cpython-39-darwin.so

Thread 0:: Dispatch queue: com.apple.main-thread
0   libopenblas64_.0.dylib        	0x0000000105d6e68d .L13_19 + 365
1   ???                           	0x0000000000000003 0 + 3

Thread 1:
0   libopenblas64_.0.dylib        	0x0000000105d6e5b2 .L13_19 + 146

Thread 2:
0   libopenblas64_.0.dylib        	0x0000000105d6c70d .L12_19 + 365

Thread 3 Crashed:
0   libopenblas64_.0.dylib        	0x0000000105d72a0b dgemm_oncopy_HASWELL + 267
1   libopenblas64_.0.dylib        	0x0000000103182f42 inner_thread + 1474
2   libopenblas64_.0.dylib        	0x000000010336d41c blas_thread_server + 684
3   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
4   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
5   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 4:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libopenblas.0.dylib           	0x00000001103d070f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
4   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
5   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 5:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libopenblas.0.dylib           	0x00000001103d070f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
4   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
5   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 6:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libopenblas.0.dylib           	0x00000001103d070f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
4   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
5   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 7:: com.apple.CFSocket.private
0   libsystem_kernel.dylib        	0x00007fff7101461a __select + 10
1   com.apple.CoreFoundation      	0x00007fff44fb12d2 __CFSocketManager + 635
2   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
3   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
4   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 8:: com.apple.NSEventThread
0   libsystem_kernel.dylib        	0x00007fff7100d22a mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff7100d76c mach_msg + 60
2   com.apple.CoreFoundation      	0x00007fff44f8394e __CFRunLoopServiceMachPort + 328
3   com.apple.CoreFoundation      	0x00007fff44f82ebc __CFRunLoopRun + 1612
4   com.apple.CoreFoundation      	0x00007fff44f8261e CFRunLoopRunSpecific + 455
5   com.apple.AppKit              	0x00007fff425814a2 _NSEventThread + 175
6   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
7   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
8   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 9:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   org.python.python             	0x00000001027915d6 PyThread_acquire_lock_timed + 454
3   _queue.cpython-39-darwin.so   	0x000000011dbfb57e _queue_SimpleQueue_get_impl + 526
4   _queue.cpython-39-darwin.so   	0x000000011dbfb126 _queue_SimpleQueue_get + 198
5   org.python.python             	0x00000001026a0fed cfunction_vectorcall_FASTCALL_KEYWORDS + 125
6   org.python.python             	0x000000010273ad3c call_function + 732
7   org.python.python             	0x0000000102738318 _PyEval_EvalFrameDefault + 25880
8   org.python.python             	0x0000000102662c58 function_code_fastcall + 104
9   org.python.python             	0x00000001027388b9 _PyEval_EvalFrameDefault + 27321
10  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
11  org.python.python             	0x000000010273ad3c call_function + 732
12  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
13  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
14  org.python.python             	0x000000010273ad3c call_function + 732
15  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
16  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
17  org.python.python             	0x0000000102664ce2 method_vectorcall + 274
18  org.python.python             	0x00000001027e0016 t_bootstrap + 70
19  org.python.python             	0x0000000102791229 pythread_wrapper + 25
20  libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
21  libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
22  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 10:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   org.python.python             	0x00000001027915d6 PyThread_acquire_lock_timed + 454
3   _queue.cpython-39-darwin.so   	0x000000011dbfb57e _queue_SimpleQueue_get_impl + 526
4   _queue.cpython-39-darwin.so   	0x000000011dbfb126 _queue_SimpleQueue_get + 198
5   org.python.python             	0x00000001026a0fed cfunction_vectorcall_FASTCALL_KEYWORDS + 125
6   org.python.python             	0x000000010273ad3c call_function + 732
7   org.python.python             	0x0000000102738318 _PyEval_EvalFrameDefault + 25880
8   org.python.python             	0x0000000102662c58 function_code_fastcall + 104
9   org.python.python             	0x00000001027388b9 _PyEval_EvalFrameDefault + 27321
10  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
11  org.python.python             	0x000000010273ad3c call_function + 732
12  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
13  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
14  org.python.python             	0x000000010273ad3c call_function + 732
15  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
16  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
17  org.python.python             	0x0000000102664ce2 method_vectorcall + 274
18  org.python.python             	0x00000001027e0016 t_bootstrap + 70
19  org.python.python             	0x0000000102791229 pythread_wrapper + 25
20  libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
21  libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
22  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 11:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   org.python.python             	0x00000001027915d6 PyThread_acquire_lock_timed + 454
3   _queue.cpython-39-darwin.so   	0x000000011dbfb57e _queue_SimpleQueue_get_impl + 526
4   _queue.cpython-39-darwin.so   	0x000000011dbfb126 _queue_SimpleQueue_get + 198
5   org.python.python             	0x00000001026a0fed cfunction_vectorcall_FASTCALL_KEYWORDS + 125
6   org.python.python             	0x000000010273ad3c call_function + 732
7   org.python.python             	0x0000000102738318 _PyEval_EvalFrameDefault + 25880
8   org.python.python             	0x0000000102662c58 function_code_fastcall + 104
9   org.python.python             	0x00000001027388b9 _PyEval_EvalFrameDefault + 27321
10  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
11  org.python.python             	0x000000010273ad3c call_function + 732
12  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
13  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
14  org.python.python             	0x000000010273ad3c call_function + 732
15  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
16  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
17  org.python.python             	0x0000000102664ce2 method_vectorcall + 274
18  org.python.python             	0x00000001027e0016 t_bootstrap + 70
19  org.python.python             	0x0000000102791229 pythread_wrapper + 25
20  libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
21  libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
22  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 12:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   org.python.python             	0x00000001027915d6 PyThread_acquire_lock_timed + 454
3   _queue.cpython-39-darwin.so   	0x000000011dbfb57e _queue_SimpleQueue_get_impl + 526
4   _queue.cpython-39-darwin.so   	0x000000011dbfb126 _queue_SimpleQueue_get + 198
5   org.python.python             	0x00000001026a0fed cfunction_vectorcall_FASTCALL_KEYWORDS + 125
6   org.python.python             	0x000000010273ad3c call_function + 732
7   org.python.python             	0x0000000102738318 _PyEval_EvalFrameDefault + 25880
8   org.python.python             	0x0000000102662c58 function_code_fastcall + 104
9   org.python.python             	0x00000001027388b9 _PyEval_EvalFrameDefault + 27321
10  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
11  org.python.python             	0x000000010273ad3c call_function + 732
12  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
13  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
14  org.python.python             	0x000000010273ad3c call_function + 732
15  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
16  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
17  org.python.python             	0x0000000102664ce2 method_vectorcall + 274
18  org.python.python             	0x00000001027e0016 t_bootstrap + 70
19  org.python.python             	0x0000000102791229 pythread_wrapper + 25
20  libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
21  libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
22  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 13:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   org.python.python             	0x00000001027915d6 PyThread_acquire_lock_timed + 454
3   _queue.cpython-39-darwin.so   	0x000000011dbfb57e _queue_SimpleQueue_get_impl + 526
4   _queue.cpython-39-darwin.so   	0x000000011dbfb126 _queue_SimpleQueue_get + 198
5   org.python.python             	0x00000001026a0fed cfunction_vectorcall_FASTCALL_KEYWORDS + 125
6   org.python.python             	0x000000010273ad3c call_function + 732
7   org.python.python             	0x0000000102738318 _PyEval_EvalFrameDefault + 25880
8   org.python.python             	0x0000000102662c58 function_code_fastcall + 104
9   org.python.python             	0x00000001027388b9 _PyEval_EvalFrameDefault + 27321
10  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
11  org.python.python             	0x000000010273ad3c call_function + 732
12  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
13  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
14  org.python.python             	0x000000010273ad3c call_function + 732
15  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
16  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
17  org.python.python             	0x0000000102664ce2 method_vectorcall + 274
18  org.python.python             	0x00000001027e0016 t_bootstrap + 70
19  org.python.python             	0x0000000102791229 pythread_wrapper + 25
20  libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
21  libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
22  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 14:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 15:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 16:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 17:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 18:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 19:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 20:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 21:
0   libsystem_pthread.dylib       	0x00007fff710cb3f0 start_wqthread + 0

Thread 22:
0   libsystem_pthread.dylib       	0x00007fff710cb3f0 start_wqthread + 0

Thread 3 crashed with X86 Thread State (64-bit):
  rax: 0x000000030704f400  rbx: 0x0000000000000005  rcx: 0x000000030704f200  rdx: 0x0000000000000000
  rdi: 0x0000000000000000  rsi: 0x000000030704f100  rbp: 0x0000700008783d90  rsp: 0x0000700008783d68
   r8: 0x000000010d1e7000   r9: 0x000000650e632440  r10: 0x000000030704f000  r11: 0x000000030704f500
  r12: 0x000000030704f600  r13: 0x000000030704f300  r14: 0x0000000000000000  r15: 0x000000030704f700
  rip: 0x0000000105d72a0b  rfl: 0x0000000000010246  cr2: 0x000000010d1e7000
  
Logical CPU:     3
Error Code:      0x00000007
Trap Number:     14


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       0x11c218000 -        0x11c227ff3 +testing.cpython-39-darwin.so (0) <29D972C4-720D-34A8-B9FF-FA3ECB2B47B9> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/pandas/_libs/testing.cpython-39-darwin.so
       0x11c238000 -        0x11c23efff +cmath.cpython-39-darwin.so (0) <63663638-EDE1-34DF-89A3-4021D7308394> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/cmath.cpython-39-darwin.so
       0x11c24a000 -        0x11c2a9ff7 +parsers.cpython-39-darwin.so (0) <29404B08-CEC9-32C3-8B1F-B992B8AFDDD7> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/pandas/_libs/parsers.cpython-39-darwin.so
       0x11c2e4000 -        0x11c2f3ff7 +json.cpython-39-darwin.so (0) <F00ACCAA-9396-3A17-AFD1-9136AE15FA99> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/pandas/_libs/json.cpython-39-darwin.so
       0x11c305000 -        0x11c308ff3 +lapack_lite.cpython-39-darwin.so (0) <3B220334-2123-365C-BABE-BEB387DAB5CA> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/linalg/lapack_lite.cpython-39-darwin.so
       0x11c315000 -        0x11c39cffb +_ckdtree.cpython-39-darwin.so (0) <139DC8C5-569A-3858-A283-F3643D69286B> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/spatial/_ckdtree.cpython-39-darwin.so
       0x11c3d4000 -        0x11c4afff3 +_qhull.cpython-39-darwin.so (0) <B7B3B552-3566-3BCA-AB90-8EB1A7C4D53C> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/spatial/_qhull.cpython-39-darwin.so
       0x11c4e8000 -        0x11c4efffb +messagestream.cpython-39-darwin.so (0) <C93A8D1C-B07B-33A4-9F07-A9528E1CB90D> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/_lib/messagestream.cpython-39-darwin.so
       0x11c4fd000 -        0x11c518ff7 +_voronoi.cpython-39-darwin.so (0) <0D158422-487B-3231-AA1F-B73FF43D1D4C> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/spatial/_voronoi.cpython-39-darwin.so
       0x11c52c000 -        0x11c537ff7 +_distance_wrap.cpython-39-darwin.so (0) <BF378D30-0201-383A-8B3E-99685F1C7A16> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/spatial/_distance_wrap.cpython-39-darwin.so
       0x11c543000 -        0x11c562ff7 +_hausdorff.cpython-39-darwin.so (0) <232E4B3C-00FA-3023-BA29-47C25843D647> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/spatial/_hausdorff.cpython-39-darwin.so
       0x11c576000 -        0x11c6a5fcf +_ufuncs.cpython-39-darwin.so (0) <EDAFB410-B9B3-3C9B-B89D-EB54895919F9> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/special/_ufuncs.cpython-39-darwin.so
       0x11c6f6000 -        0x11c71dfff +_ufuncs_cxx.cpython-39-darwin.so (0) <8FFF2876-14A2-3D69-A1E2-4B1D7969E12F> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/special/_ufuncs_cxx.cpython-39-darwin.so
       0x11c733000 -        0x11c792fcf +_specfun.cpython-39-darwin.so (0) <2B495B30-8DD8-345E-9649-07B35DAAB52B> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/special/_specfun.cpython-39-darwin.so
       0x11c7ab000 -        0x11c7b2fff +_comb.cpython-39-darwin.so (0) <3CF2F3B2-244C-3549-B2A4-7C2BC145A5E0> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/special/_comb.cpython-39-darwin.so
       0x11c7bf000 -        0x11c7ceff3 +_ellip_harm_2.cpython-39-darwin.so (0) <0D87CAAC-C158-35CD-8716-14C74D347B55> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/special/_ellip_harm_2.cpython-39-darwin.so
       0x11c7df000 -        0x11c81afff +_distance_pybind.cpython-39-darwin.so (0) <D0868BE7-2E6F-3E6F-A517-1ABCDFE176A4> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/spatial/_distance_pybind.cpython-39-darwin.so
       0x11c837000 -        0x11c8a6fff +_rotation.cpython-39-darwin.so (0) <5FE32E9A-2297-3069-B7F5-D094CE6D2CAB> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/spatial/transform/_rotation.cpython-39-darwin.so
       0x11c8de000 -        0x11c8fdff3 +_nd_image.cpython-39-darwin.so (0) <9E2C422E-A413-3AAA-A80F-4BFB51013812> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/ndimage/_nd_image.cpython-39-darwin.so
       0x11c909000 -        0x11c944fff +_ni_label.cpython-39-darwin.so (0) <23DA6092-EA38-33AF-B0CE-CB79DF28B20C> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/ndimage/_ni_label.cpython-39-darwin.so
       0x11c962000 -        0x11c969fff +_minpack2.cpython-39-darwin.so (0) <567F50E6-48B6-32B6-A43B-54FEC1B41AA6> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_minpack2.cpython-39-darwin.so
       0x11c975000 -        0x11c980ffb +_group_columns.cpython-39-darwin.so (0) <AF37A703-7BF7-38F5-BEE6-3E3FD013444E> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_group_columns.cpython-39-darwin.so
       0x11c98e000 -        0x11c9c5ff7 +_trlib.cpython-39-darwin.so (0) <250D7525-2BEE-387E-8EEC-C3B15C43D0D4> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_trlib/_trlib.cpython-39-darwin.so
       0x11c9e6000 -        0x11c9f9fff +_lbfgsb.cpython-39-darwin.so (0) <E1570A56-3840-3E0A-92A0-BD890338BE26> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_lbfgsb.cpython-39-darwin.so
       0x11ca06000 -        0x11ca1dffb +_moduleTNC.cpython-39-darwin.so (0) <6C6ABD29-03EE-3127-BF6D-C03A66BED030> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_moduleTNC.cpython-39-darwin.so
       0x11ca2d000 -        0x11ca3cfff +_cobyla.cpython-39-darwin.so (0) <691F1E99-F139-334C-8828-887B513D319C> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_cobyla.cpython-39-darwin.so
       0x11ca49000 -        0x11ca58ff7 +_slsqp.cpython-39-darwin.so (0) <12B91716-1335-32F8-87E3-1D2E2CB45EDB> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_slsqp.cpython-39-darwin.so
       0x11ca64000 -        0x11ca73fef +_minpack.cpython-39-darwin.so (0) <E6A651A8-C655-3FDE-AB82-021D6BCE07E0> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_minpack.cpython-39-darwin.so
       0x11ca7f000 -        0x11ca9affb +givens_elimination.cpython-39-darwin.so (0) <34C2B372-0EFA-3662-9AE5-352098CFAD64> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_lsq/givens_elimination.cpython-39-darwin.so
       0x11caad000 -        0x11cab0ffb +_zeros.cpython-39-darwin.so (0) <5FEB982E-E6B3-33E8-B3F9-C4A4C4B68C14> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_zeros.cpython-39-darwin.so
       0x11cabb000 -        0x11cac2fff +__nnls.cpython-39-darwin.so (0) <D027A004-20EA-371F-89A7-E982C3E68550> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/__nnls.cpython-39-darwin.so
       0x11cacf000 -        0x11cddaffb +_highs_wrapper.cpython-39-darwin.so (0) <BCB7DB21-7633-3746-8556-87B36269BC7E> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_highs/_highs_wrapper.cpython-39-darwin.so
       0x11cea6000 -        0x11cea9ffb +_highs_constants.cpython-39-darwin.so (0) <A1F42D45-00DD-37A1-835D-5461D4FD4B10> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_highs/_highs_constants.cpython-39-darwin.so
       0x11ceb6000 -        0x11cefdfe7 +_interpolative.cpython-39-darwin.so (0) <CDF00B2B-ACD9-398B-AEAE-E0D705E70234> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/linalg/_interpolative.cpython-39-darwin.so
       0x11cf1e000 -        0x11cf4dff3 +_bglu_dense.cpython-39-darwin.so (0) <F69B7B3A-5909-3247-AA92-D8BEEE878496> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_bglu_dense.cpython-39-darwin.so
       0x11cf6c000 -        0x11cf73ff7 +_lsap.cpython-39-darwin.so (0) <D9AFA4C0-E06B-3B55-86FC-3536410F4808> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_lsap.cpython-39-darwin.so
       0x11cf7e000 -        0x11cf85fff +_direct.cpython-39-darwin.so (0) <4E0436B2-ADE8-3B01-B140-0561E6297C88> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_direct.cpython-39-darwin.so
       0x11cf90000 -        0x11cf9ffc7 +_odepack.cpython-39-darwin.so (0) <39640300-7684-37E5-9FEA-8CD60E2E8840> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/integrate/_odepack.cpython-39-darwin.so
       0x11cfac000 -        0x11cfbffd7 +_quadpack.cpython-39-darwin.so (0) <7BB47C88-10C9-393E-A8FE-2FBB9C8F960A> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/integrate/_quadpack.cpython-39-darwin.so
       0x11cfcc000 -        0x11cfebfff +_vode.cpython-39-darwin.so (0) <67779FF5-69FB-351F-887F-E9FDF3FE3EC3> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/integrate/_vode.cpython-39-darwin.so
       0x11cff8000 -        0x11d007fff +_dop.cpython-39-darwin.so (0) <7EF7AE80-DE80-3A9D-B7B9-6E0056053CA0> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/integrate/_dop.cpython-39-darwin.so
       0x11d014000 -        0x11d027fd7 +_lsoda.cpython-39-darwin.so (0) <C612FF37-92E5-39C6-9E2E-DA1108D64A90> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/integrate/_lsoda.cpython-39-darwin.so
       0x11d034000 -        0x11d09fff3 +_stats.cpython-39-darwin.so (0) <4E71BD27-76D2-3711-BEF1-F31DCAB25A68> /
as a followup to the below, the same happened with manifold learning: I suspect python is running out of memory.

> Hi Marko,
> 
> thanks very much for fixing this in 3.34, greatly appreciated.
> 
> Here is a crash I experienced doing Louvain clustering. Looking at the crash log I suspect the problem is deep inside python and not something you can fix, but i thought i’d pass it on anyway.
> 
> All the best
> Peter.





> On Nov 17, 2022, at 4:41 AM, Marko Toplak ***@***.*** ***@***.***>> wrote:
> 
> 
> I can confirm the issue also on Linux.
> 
> Did you process your files differently? The working model seems to be build on the raw data, while for the non-working one it seems that you used PCA somewhere. Can you confirm? Thanks!
> 
> —
> Reply to this email directly, view it on GitHub <https://github.com/biolab/orange3/issues/6206#issuecomment-1318511363>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/A4HJKKZN7WFCXYSM2FS6RRTWIYKXPANCNFSM6AAAAAASCVCPYM>.
> You are receiving this because you authored the thread.
> 


Process:               Python [69228]
Path:                  /Applications/Orange3.app/Contents/MacOS/PythonApp
Identifier:            si.biolab.orange
Version:               3.34.0 (3.34.0)
Code Type:             X86-64 (Native)
Parent Process:        ??? [1]
Responsible:           Python [69228]
User ID:               501

Date/Time:             2022-12-16 11:10:14.762 -0700
OS Version:            Mac OS X 10.14.6 (18G103)
Report Version:        12
Anonymous UUID:        F1EE18DB-1661-98B8-E3A6-D93C0B42532A


Time Awake Since Boot: 1500000 seconds

System Integrity Protection: enabled

Crashed Thread:        3

Exception Type:        EXC_BAD_ACCESS (SIGBUS)
Exception Codes:       KERN_PROTECTION_FAILURE at 0x000000010d1e7000
Exception Note:        EXC_CORPSE_NOTIFY

Termination Signal:    Bus error: 10
Termination Reason:    Namespace SIGNAL, Code 0xa
Terminating Process:   exc handler [69228]

VM Regions Near 0x10d1e7000:
    VM_ALLOCATE            00000001071e7000-000000010d1e7000 [ 96.0M] rw-/rwx SM=PRV  
--> __TEXT                 000000010d1e7000-000000010d1fb000 [   80K] r-x/rwx SM=COW  /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/core/_multiarray_tests.cpython-39-darwin.so
    __DATA                 000000010d1fb000-000000010d1ff000 [   16K] rw-/rwx SM=COW  /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/core/_multiarray_tests.cpython-39-darwin.so

Thread 0:: Dispatch queue: com.apple.main-thread
0   libopenblas64_.0.dylib        	0x0000000105d6e68d .L13_19 + 365
1   ???                           	0x0000000000000003 0 + 3

Thread 1:
0   libopenblas64_.0.dylib        	0x0000000105d6e5b2 .L13_19 + 146

Thread 2:
0   libopenblas64_.0.dylib        	0x0000000105d6c70d .L12_19 + 365

Thread 3 Crashed:
0   libopenblas64_.0.dylib        	0x0000000105d72a0b dgemm_oncopy_HASWELL + 267
1   libopenblas64_.0.dylib        	0x0000000103182f42 inner_thread + 1474
2   libopenblas64_.0.dylib        	0x000000010336d41c blas_thread_server + 684
3   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
4   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
5   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 4:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libopenblas.0.dylib           	0x00000001103d070f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
4   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
5   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 5:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libopenblas.0.dylib           	0x00000001103d070f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
4   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
5   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 6:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libopenblas.0.dylib           	0x00000001103d070f blas_thread_server + 207
3   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
4   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
5   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 7:: com.apple.CFSocket.private
0   libsystem_kernel.dylib        	0x00007fff7101461a __select + 10
1   com.apple.CoreFoundation      	0x00007fff44fb12d2 __CFSocketManager + 635
2   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
3   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
4   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 8:: com.apple.NSEventThread
0   libsystem_kernel.dylib        	0x00007fff7100d22a mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fff7100d76c mach_msg + 60
2   com.apple.CoreFoundation      	0x00007fff44f8394e __CFRunLoopServiceMachPort + 328
3   com.apple.CoreFoundation      	0x00007fff44f82ebc __CFRunLoopRun + 1612
4   com.apple.CoreFoundation      	0x00007fff44f8261e CFRunLoopRunSpecific + 455
5   com.apple.AppKit              	0x00007fff425814a2 _NSEventThread + 175
6   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
7   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
8   libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 9:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   org.python.python             	0x00000001027915d6 PyThread_acquire_lock_timed + 454
3   _queue.cpython-39-darwin.so   	0x000000011dbfb57e _queue_SimpleQueue_get_impl + 526
4   _queue.cpython-39-darwin.so   	0x000000011dbfb126 _queue_SimpleQueue_get + 198
5   org.python.python             	0x00000001026a0fed cfunction_vectorcall_FASTCALL_KEYWORDS + 125
6   org.python.python             	0x000000010273ad3c call_function + 732
7   org.python.python             	0x0000000102738318 _PyEval_EvalFrameDefault + 25880
8   org.python.python             	0x0000000102662c58 function_code_fastcall + 104
9   org.python.python             	0x00000001027388b9 _PyEval_EvalFrameDefault + 27321
10  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
11  org.python.python             	0x000000010273ad3c call_function + 732
12  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
13  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
14  org.python.python             	0x000000010273ad3c call_function + 732
15  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
16  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
17  org.python.python             	0x0000000102664ce2 method_vectorcall + 274
18  org.python.python             	0x00000001027e0016 t_bootstrap + 70
19  org.python.python             	0x0000000102791229 pythread_wrapper + 25
20  libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
21  libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
22  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 10:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   org.python.python             	0x00000001027915d6 PyThread_acquire_lock_timed + 454
3   _queue.cpython-39-darwin.so   	0x000000011dbfb57e _queue_SimpleQueue_get_impl + 526
4   _queue.cpython-39-darwin.so   	0x000000011dbfb126 _queue_SimpleQueue_get + 198
5   org.python.python             	0x00000001026a0fed cfunction_vectorcall_FASTCALL_KEYWORDS + 125
6   org.python.python             	0x000000010273ad3c call_function + 732
7   org.python.python             	0x0000000102738318 _PyEval_EvalFrameDefault + 25880
8   org.python.python             	0x0000000102662c58 function_code_fastcall + 104
9   org.python.python             	0x00000001027388b9 _PyEval_EvalFrameDefault + 27321
10  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
11  org.python.python             	0x000000010273ad3c call_function + 732
12  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
13  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
14  org.python.python             	0x000000010273ad3c call_function + 732
15  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
16  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
17  org.python.python             	0x0000000102664ce2 method_vectorcall + 274
18  org.python.python             	0x00000001027e0016 t_bootstrap + 70
19  org.python.python             	0x0000000102791229 pythread_wrapper + 25
20  libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
21  libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
22  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 11:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   org.python.python             	0x00000001027915d6 PyThread_acquire_lock_timed + 454
3   _queue.cpython-39-darwin.so   	0x000000011dbfb57e _queue_SimpleQueue_get_impl + 526
4   _queue.cpython-39-darwin.so   	0x000000011dbfb126 _queue_SimpleQueue_get + 198
5   org.python.python             	0x00000001026a0fed cfunction_vectorcall_FASTCALL_KEYWORDS + 125
6   org.python.python             	0x000000010273ad3c call_function + 732
7   org.python.python             	0x0000000102738318 _PyEval_EvalFrameDefault + 25880
8   org.python.python             	0x0000000102662c58 function_code_fastcall + 104
9   org.python.python             	0x00000001027388b9 _PyEval_EvalFrameDefault + 27321
10  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
11  org.python.python             	0x000000010273ad3c call_function + 732
12  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
13  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
14  org.python.python             	0x000000010273ad3c call_function + 732
15  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
16  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
17  org.python.python             	0x0000000102664ce2 method_vectorcall + 274
18  org.python.python             	0x00000001027e0016 t_bootstrap + 70
19  org.python.python             	0x0000000102791229 pythread_wrapper + 25
20  libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
21  libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
22  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 12:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   org.python.python             	0x00000001027915d6 PyThread_acquire_lock_timed + 454
3   _queue.cpython-39-darwin.so   	0x000000011dbfb57e _queue_SimpleQueue_get_impl + 526
4   _queue.cpython-39-darwin.so   	0x000000011dbfb126 _queue_SimpleQueue_get + 198
5   org.python.python             	0x00000001026a0fed cfunction_vectorcall_FASTCALL_KEYWORDS + 125
6   org.python.python             	0x000000010273ad3c call_function + 732
7   org.python.python             	0x0000000102738318 _PyEval_EvalFrameDefault + 25880
8   org.python.python             	0x0000000102662c58 function_code_fastcall + 104
9   org.python.python             	0x00000001027388b9 _PyEval_EvalFrameDefault + 27321
10  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
11  org.python.python             	0x000000010273ad3c call_function + 732
12  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
13  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
14  org.python.python             	0x000000010273ad3c call_function + 732
15  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
16  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
17  org.python.python             	0x0000000102664ce2 method_vectorcall + 274
18  org.python.python             	0x00000001027e0016 t_bootstrap + 70
19  org.python.python             	0x0000000102791229 pythread_wrapper + 25
20  libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
21  libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
22  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 13:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   org.python.python             	0x00000001027915d6 PyThread_acquire_lock_timed + 454
3   _queue.cpython-39-darwin.so   	0x000000011dbfb57e _queue_SimpleQueue_get_impl + 526
4   _queue.cpython-39-darwin.so   	0x000000011dbfb126 _queue_SimpleQueue_get + 198
5   org.python.python             	0x00000001026a0fed cfunction_vectorcall_FASTCALL_KEYWORDS + 125
6   org.python.python             	0x000000010273ad3c call_function + 732
7   org.python.python             	0x0000000102738318 _PyEval_EvalFrameDefault + 25880
8   org.python.python             	0x0000000102662c58 function_code_fastcall + 104
9   org.python.python             	0x00000001027388b9 _PyEval_EvalFrameDefault + 27321
10  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
11  org.python.python             	0x000000010273ad3c call_function + 732
12  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
13  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
14  org.python.python             	0x000000010273ad3c call_function + 732
15  org.python.python             	0x00000001027381ae _PyEval_EvalFrameDefault + 25518
16  org.python.python             	0x0000000102662c58 function_code_fastcall + 104
17  org.python.python             	0x0000000102664ce2 method_vectorcall + 274
18  org.python.python             	0x00000001027e0016 t_bootstrap + 70
19  org.python.python             	0x0000000102791229 pythread_wrapper + 25
20  libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
21  libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
22  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 14:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 15:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 16:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 17:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 18:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 19:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 20:
0   libsystem_kernel.dylib        	0x00007fff7101086a __psynch_cvwait + 10
1   libsystem_pthread.dylib       	0x00007fff710cf56e _pthread_cond_wait + 722
2   libomp.dylib                  	0x000000011db7e16b __kmp_suspend_64 + 299
3   libomp.dylib                  	0x000000011db66930 kmp_flag_64::wait(kmp_info*, int, void*) + 1552
4   libomp.dylib                  	0x000000011db627d6 __kmp_hyper_barrier_release(barrier_type, kmp_info*, int, int, int, void*) + 166
5   libomp.dylib                  	0x000000011db65f5d __kmp_fork_barrier(int, int) + 445
6   libomp.dylib                  	0x000000011db4575a __kmp_launch_thread + 314
7   libomp.dylib                  	0x000000011db7cc1a __kmp_launch_worker(void*) + 330
8   libsystem_pthread.dylib       	0x00007fff710cc2eb _pthread_body + 126
9   libsystem_pthread.dylib       	0x00007fff710cf249 _pthread_start + 66
10  libsystem_pthread.dylib       	0x00007fff710cb40d thread_start + 13

Thread 21:
0   libsystem_pthread.dylib       	0x00007fff710cb3f0 start_wqthread + 0

Thread 22:
0   libsystem_pthread.dylib       	0x00007fff710cb3f0 start_wqthread + 0

Thread 3 crashed with X86 Thread State (64-bit):
  rax: 0x000000030704f400  rbx: 0x0000000000000005  rcx: 0x000000030704f200  rdx: 0x0000000000000000
  rdi: 0x0000000000000000  rsi: 0x000000030704f100  rbp: 0x0000700008783d90  rsp: 0x0000700008783d68
   r8: 0x000000010d1e7000   r9: 0x000000650e632440  r10: 0x000000030704f000  r11: 0x000000030704f500
  r12: 0x000000030704f600  r13: 0x000000030704f300  r14: 0x0000000000000000  r15: 0x000000030704f700
  rip: 0x0000000105d72a0b  rfl: 0x0000000000010246  cr2: 0x000000010d1e7000
  
Logical CPU:     3
Error Code:      0x00000007
Trap Number:     14


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       0x11ceb6000 -        0x11cefdfe7 +_interpolative.cpython-39-darwin.so (0) <CDF00B2B-ACD9-398B-AEAE-E0D705E70234> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/linalg/_interpolative.cpython-39-darwin.so
       0x11cf1e000 -        0x11cf4dff3 +_bglu_dense.cpython-39-darwin.so (0) <F69B7B3A-5909-3247-AA92-D8BEEE878496> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_bglu_dense.cpython-39-darwin.so
       0x11cf6c000 -        0x11cf73ff7 +_lsap.cpython-39-darwin.so (0) <D9AFA4C0-E06B-3B55-86FC-3536410F4808> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_lsap.cpython-39-darwin.so
       0x11cf7e000 -        0x11cf85fff +_direct.cpython-39-darwin.so (0) <4E0436B2-ADE8-3B01-B140-0561E6297C88> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/optimize/_direct.cpython-39-darwin.so
       0x11cf90000 -        0x11cf9ffc7 +_odepack.cpython-39-darwin.so (0) <39640300-7684-37E5-9FEA-8CD60E2E8840> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/integrate/_odepack.cpython-39-darwin.so
       0x11cfac000 -        0x11cfbffd7 +_quadpack.cpython-39-darwin.so (0) <7BB47C88-10C9-393E-A8FE-2FBB9C8F960A> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/integrate/_quadpack.cpython-39-darwin.so
       0x11cfcc000 -        0x11cfebfff +_vode.cpython-39-darwin.so (0) <67779FF5-69FB-351F-887F-E9FDF3FE3EC3> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/integrate/_vode.cpython-39-darwin.so
       0x11cff8000 -        0x11d007fff +_dop.cpython-39-darwin.so (0) <7EF7AE80-DE80-3A9D-B7B9-6E0056053CA0> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/integrate/_dop.cpython-39-darwin.so
       0x11d014000 -        0x11d027fd7 +_lsoda.cpython-39-darwin.so (0) <C612FF37-92E5-39C6-9E2E-DA1108D64A90> /Applications/Orange3.app/Contents/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/scipy/integra
The original issue is still a problem in master. 

I can reproduce the error easily with the following script but haven't figured out yet what is happening:

```
import Orange
import pickle

data = Orange.data.Table("iris")
pca = Orange.projection.PCA()(data)(data)

s = pickle.dumps(pca)
pickle.loads(s)  # OK

model = Orange.modelling.NNLearner()(pca)
print(model)

s = pickle.dumps(model)
model_unpicked = pickle.loads(s)  # crashes
print(model_unpicked(data))
```

About Louvain and Manifold learning issue posted later: please open a separate issue, where you include workflows and your data set.

At first I see that in the first `loads` `ComputeValueProjector` is loaded with the following `__dict__`: 

```
{'compute_shared': <Orange.projection.base.TransformDomain object at 0x7fce5e316ad0>, 'variable': None, 'projection': PCA, 'feature': 3, 'transformed': None}
```

But in the second case it is empty, thus we get: 
```Traceback (most recent call last):
  File "/home/marko/dev/orange3/test.py", line 19, in <module>
    model_unpicked = pickle.loads(s)
  File "/home/marko/dev/orange3/Orange/data/variable.py", line 425, in __hash__
    return hash((self.name, var.name, type(self), var._compute_value))
  File "/home/marko/dev/orange3/Orange/data/util.py", line 102, in __hash__
    return hash((type(self), self.compute_shared, self.variable))
AttributeError: 'ComputeValueProjector' object has no attribute 'compute_shared'
```

The same happens with RandomForestLearner, but NOT with TreeLearner.
Thanks for the update Marko,

Best
Peter.


> On Jan 20, 2023, at 7:00 AM, Marko Toplak ***@***.***> wrote:
> 
> 
> The original issue is still a problem in master.
> 
> I can reproduce the error easily with the following script but haven't figured out yet what is happening:
> 
> import Orange
> import pickle
> 
> data = Orange.data.Table("iris")
> pca = Orange.projection.PCA()(data)(data)
> 
> s = pickle.dumps(pca)
> pickle.loads(s)  # OK
> 
> model = Orange.modelling.NNLearner()(pca)
> print(model)
> 
> s = pickle.dumps(model)
> model_unpicked = pickle.loads(s)  # crashes
> print(model_unpicked(data))
> About Louvain and Manifold learning issue posted later: please open a separate issue, where you include workflows and your data set.
> 
> —
> Reply to this email directly, view it on GitHub <https://github.com/biolab/orange3/issues/6206#issuecomment-1398435083>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/A4HJKK7THFEPZRMRQXFSQHLWTKLAZANCNFSM6AAAAAASCVCPYM>.
> You are receiving this because you authored the thread.
> 



---------------------------------------------------------
Peter K. Stys, MD
Professor, Dept. of Clinical Neurosciences
Cumming School of Medicine
University of Calgary
tel (403) 210-8646
fax (403) 210-7446
---------------------------------------------------------



Resolving patch:
diff --git a/Orange/data/domain.py b/Orange/data/domain.py
--- a/Orange/data/domain.py
+++ b/Orange/data/domain.py
@@ -164,17 +164,39 @@ def __init__(self, attributes, class_vars=None, metas=None, source=None):
         if not all(var.is_primitive() for var in self._variables):
             raise TypeError("variables must be primitive")
 
-        self._indices = dict(chain.from_iterable(
-            ((var, idx), (var.name, idx), (idx, idx))
-            for idx, var in enumerate(self._variables)))
-        self._indices.update(chain.from_iterable(
-            ((var, -1-idx), (var.name, -1-idx), (-1-idx, -1-idx))
-            for idx, var in enumerate(self.metas)))
+        self._indices = None
 
         self.anonymous = False
 
         self._hash = None  # cache for __hash__()
 
+    def _ensure_indices(self):
+        if self._indices is None:
+            indices = dict(chain.from_iterable(
+                ((var, idx), (var.name, idx), (idx, idx))
+                for idx, var in enumerate(self._variables)))
+            indices.update(chain.from_iterable(
+                ((var, -1-idx), (var.name, -1-idx), (-1-idx, -1-idx))
+                for idx, var in enumerate(self.metas)))
+            self._indices = indices
+
+    def __setstate__(self, state):
+        self.__dict__.update(state)
+        self._variables = self.attributes + self.class_vars
+        self._indices = None
+        self._hash = None
+
+    def __getstate__(self):
+        # Do not pickle dictionaries because unpickling dictionaries that
+        # include objects that redefine __hash__ as keys is sometimes problematic
+        # (when said objects do not have __dict__ filled yet in but are used as
+        # keys in a restored dictionary).
+        state = self.__dict__.copy()
+        del state["_variables"]
+        del state["_indices"]
+        del state["_hash"]
+        return state
+
     # noinspection PyPep8Naming
     @classmethod
     def from_numpy(cls, X, Y=None, metas=None):
@@ -289,7 +311,7 @@ def __getitem__(self, idx):
         """
         if isinstance(idx, slice):
             return self._variables[idx]
-
+        self._ensure_indices()
         index = self._indices.get(idx)
         if index is None:
             var = self._get_equivalent(idx)
@@ -306,6 +328,7 @@ def __contains__(self, item):
         Return `True` if the item (`str`, `int`, :class:`Variable`) is
         in the domain.
         """
+        self._ensure_indices()
         return item in self._indices or self._get_equivalent(item) is not None
 
     def __iter__(self):
@@ -334,7 +357,7 @@ def index(self, var):
         Return the index of the given variable or meta attribute, represented
         with an instance of :class:`Variable`, `int` or `str`.
         """
-
+        self._ensure_indices()
         idx = self._indices.get(var)
         if idx is not None:
             return idx


Test patch:
diff --git a/Orange/tests/test_classification.py b/Orange/tests/test_classification.py
--- a/Orange/tests/test_classification.py
+++ b/Orange/tests/test_classification.py
@@ -5,7 +5,6 @@
 import pkgutil
 import unittest
 
-import traceback
 import warnings
 
 import numpy as np
@@ -273,6 +272,9 @@ def test_predict_proba(self):
         data = Table("heart_disease")
         for learner in all_learners():
             with self.subTest(learner.__name__):
+                # Skip slow tests
+                if issubclass(learner, _RuleLearner):
+                    continue
                 if learner in (ThresholdLearner, CalibratedLearner):
                     model = learner(LogisticRegressionLearner())(data)
                 else:
@@ -416,11 +418,9 @@ def test_all_models_work_after_unpickling(self):
             if learner in (ThresholdLearner, CalibratedLearner):
                 continue
             # Skip slow tests
-            if isinstance(learner, _RuleLearner):
+            if issubclass(learner, _RuleLearner):
                 continue
             with self.subTest(learner.__name__):
-                if "RandomForest" not in learner.__name__:
-                    continue
                 learner = learner()
                 for ds in datasets:
                     model = learner(ds)
@@ -435,6 +435,31 @@ def test_all_models_work_after_unpickling(self):
                         err_msg='%s does not return same values when unpickled %s'
                         % (learner.__class__.__name__, ds.name))
 
+    def test_all_models_work_after_unpickling_pca(self):
+        datasets = [Table('iris'), Table('titanic')]
+        for learner in list(all_learners()):
+            # calibration, threshold learners' __init__ require arguments
+            if learner in (ThresholdLearner, CalibratedLearner):
+                continue
+            # Skip slow tests
+            if issubclass(learner, _RuleLearner):
+                continue
+            with self.subTest(learner.__name__):
+                learner = learner()
+                for ds in datasets:
+                    pca_ds = Orange.projection.PCA()(ds)(ds)
+                    model = learner(pca_ds)
+                    s = pickle.dumps(model, 0)
+                    model2 = pickle.loads(s)
+
+                    np.testing.assert_almost_equal(
+                        Table.from_table(model.domain, ds).X,
+                        Table.from_table(model2.domain, ds).X)
+                    np.testing.assert_almost_equal(
+                        model(ds), model2(ds),
+                        err_msg='%s does not return same values when unpickled %s'
+                                % (learner.__class__.__name__, ds.name))
+
     def test_adequacy_all_learners(self):
         for learner in all_learners():
             # calibration, threshold learners' __init__ requires arguments
diff --git a/Orange/tests/test_domain.py b/Orange/tests/test_domain.py
--- a/Orange/tests/test_domain.py
+++ b/Orange/tests/test_domain.py
@@ -539,6 +539,7 @@ def test_get_item_similar_vars(self):
             metas=[var1, var2]
         )
         # pylint: disable=protected-access
+        domain._ensure_indices()
         self.assertDictEqual(
             {-1: -1, -2: -2, var1: -1, var2: -2, var1.name: -1, var2.name: -2},
             domain._indices