I am using Catmaid to do some analysis on existing traced neurons and run into an issue as described below.
I am able to initiate a Catmaid instance, use pymaid.get_neuron(), navis.prune_by_strahler(), navis.prune_twigs(),
and navis.despike_skeleton() without error. However, running navis.cut_skeleton() leads to the error below (path starred for privacy).
"python3(46905,0x1053ba600) malloc: error for object 0x7fb2843e3e10: pointer being freed was not allocated
python3(46905,0x1053ba600) malloc: set a breakpoint in malloc_error_break to debug
Abort trap: 6
/Users/*****/opt/anaconda3/envs/fafb_analysis/lib/python3.9/multiprocessing/resource_tracker.py:216: UserWarning: resource_tracker: There appear to be 1 leaked semaphore objects to clean up at shutdown
warnings.warn('resource_tracker: There appear to be %d "
If anyone has this error and know how to fix it, advice would be much appreicated.
schlegelp
commented
2 years ago
I am using Catmaid to do some analysis on existing traced neurons and run into an issue as described below.
I am able to initiate a Catmaid instance, use pymaid.get_neuron(), navis.prune_by_strahler(), navis.prune_twigs(), and navis.despike_skeleton() without error. However, running navis.cut_skeleton() leads to the error below (path starred for privacy).
"python3(46905,0x1053ba600) malloc: error for object 0x7fb2843e3e10: pointer being freed was not allocated python3(46905,0x1053ba600) malloc: set a breakpoint in malloc_error_break to debug Abort trap: 6 /Users/*****/opt/anaconda3/envs/fafb_analysis/lib/python3.9/multiprocessing/resource_tracker.py:216: UserWarning: resource_tracker: There appear to be 1 leaked semaphore objects to clean up at shutdown warnings.warn('resource_tracker: There appear to be %d "
If anyone has this error and know how to fix it, advice would be much appreicated.