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Runs into error with genomic region size in megabases
Is there a limit on the size of genomic region that can be plotted using bamsnap? My attempts to plot 1.5MB region failed with this error:
Process proc 1:
Traceback (most recent call last):
File ".conda/envs/bamsnap/lib/python3.9/multiprocessing/process.py", line 315, in _bootstrap
self.run()
File ".conda/envs/bamsnap/lib/python3.9/multiprocessing/process.py", line 108, in run
self._target(*self._args, **self._kwargs)
File ".conda/envs/bamsnap/lib/python3.9/site-packages/bamsnap/bamsnap.py", line 235, in run_process_drawplot_bamlist
imagefname = bsplot.drawplot_bamlist(pos1, image_w, bamlist, xscale, refseq)
File ".conda/envs/bamsnap/lib/python3.9/site-packages/bamsnap/bamsnap.py", line 467, in drawplot_bamlist
ia = self.append_coordinates_image(ia, pos1, image_w, xscale)
File ".conda/envs/bamsnap/lib/python3.9/site-packages/bamsnap/bamsnap.py", line 430, in append_coordinates_image
ia_sub = coord.get_image()
File ".conda/envs/bamsnap/lib/python3.9/site-packages/bamsnap/coordinates.py", line 106, in get_image
self.draw(dr)
File ".conda/envs/bamsnap/lib/python3.9/site-packages/bamsnap/coordinates.py", line 62, in draw
self.cal_axis()
File ".conda/envs/bamsnap/lib/python3.9/site-packages/bamsnap/coordinates.py", line 52, in cal_axis
unitlen = 10 ** (len(str(axis_base_unit)) - 1)
UnboundLocalError: local variable 'axis_base_unit' referenced before assignment
Error is occuring due to conditional used with hardcoded list here:
https://github.com/parklab/bamsnap/blob/a9c219dfe92b08d8419c0610c102ae07430c4d7e/src/bamsnap/coordinates.py#L47-L51
Hello - I am experiencing a similar error with large genomic regions. Is there a workaround?