ValueError: Cannot mask with non-boolean array containing NA / NaN values error

[titand98]

Description

outrigger psi command did not execute

"""

The above exception was the direct cause of the following exception:

Traceback (most recent call last):
File "/home/erpl/anaconda2/envs/outrigger-env/bin/outrigger", line 10, in
sys.exit(main())
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/site-packages/outrigger/commandline.py", line 1071, in main
cl = CommandLine(sys.argv[1:])
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/site-packages/outrigger/commandline.py", line 344, in init
self.args.func()
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/site-packages/outrigger/commandline.py", line 356, in psi
psi.execute()
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/site-packages/outrigger/commandline.py", line 1020, in execute
**isoform_junctions)
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/site-packages/outrigger/psi/compute.py", line 661, in calculate_psi
uneven_coverage_multiplier, n_jobs)
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/site-packages/outrigger/psi/compute.py", line 600, in _maybe_parallelize_psi
for event_id, event_df in grouped)
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/site-packages/joblib/parallel.py", line 1054, in call
self.retrieve()
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/site-packages/joblib/parallel.py", line 933, in retrieve
self._output.extend(job.get(timeout=self.timeout))
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/site-packages/joblib/_parallel_backends.py", line 542, in wrap_future_result
return future.result(timeout=timeout)
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/concurrent/futures/_base.py", line 432, in result
return self.__get_result()
File "/home/erpl/anaconda2/envs/outrigger-env/lib/python3.6/concurrent/futures/_base.py", line 384, in __get_result
raise self._exception
ValueError: Cannot mask with non-boolean array containing NA / NaN values

Steps to Reproduce

1. I executed outrigger index which gave me results
2. I tried to do outrigger psi
   Notably I have star output SJ.out.tab for bulk and single cells in same file.

Expected behavior: psi output

Actual behavior: ValueError: Cannot mask with non-boolean array containing NA / NaN values

Versions

command line- outrigger psi -i /home/erpl/sayak/study/STAR_defaultopt_notrimming/SJ.out_folder/outrigger_output/index/ -o /home/erpl/sayak/study/STAR_defaultopt_notrimming/SJ.out_folder/outrigger_output/
os -ubuntu 19.04