If the code at lines 2028-2035 of the run.py file rises an exception, Segway will execute the finally clause without reporting the exception.
For example, I had to remove the try-finally clause to find out that Genome() raised the following error:
tables.exceptions.HDF5ExtError: HDF5 error back trace
File "H5F.c", line 604, in H5Fopen
unable to open file
File "H5Fint.c", line 992, in H5F_open
unable to open file: time = Tue Jan ...
, name = '...chr2.genomedata', tent_flags = 0
File "H5FD.c", line 993, in H5FD_open
open failed
File "H5FDsec2.c", line 339, in H5FD_sec2_open
unable to open file: name = '...', errno = 24, error message = 'Too many open files', flags = 0, o_flags = 0
End of HDF5 error back trace
Furthermore, if an exception occurs in the list comprehension assigned to genomes variable, genomes will remain unassigned and the finally clause will throw the following exception:
UnboundLocalError: local variable 'genomes' referenced before assignment
EricR86
commented
6 years ago
Original report (BitBucket issue) by Mickaël Mendez (Bitbucket: Mickael Mendez).
If the code at lines 2028-2035 of the run.py file rises an exception, Segway will execute the
finallyclause without reporting the exception.For example, I had to remove the try-finally clause to find out that
Genome()raised the following error:Furthermore, if an exception occurs in the list comprehension assigned to
genomesvariable,genomeswill remain unassigned and thefinallyclause will throw the following exception: