TypeError: ppois() got an unexpected keyword argument 'lower_tail'

[ly Andy]

Hi All,

I have an error when I have been running the danpos program. The command:" python3 /home/andy/biosoftware/DANPOS3/danpos.py dpos 29439_Rev2-mono_S18_L999_R_Noalign.sam" 

The error:

Any suggestions are appreciated. 

Best,

Andy

[David Filipovic]

Essentially, it seems that the ppois function signature in functions.py was changed to exclude 'lower_tail' and 'log_bool' arguments, however the function calls relying on it in other modules have not.

All you have to do is delete the part where it says 'lower_tail=False, log_bool = True'). This is the default behavior of the new function anyways.

Best,

   David

[simon holzinger]

Hi Andy, 

its exactly as David said. 

The bug was unfortunately introduced when changing from R implementations to Python implementations of ppois (improving speed and removing dependancies). Thereby I forgot to change a few lines. I already send a pull request fixing the bug but as I am not maintainer of the repo I can't merge. 

The fix is - as David said - to delete the 'lower_tail=False, log_bool = True' from the source code (in reads.py).

best ,

Simon 

[simon holzinger]

The fixed version is available in my current develop branch if you don't want to change the stuff by yourself. 

But I work on this branch every now and then so it might not be a stable version at a later time point and I don't guarantee support. 

Best wishes, 

Simon