error about plotEntropyScores.py

[wiLLiaM0425000]

Hello!

I use Juncbase on Linux server(Linux version 3.10.0-514.10.2.el7.x86_64 (gcc version 4.8.5 20150623 (Red Hat 4.8.5-11) (GCC);python version 2.7.13;R version 3.4.2), and all of required library and packages have been installed in latest version.

I met two questions when using Juncbase:

1.When running plotEntropyScores.py to decide entropy cutoff, I got a warning'runtimewarning: invalid value encountered in ture_divide'

Then the process stopped and create 3 files :entropy_offset.txt;entropy_scores.txt;a PNG file.But the PNG file is empty.

I can't see any mistakes in my '.bam' file.How can I solve this problem?

2.how can I get all the splice sites' chromosome coordinates from all the samples? I didn't find these information in the files created by juncbase.

Best wishes!

[OlgaVT]

Hi, I encountered the same problem. Though I also tried to align to the transcriptome, to avoid the soft-clipping, it did not help with this error. Did anyone know how to solve it? Thank you!