_corrected.gtf file without transcript line

[yemao701]

I'm running SQANTI_qc2.py (version 7.3.2, the version of cDNA_Cupcake is 11.0.0, python 3.7.4)，with this Parameters:

All the steps were OK until I got this message:

I check my reference GFF file but it is OK：

So I check *_corrected.gtf and found that the file has no transcript line. I don't think it's normal:

Did I do something wrong?

BTW:
This is the file that generated by SQANTI2 before error:

[Magdoll]

@yemao701 ,

Not sure if you fixed it yet, but yeah, something is weird if the input fasta after it got turned into GTF.
It's supposed to have one line of "transcript" followed by records for "exons".

-Liz

[AminMahpour]

I can replicate this issue as well. Maybe there is a problem with the GTF handling library?

EDIT:
I have narrowed down the issue to the "gffread" command where it cannot create the "transcript" lines.

[Magdoll]

hi @AminMahpour ,
It may be the gffread version you have?
this is my version

$ gffread --version
0.11.4

[AminMahpour]

I’m using the Anaconda-based one, which is 0.11.7.
GFFREAD does not seem to have a valid —version argument.

Amin