URGENT! Python script for BIOINFORMATICS

I need you guys to complete this flow.

The flow we need is

1) Allow the user to select the FastQ file (done)

2) Check validity of the file
(done)

3) Align it with the standard genome
(to be done)

3) Calculate the "coverage uniformity"
(to be done)

5) Merge the original fastq and the standard (where the fastq is missing fill it with the standard)
(to be done)

6) Select some specific genes i'll tell you
(to be done)

7) Extract the selected genes in a json (i need the letters)
(to be done)

Check attached for step 7 and for ready made steps.

URGENT! NEED TO BE DONE TODAY