problem with extracting a sequence from the given FASTA

Hi, I get this error and I can't go through it. I downloaded latest version of *.gtf annotated genome and *.fasta genome of Mmus from ensembl. I used this genome from all my analysis untill now. Do you have any idea what may cause that?

Problem with extracting a sequence from the given FASTA sequences: got no sequence: start=..., end=..., scaffold=... Do the FASTA sequences and the coordinates come from the same genome? at /home/user/matt//abilities/get_seqs.pl line 101, <$fh> line 2. Could not extract all necessary sequences (/mnt/c/Users/.../up.tab) from FASTA (/mnt/.../Mus_musculus.fasta). at /home/user/matt//abilities/get_efeatures.pl line 659. Sorry, you requested add_cols but: number of rows of /mnt/.../up.tab does not fit to number of rows in -. at /home/user/matt//abilities/add_cols.pl line 115. Died at /home/user/matt//abilities/cmpr_exons.pl line 159.