In most runs AA_CNV_SEEDS.bed files are empty

[Yumo-Xie]

Hi. I have applied the program in WGS data of several cell lines. I started from .fastq files and used PrepareAA.py to generate CNV calls. However, all of these runs generated empty AA_CNV_SEEDS.bed files. I tried the recommended GBM39 testing data [https://www.ncbi.nlm.nih.gov/sra/SRX5055022[accn]]. By this time the program found 2 amplicons (one with EGFR and the other with MYC and PVT1) GBM39_amplicon1.pdf GBM39_amplicon2.pdf. Is the result correct? Does that mean my program work just fine, and the empty AA_CNV_SEEDS.bed files are attributed to the data I used?