GeneFuse on RNA-seq

[deb0612]

Dear sir,
I tried to apply genefuse to our RNA-seq with known fusion gene.
Somehow we couldn't find any fusion gene.
command I used:
genefuse -r hg19.fa -f druggable.hg19.csv -1 A2076_FFPE_RNA_S1_L001_R1_001.fastq.gz" -2 A2076_FFPE_RNA_S1_L001_R2_001.fastq.gz" -h A2076_FFPE_RNA.html > A2076_FFPE_RNA.result
14:39:27 start with 4 threads
14:39:51 mapper indexing done
14:39:55 sequence number before filtering: 45
14:39:55 removeByComplexity: 0
14:39:55 removeByDistance: 22
14:39:55 removeIndels: 2
14:41:14 matcher indexing done
14:41:14 removeAlignables: 3
14:41:14 found 0 fusions
14:41:16 done
What your suggestion to apply genefuse to RNA-seq ?