remove empty line

workflows/rnaseqdenovo/components/snpEff.py

@@ -133,7 +133,7 @@ class SnpEff (Component):
                                  cmd_format='{EXE} {IN} {OUT}', outputs=self.snpeff_config)
         
         #Add fasta sequence in gff3 file
-        self.add_shell_execution("cat $2 > $3; echo \"##FASTA\" >> $3 ; cat $1 >> $3 ", cmd_format='{EXE} {IN} {OUT}', inputs=[self.databank,self.transdecoder_predict], outputs=[self.gene_file])
+        self.add_shell_execution("sed '/^$/d' $2 > $3; echo \"##FASTA\" >> $3 ; cat $1 >> $3 ", cmd_format='{EXE} {IN} {OUT}', inputs=[self.databank,self.transdecoder_predict], outputs=[self.gene_file])
         
         #build database for snpeff ava -jar /usr/local/bioinfo/src/SnpEff/current/snpEff.jar build -gff3 -c snpEff.config -v transcript
         self.add_shell_execution("cd " + self.output_directory+ "; " + self.get_exec_path("java") + " " + xmx_option + " -jar " + self.get_exec_path("snpeff") +