param	value
cmd_line	cuffdiff -o cuffdiff_out -b /home/bioinfo/Desktop/ch4_demo_dataset/bwt2_index/SL2.40ch04.fa -u annotation/ITAG2.3_gene_models_ch4.gtf breaker/SRR404334/SRR404334_tophat_out/accepted_hits.bam,breaker/SRR404336/SRR404336_tophat_out/accepted_hits.bam immature_fruit/SRR404331/SRR404331_tophat_out/accepted_hits.bam,immature_fruit/SRR404333/SRR404333_tophat_out/accepted_hits.bam 
version	2.0.2
SVN_revision	3522
boost_version	104900