Having problem while running cufflinksv2.2.1 with --library-norm-method classic-fpkm

[srikant_verma]

Hi all,

I have tried to run the following:

$ cufflinks-2.2.1.Linux_x86_64/cufflinks \
-p 8 \
-o cufflinks_SRR1153278 \
-g genes.gtf \
--library-norm-method classic-fpkm SRR1153278.bam

"I could only see the command-usage on terminal."
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But when I ran the following:
cufflinks-2.2.1.Linux_x86_64/cufflinks \
-p 8 \
-o cufflinks_SRR1153278 \
-g genes.gtf SRR1153278.bam

"I got all the expected output files such as transcripts.gtf, skipped.gtf, isoforms.fpkm_tracking, genes.fpkm_tracking"
---------------------------------------------------------------------

Can anyone help me explaining where was I wrong?
Or if you have faced similar issues please respond.