[16:41:10] Loading reference annotation.
[16:41:16] Inspecting maps and determining fragment length distributions.
[16:54:22] Modeling fragment count overdispersion.
[16:56:54] Modeling fragment count overdispersion.
> Map Properties:
>	Normalized Map Mass: 30741116.26
>	Raw Map Mass: 25949178.71
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 130.84
>	           Estimated Std Dev: 30.14
> Map Properties:
>	Normalized Map Mass: 30741116.26
>	Raw Map Mass: 33330913.88
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 145.06
>	           Estimated Std Dev: 40.74
> Map Properties:
>	Normalized Map Mass: 30741116.26
>	Raw Map Mass: 23707320.99
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 143.11
>	           Estimated Std Dev: 40.63
> Map Properties:
>	Normalized Map Mass: 30741116.26
>	Raw Map Mass: 28555811.46
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 149.45
>	           Estimated Std Dev: 43.55
> Map Properties:
>	Normalized Map Mass: 30741116.26
>	Raw Map Mass: 25743949.60
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 139.61
>	           Estimated Std Dev: 38.88
> Map Properties:
>	Normalized Map Mass: 30741116.26
>	Raw Map Mass: 28555811.46
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 149.45
>	           Estimated Std Dev: 43.55
[16:56:56] Calculating preliminary abundance estimates
[16:56:56] Testing for differential expression and regulation in locus.
Processed 26821 loci.                       
Performed 33983 isoform-level transcription difference tests
Performed 22412 tss-level transcription difference tests
Performed 15395 gene-level transcription difference tests
Performed 12877 CDS-level transcription difference tests
Performed 7411 splicing tests
Performed 5054 promoter preference tests
Performing 2346 relative CDS output tests
Writing isoform-level FPKM tracking
Writing TSS group-level FPKM tracking
Writing gene-level FPKM tracking
Writing CDS-level FPKM tracking
Writing isoform-level count tracking
Writing TSS group-level count tracking
Writing gene-level count tracking
Writing CDS-level count tracking
Writing isoform-level read group tracking
Writing TSS group-level read group tracking
Writing gene-level read group tracking
Writing CDS-level read group tracking
Writing read group info
Writing run info