[19:07:33] Loading reference annotation.
[19:07:38] Inspecting maps and determining fragment length distributions.
[19:20:08] Modeling fragment count overdispersion.
[19:20:44] Modeling fragment count overdispersion.
> Map Properties:
>	Normalized Map Mass: 28565915.69
>	Raw Map Mass: 25428340.82
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 132.38
>	           Estimated Std Dev: 35.62
> Map Properties:
>	Normalized Map Mass: 28565915.69
>	Raw Map Mass: 22459725.94
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 127.41
>	           Estimated Std Dev: 29.86
> Map Properties:
>	Normalized Map Mass: 28565915.69
>	Raw Map Mass: 24564363.17
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 137.23
>	           Estimated Std Dev: 41.76
> Map Properties:
>	Normalized Map Mass: 28565915.69
>	Raw Map Mass: 25949178.71
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 130.84
>	           Estimated Std Dev: 30.14
> Map Properties:
>	Normalized Map Mass: 28565915.69
>	Raw Map Mass: 33330913.88
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 145.06
>	           Estimated Std Dev: 40.74
> Map Properties:
>	Normalized Map Mass: 28565915.69
>	Raw Map Mass: 23707320.99
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 143.11
>	           Estimated Std Dev: 40.63
[19:20:46] Calculating preliminary abundance estimates
[19:20:46] Testing for differential expression and regulation in locus.
Processed 26821 loci.                       
Performed 42799 isoform-level transcription difference tests
Performed 29279 tss-level transcription difference tests
Performed 20718 gene-level transcription difference tests
Performed 13721 CDS-level transcription difference tests
Performed 6998 splicing tests
Performed 4856 promoter preference tests
Performing 2180 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