[dlm551@wonton-snm super_results]$ echo $t
023721T-JS0019-SJ0319UL1-U-LJCCQ-GGTGAACC-GCGTTGGA-200117-200117.noClusterDuplicates.bam
[dlm551@wonton-snm super_results]$ samtools flagstat $t
15283300 + 0 in total (QC-passed reads + QC-failed reads)
0 + 0 secondary
0 + 0 supplementary
3143676 + 0 duplicates
15283300 + 0 mapped (100.00% : N/A)
314935 + 0 paired in sequencing
168039 + 0 read1
146896 + 0 read2
283490 + 0 properly paired (90.02% : N/A)
288927 + 0 with itself and mate mapped
26008 + 0 singletons (8.26% : N/A)
4625 + 0 with mate mapped to a different chr
4625 + 0 with mate mapped to a different chr (mapQ>=5)

[dlm551@wonton-snm super_results]$ echo $f
023721T-JS0019-SJ0319UL1-U-LJCCQ-GGTGAACC-GCGTTGGA-200117-200117.pure.bam
[dlm551@wonton-snm super_results]$ samtools flagstat $f
12620054 + 0 in total (QC-passed reads + QC-failed reads)
0 + 0 secondary
0 + 0 supplementary
1929687 + 0 duplicates
12620054 + 0 mapped (100.00% : N/A)
229819 + 0 paired in sequencing
124655 + 0 read1
105164 + 0 read2
208213 + 0 properly paired (90.60% : N/A)
212398 + 0 with itself and mate mapped
17421 + 0 singletons (7.58% : N/A)
3572 + 0 with mate mapped to a different chr
3572 + 0 with mate mapped to a different chr (mapQ>=5)