Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c5/976a206c506e2bfc1dcdbe9906f9f4/22Rv1_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/789d6dbd20485b30b5cf40078995e3/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/789d6dbd20485b30b5cf40078995e3/.command.run
==> STAGING COMPLETE (3 inputs)

PAIRED_END_BAM_INPUT
Processed 1000000 records
Processed 2000000 records
Processed 3000000 records
Processed 4000000 records
Processed 5000000 records
Processed 6000000 records
Processed 7000000 records
Processed 8000000 records
Processed 9000000 records
Processed 10000000 records
Processed 11000000 records
Processed 12000000 records
Processed 13000000 records
Processed 14000000 records
Processed 15000000 records
Processed 16000000 records
Processed 17000000 records
Processed 18000000 records
Processed 19000000 records
Processed 20000000 records
Processed 21000000 records
Processed 22000000 records
Processed 23000000 records
Processed 24000000 records
Processed 25000000 records
Processed 26000000 records
Processed 27000000 records
paired = 13388793
unpaired = 397057
MERGED PAIRED END READS = 13388793
MATES PROCESSED = 27174643
TOTAL READS     = 13785850
DISTINCT READS  = 3.8558e+06
DISTINCT COUNTS = 322
MAX COUNT       = 53976
COUNTS OF 1     = 1.66674e+06
MAX TERMS       = 100
OBSERVED COUNTS (53977)
1	1666743
2	613314
3	369945
4	270670
5	207127
6	159462
7	122330
8	93959
9	71717
10	55457
11	42986
12	33636
13	26202
14	20586
15	16346
16	13310
17	10738
18	8717
19	7065
20	6089
21	5074
22	4288
23	3507
24	3017
25	2688
26	2274
27	1909
28	1840
29	1490
30	1289
31	1173
32	1016
33	887
34	813
35	749
36	636
37	569
38	462
39	428
40	388
41	339
42	326
43	289
44	254
45	214
46	212
47	204
48	156
49	158
50	133
51	121
52	136
53	109
54	82
55	98
56	90
57	97
58	72
59	75
60	62
61	75
62	60
63	62
64	56
65	53
66	51
67	45
68	44
69	40
70	38
71	39
72	30
73	39
74	27
75	36
76	28
77	30
78	29
79	30
80	24
81	25
82	23
83	20
84	18
85	23
86	18
87	16
88	15
89	16
90	10
91	25
92	12
93	12
94	11
95	14
96	15
97	13
98	11
99	8
100	11
101	9
102	7
103	9
104	13
105	11
106	10
107	10
108	9
109	7
110	7
111	10
112	3
113	6
114	9
115	2
116	11
117	7
118	5
119	8
120	11
121	3
122	3
123	7
124	6
125	7
126	5
127	3
128	4
129	4
130	3
131	6
132	6
133	4
134	5
135	7
136	5
137	4
138	5
139	4
140	5
141	3
142	4
143	3
144	6
145	2
146	2
147	2
148	6
149	3
150	1
151	4
152	2
153	2
154	1
155	2
156	3
157	3
158	2
159	1
160	1
161	2
162	3
163	1
165	2
166	2
167	2
168	3
169	2
170	3
172	1
173	3
175	2
176	3
178	2
179	1
181	2
183	1
185	1
186	2
187	4
188	1
189	3
191	1
194	3
195	3
196	3
197	1
199	2
201	2
202	1
203	3
204	3
205	1
207	1
208	1
209	2
211	3
212	1
213	1
217	1
219	2
220	1
221	2
223	2
224	1
225	2
228	2
229	1
230	1
233	2
239	1
240	1
241	1
243	1
247	1
249	1
251	1
252	1
254	1
255	1
259	1
261	1
267	2
271	1
273	1
280	1
281	2
283	1
284	1
288	1
291	1
292	3
294	1
300	1
301	1
302	1
306	2
311	1
320	1
323	1
325	1
328	2
330	1
333	1
340	1
341	1
343	1
345	1
348	1
350	2
354	1
356	1
359	1
361	1
366	1
367	1
368	1
371	1
372	1
382	1
384	1
391	1
404	1
415	1
416	1
419	1
425	1
431	1
435	1
436	1
447	1
451	1
460	1
463	1
474	1
477	1
483	1
493	1
500	1
502	1
503	1
526	1
527	1
531	1
547	1
554	1
557	1
561	1
571	1
572	1
584	1
617	1
668	1
686	1
697	2
699	1
717	1
741	1
758	1
780	1
845	1
896	1
942	1
962	1
979	1
980	1
1027	1
1043	1
1167	1
1241	1
1273	1
1440	2
1446	1
1709	1
2111	1
2490	1
2568	1
2911	1
3915	1
3923	1
4803	1
53976	1

[ESTIMATING YIELD CURVE]
[BOOTSTRAPPING HISTOGRAM]
....................._........_.........................................
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[COMPUTING CONFIDENCE INTERVALS]
[WRITING OUTPUT]