Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fc/cba97a8163abdb1c0d5a9e6b3970d5/BreastNB_FFPE_L03_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9c/46af1a08b4c294934041487578de1c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9c/46af1a08b4c294934041487578de1c/.command.run
==> STAGING COMPLETE (3 inputs)

PAIRED_END_BAM_INPUT
Processed 1000000 records
Processed 2000000 records
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Processed 8000000 records
Processed 9000000 records
Processed 10000000 records
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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
Processed 28000000 records
Processed 29000000 records
Processed 30000000 records
Processed 31000000 records
Processed 32000000 records
Processed 33000000 records
Processed 34000000 records
Processed 35000000 records
Processed 36000000 records
Processed 37000000 records
Processed 38000000 records
Processed 39000000 records
Processed 40000000 records
Processed 41000000 records
Processed 42000000 records
Processed 43000000 records
Processed 44000000 records
Processed 45000000 records
Processed 46000000 records
Processed 47000000 records
Processed 48000000 records
Processed 49000000 records
Processed 50000000 records
Processed 51000000 records
Processed 52000000 records
Processed 53000000 records
Processed 54000000 records
Processed 55000000 records
Processed 56000000 records
Processed 57000000 records
Processed 58000000 records
Processed 59000000 records
Processed 60000000 records
Processed 61000000 records
Processed 62000000 records
Processed 63000000 records
Processed 64000000 records
Processed 65000000 records
Processed 66000000 records
Processed 67000000 records
Processed 68000000 records
Processed 69000000 records
Processed 70000000 records
Processed 71000000 records
Processed 72000000 records
Processed 73000000 records
Processed 74000000 records
Processed 75000000 records
Processed 76000000 records
Processed 77000000 records
Processed 78000000 records
Processed 79000000 records
Processed 80000000 records
Processed 81000000 records
Processed 82000000 records
Processed 83000000 records
Processed 84000000 records
Processed 85000000 records
Processed 86000000 records
Processed 87000000 records
Processed 88000000 records
Processed 89000000 records
Processed 90000000 records
Processed 91000000 records
Processed 92000000 records
Processed 93000000 records
Processed 94000000 records
Processed 95000000 records
Processed 96000000 records
Processed 97000000 records
Processed 98000000 records
Processed 99000000 records
Processed 100000000 records
Processed 101000000 records
Processed 102000000 records
Processed 103000000 records
Processed 104000000 records
Processed 105000000 records
Processed 106000000 records
Processed 107000000 records
Processed 108000000 records
Processed 109000000 records
Processed 110000000 records
Processed 111000000 records
Processed 112000000 records
Processed 113000000 records
Processed 114000000 records
Processed 115000000 records
Processed 116000000 records
Processed 117000000 records
Processed 118000000 records
Processed 119000000 records
Processed 120000000 records
Processed 121000000 records
Processed 122000000 records
Processed 123000000 records
Processed 124000000 records
Processed 125000000 records
Processed 126000000 records
Processed 127000000 records
Processed 128000000 records
Processed 129000000 records
Processed 130000000 records
Processed 131000000 records
Processed 132000000 records
Processed 133000000 records
Processed 134000000 records
Processed 135000000 records
Processed 136000000 records
Processed 137000000 records
Processed 138000000 records
Processed 139000000 records
Processed 140000000 records
Processed 141000000 records
Processed 142000000 records
Processed 143000000 records
Processed 144000000 records
Processed 145000000 records
Processed 146000000 records
paired = 72635313
unpaired = 1601234
MERGED PAIRED END READS = 72635313
MATES PROCESSED = 146871860
TOTAL READS     = 74236547
DISTINCT READS  = 6.49954e+06
DISTINCT COUNTS = 840
MAX COUNT       = 241040
COUNTS OF 1     = 2.53524e+06
MAX TERMS       = 100
OBSERVED COUNTS (241041)
1	2535244
2	851044
3	333819
4	175881
5	129069
6	111409
7	103535
8	98520
9	94501
10	91652
11	88335
12	85854
13	83070
14	79913
15	77075
16	74061
17	71384
18	68393
19	65683
20	62803
21	60408
22	57645
23	55290
24	52330
25	50038
26	47565
27	44946
28	43227
29	40704
30	38775
31	36970
32	35159
33	33070
34	31517
35	29855
36	27732
37	26552
38	25404
39	23534
40	22657
41	21263
42	20068
43	18967
44	17821
45	16822
46	15855
47	15092
48	14228
49	13480
50	12727
51	11920
52	11467
53	10878
54	10224
55	9845
56	8970
57	8722
58	8228
59	7676
60	7385
61	6987
62	6547
63	6329
64	5903
65	5679
66	5436
67	5088
68	4767
69	4710
70	4364
71	4257
72	3813
73	3914
74	3616
75	3528
76	3361
77	3254
78	2951
79	2901
80	2821
81	2677
82	2509
83	2361
84	2409
85	2142
86	2193
87	2070
88	2002
89	1966
90	1860
91	1713
92	1654
93	1633
94	1561
95	1533
96	1387
97	1329
98	1294
99	1255
100	1218
101	1300
102	1153
103	1158
104	1125
105	1001
106	1048
107	1000
108	939
109	943
110	920
111	847
112	853
113	816
114	768
115	740
116	716
117	717
118	686
119	657
120	654
121	642
122	612
123	646
124	570
125	550
126	510
127	514
128	503
129	537
130	506
131	524
132	530
133	472
134	457
135	466
136	431
137	430
138	397
139	402
140	421
141	365
142	402
143	334
144	345
145	349
146	323
147	321
148	275
149	313
150	310
151	268
152	313
153	313
154	259
155	264
156	263
157	265
158	264
159	265
160	258
161	247
162	223
163	224
164	242
165	208
166	219
167	216
168	187
169	181
170	205
171	196
172	189
173	157
174	182
175	172
176	187
177	163
178	169
179	160
180	139
181	151
182	147
183	139
184	159
185	140
186	138
187	126
188	134
189	129
190	112
191	110
192	111
193	109
194	113
195	126
196	116
197	103
198	83
199	94
200	84
201	91
202	87
203	93
204	91
205	95
206	79
207	77
208	84
209	81
210	72
211	68
212	88
213	78
214	62
215	59
216	53
217	62
218	45
219	70
220	59
221	70
222	55
223	55
224	42
225	47
226	28
227	49
228	46
229	45
230	45
231	50
232	50
233	37
234	31
235	43
236	38
237	41
238	40
239	35
240	44
241	40
242	30
243	26
244	38
245	36
246	33
247	20
248	28
249	24
250	31
251	36
252	32
253	37
254	25
255	33
256	22
257	39
258	24
259	23
260	32
261	28
262	31
263	26
264	27
265	16
266	25
267	16
268	25
269	23
270	24
271	24
272	27
273	21
274	21
275	18
276	28
277	26
278	20
279	20
280	22
281	21
282	32
283	22
284	25
285	17
286	15
287	20
288	20
289	17
290	15
291	20
292	20
293	18
294	21
295	14
296	16
297	13
298	15
299	15
300	15
301	17
302	18
303	15
304	14
305	19
306	11
307	14
308	8
309	22
310	17
311	10
312	15
313	13
314	12
315	14
316	19
317	13
318	14
319	18
320	15
321	14
322	12
323	13
324	12
325	12
326	9
327	10
328	14
329	10
330	12
331	17
332	11
333	13
334	6
335	12
336	17
337	14
338	13
339	15
340	10
341	15
342	9
343	15
344	11
345	8
346	5
347	10
348	10
349	12
350	6
351	12
352	10
353	6
354	4
355	6
356	15
357	13
358	8
359	12
360	6
361	9
362	10
363	10
364	10
365	9
366	8
367	11
368	6
369	7
370	16
371	9
372	11
373	7
374	5
375	6
376	6
377	5
378	6
379	6
380	10
381	5
382	7
383	7
384	4
385	8
386	8
387	4
388	5
389	2
390	7
391	9
392	5
393	3
394	4
395	8
396	5
397	8
398	4
399	8
400	8
401	5
402	2
403	8
404	5
405	4
406	4
407	6
408	3
409	6
410	5
411	9
412	8
413	4
414	6
415	3
416	9
417	3
418	6
419	5
420	6
421	4
422	5
423	4
424	2
425	4
426	7
427	9
428	6
429	4
430	5
431	3
432	7
433	5
434	8
435	4
436	5
437	3
438	3
439	1
440	4
441	8
442	4
443	5
444	2
445	3
446	5
447	2
448	2
449	5
450	6
451	7
453	2
454	2
455	3
456	3
457	3
458	2
459	4
460	3
461	8
462	2
463	2
464	4
465	3
466	4
467	2
468	7
469	3
470	2
471	3
472	1
473	3
474	4
475	2
476	4
477	5
479	4
480	8
481	1
482	5
483	3
484	1
485	3
486	2
487	4
488	1
489	3
490	3
491	4
492	3
493	3
494	3
495	3
496	6
497	1
498	6
499	2
500	4
501	3
502	2
503	7
504	4
505	3
507	3
508	1
509	4
510	2
511	4
512	1
513	2
515	4
516	1
517	4
518	4
519	1
520	2
521	1
522	3
523	3
524	2
525	1
527	3
528	1
530	1
531	4
533	1
534	4
535	2
536	1
537	5
538	1
539	4
540	5
541	1
542	1
543	1
544	2
545	1
546	2
547	1
548	4
549	3
550	3
551	3
553	2
555	1
556	1
557	1
558	1
559	4
560	4
561	3
562	3
564	1
565	3
567	1
568	3
569	2
571	2
572	3
573	1
574	1
576	3
577	1
578	1
579	3
580	2
581	3
582	3
583	1
586	1
587	3
588	2
590	1
591	2
593	2
594	1
595	2
596	2
597	3
598	1
599	2
601	1
603	5
604	3
605	1
607	1
608	2
609	1
610	2
611	3
614	3
616	1
617	1
618	1
619	4
620	1
621	3
622	1
623	1
624	1
625	1
626	2
628	1
631	1
632	1
633	3
634	2
636	2
637	1
638	1
639	3
641	1
642	1
647	1
648	1
649	1
650	1
652	2
653	1
654	1
655	1
657	1
658	4
659	3
660	2
661	1
663	2
664	1
665	1
668	1
669	1
670	2
673	2
676	1
677	1
678	1
679	1
685	1
686	1
687	1
688	3
689	1
691	1
692	1
693	1
695	4
696	1
697	1
699	1
701	3
702	1
703	3
705	1
706	1
707	1
708	3
711	3
712	2
713	1
716	2
717	1
724	1
725	1
726	1
729	1
730	1
731	1
733	2
735	1
742	1
743	1
745	1
747	1
748	1
752	1
753	1
756	1
758	2
761	1
762	1
764	2
769	1
770	1
772	1
776	1
778	1
779	1
780	1
781	1
787	1
789	1
793	1
794	1
795	1
801	2
802	2
804	1
810	1
812	1
814	1
821	1
822	1
824	1
828	1
836	1
837	1
842	2
845	1
846	1
847	1
848	1
851	2
855	1
857	1
860	1
861	1
862	1
864	1
865	1
866	1
867	1
868	1
873	1
877	1
880	1
885	1
889	1
891	1
897	1
903	1
908	1
909	1
911	1
915	1
920	1
925	1
930	1
936	1
938	1
945	1
950	1
954	1
955	1
959	1
967	2
971	1
978	2
985	1
998	1
999	1
1009	1
1012	1
1030	1
1035	1
1037	1
1038	1
1040	1
1042	1
1046	1
1047	1
1050	1
1051	1
1052	1
1055	1
1056	1
1062	1
1066	1
1068	1
1075	1
1076	1
1079	1
1081	1
1084	1
1092	1
1096	1
1118	1
1123	1
1124	1
1125	1
1134	1
1137	1
1147	2
1151	1
1176	1
1181	1
1183	1
1191	1
1198	1
1202	1
1204	1
1209	1
1224	1
1272	1
1276	1
1283	1
1290	1
1292	1
1316	1
1337	1
1343	1
1347	1
1353	1
1365	1
1373	1
1387	1
1391	1
1429	1
1490	2
1516	1
1541	1
1566	1
1604	1
1681	1
1685	1
1737	1
1776	1
1808	1
1811	1
1842	1
1848	1
1880	1
1891	1
1963	1
2178	1
2406	1
2489	1
2732	1
2737	1
2953	1
3045	1
3068	1
3071	1
3193	1
4185	1
4806	1
5507	1
5916	1
8611	1
241040	1

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