Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/9d83ec513ae19da8f8dfe36ba5274b/GM24385_0001_RNA_0001_23H5VFLT4_s48.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/21db1e5e326f90b4eef7b332cc6f8a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/21db1e5e326f90b4eef7b332cc6f8a/.command.run
==> STAGING COMPLETE (3 inputs)

PAIRED_END_BAM_INPUT
Processed 1000000 records
Processed 2000000 records
Processed 3000000 records
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Processed 40000000 records
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Processed 76000000 records
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Processed 78000000 records
Processed 79000000 records
Processed 80000000 records
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Processed 139000000 records
Processed 140000000 records
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Processed 144000000 records
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Processed 147000000 records
Processed 148000000 records
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Processed 150000000 records
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Processed 152000000 records
Processed 153000000 records
Processed 154000000 records
Processed 155000000 records
Processed 156000000 records
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Processed 160000000 records
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Processed 163000000 records
Processed 164000000 records
Processed 165000000 records
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Processed 167000000 records
Processed 168000000 records
Processed 169000000 records
Processed 170000000 records
Processed 171000000 records
Processed 172000000 records
Processed 173000000 records
Processed 174000000 records
Processed 175000000 records
Processed 176000000 records
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Processed 178000000 records
Processed 179000000 records
Processed 180000000 records
Processed 181000000 records
Processed 182000000 records
Processed 183000000 records
Processed 184000000 records
Processed 185000000 records
Processed 186000000 records
Processed 187000000 records
Processed 188000000 records
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Processed 190000000 records
Processed 191000000 records
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Processed 238000000 records
Processed 239000000 records
Processed 240000000 records
Processed 241000000 records
Processed 242000000 records
Processed 243000000 records
Processed 244000000 records
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Processed 249000000 records
Processed 250000000 records
Processed 251000000 records
Processed 252000000 records
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Processed 254000000 records
Processed 255000000 records
Processed 256000000 records
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Processed 258000000 records
Processed 259000000 records
Processed 260000000 records
Processed 261000000 records
Processed 262000000 records
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Processed 268000000 records
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Processed 277000000 records
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Processed 279000000 records
Processed 280000000 records
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Processed 285000000 records
Processed 286000000 records
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Processed 288000000 records
Processed 289000000 records
Processed 290000000 records
Processed 291000000 records
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Processed 293000000 records
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Processed 296000000 records
Processed 297000000 records
Processed 298000000 records
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Processed 302000000 records
Processed 303000000 records
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Processed 310000000 records
Processed 311000000 records
Processed 312000000 records
Processed 313000000 records
Processed 314000000 records
Processed 315000000 records
Processed 316000000 records
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Processed 318000000 records
Processed 319000000 records
Processed 320000000 records
Processed 321000000 records
Processed 322000000 records
Processed 323000000 records
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Processed 325000000 records
Processed 326000000 records
Processed 327000000 records
Processed 328000000 records
Processed 329000000 records
Processed 330000000 records
Processed 331000000 records
Processed 332000000 records
Processed 333000000 records
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Processed 335000000 records
Processed 336000000 records
Processed 337000000 records
Processed 338000000 records
Processed 339000000 records
Processed 340000000 records
Processed 341000000 records
Processed 342000000 records
Processed 343000000 records
Processed 344000000 records
Processed 345000000 records
Processed 346000000 records
Processed 347000000 records
Processed 348000000 records
Processed 349000000 records
Processed 350000000 records
Processed 351000000 records
Processed 352000000 records
Processed 353000000 records
Processed 354000000 records
Processed 355000000 records
Processed 356000000 records
Processed 357000000 records
Processed 358000000 records
Processed 359000000 records
Processed 360000000 records
Processed 361000000 records
Processed 362000000 records
Processed 363000000 records
Processed 364000000 records
Processed 365000000 records
Processed 366000000 records
Processed 367000000 records
Processed 368000000 records
Processed 369000000 records
Processed 370000000 records
Processed 371000000 records
Processed 372000000 records
Processed 373000000 records
Processed 374000000 records
Processed 375000000 records
Processed 376000000 records
Processed 377000000 records
Processed 378000000 records
Processed 379000000 records
Processed 380000000 records
Processed 381000000 records
Processed 382000000 records
Processed 383000000 records
Processed 384000000 records
Processed 385000000 records
Processed 386000000 records
Processed 387000000 records
Processed 388000000 records
Processed 389000000 records
Processed 390000000 records
Processed 391000000 records
Processed 392000000 records
Processed 393000000 records
Processed 394000000 records
Processed 395000000 records
Processed 396000000 records
Processed 397000000 records
Processed 398000000 records
Processed 399000000 records
Processed 400000000 records
Processed 401000000 records
Processed 402000000 records
Processed 403000000 records
Processed 404000000 records
Processed 405000000 records
Processed 406000000 records
Processed 407000000 records
Processed 408000000 records
Processed 409000000 records
Processed 410000000 records
Processed 411000000 records
Processed 412000000 records
Processed 413000000 records
Processed 414000000 records
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Processed 416000000 records
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Processed 418000000 records
Processed 419000000 records
Processed 420000000 records
Processed 421000000 records
Processed 422000000 records
Processed 423000000 records
paired = 210292069
unpaired = 2873806
MERGED PAIRED END READS = 210292069
MATES PROCESSED = 423457944
TOTAL READS     = 213165875
DISTINCT READS  = 5.4388e+07
DISTINCT COUNTS = 876
MAX COUNT       = 474638
COUNTS OF 1     = 2.15548e+07
MAX TERMS       = 100
OBSERVED COUNTS (474639)
1	21554807
2	8699241
3	5163859
4	3836580
5	3065170
6	2465812
7	1969420
8	1561322
9	1228969
10	962607
11	752000
12	588958
13	462414
14	363541
15	288454
16	229623
17	184852
18	150401
19	121663
20	100339
21	82886
22	68945
23	58223
24	49251
25	42433
26	36056
27	31115
28	27155
29	23416
30	20350
31	17824
32	15418
33	14019
34	12289
35	10957
36	9769
37	8585
38	7980
39	7011
40	6246
41	5553
42	5026
43	4637
44	4209
45	3772
46	3480
47	3160
48	2950
49	2673
50	2476
51	2281
52	2093
53	1930
54	1856
55	1742
56	1571
57	1477
58	1302
59	1356
60	1204
61	1108
62	1036
63	953
64	995
65	923
66	898
67	836
68	785
69	739
70	712
71	687
72	655
73	600
74	603
75	608
76	556
77	537
78	513
79	450
80	459
81	453
82	434
83	443
84	372
85	413
86	392
87	342
88	337
89	317
90	318
91	255
92	244
93	294
94	297
95	249
96	243
97	246
98	259
99	258
100	233
101	197
102	199
103	188
104	231
105	200
106	211
107	190
108	162
109	181
110	176
111	166
112	171
113	134
114	170
115	169
116	136
117	157
118	138
119	131
120	149
121	128
122	98
123	129
124	132
125	117
126	117
127	104
128	117
129	127
130	101
131	96
132	106
133	80
134	109
135	100
136	103
137	75
138	102
139	76
140	86
141	70
142	91
143	94
144	100
145	80
146	81
147	75
148	65
149	70
150	79
151	61
152	68
153	71
154	71
155	55
156	66
157	65
158	53
159	78
160	67
161	62
162	47
163	59
164	54
165	47
166	43
167	54
168	53
169	42
170	46
171	53
172	52
173	52
174	42
175	44
176	51
177	39
178	39
179	53
180	35
181	36
182	34
183	50
184	39
185	43
186	35
187	37
188	30
189	44
190	35
191	31
192	45
193	40
194	29
195	32
196	32
197	33
198	34
199	37
200	35
201	28
202	28
203	37
204	33
205	22
206	26
207	22
208	24
209	32
210	33
211	30
212	29
213	27
214	28
215	30
216	27
217	26
218	18
219	22
220	21
221	20
222	23
223	17
224	27
225	21
226	20
227	14
228	17
229	19
230	18
231	21
232	21
233	35
234	25
235	21
236	26
237	24
238	13
239	24
240	24
241	18
242	26
243	15
244	16
245	27
246	15
247	19
248	14
249	17
250	17
251	19
252	15
253	13
254	15
255	18
256	16
257	19
258	17
259	21
260	16
261	12
262	13
263	20
264	15
265	15
266	12
267	19
268	14
269	12
270	20
271	11
272	16
273	10
274	13
275	12
276	14
277	9
278	21
279	9
280	12
281	6
282	13
283	15
284	11
285	9
286	16
287	11
288	11
289	11
290	12
291	8
292	10
293	6
294	13
295	10
296	8
297	9
298	11
299	8
300	12
301	11
302	17
303	13
304	7
305	13
306	5
307	9
308	9
309	10
310	8
311	8
312	9
313	7
314	8
315	13
316	12
317	10
318	8
319	12
320	4
321	8
322	6
323	8
324	9
325	8
326	10
327	9
328	9
329	11
330	5
331	8
332	9
333	10
334	5
335	7
336	5
337	13
338	10
339	10
340	5
341	3
342	11
343	8
344	10
345	9
346	7
347	8
348	11
349	7
350	11
351	6
352	8
353	4
354	9
355	9
356	4
357	6
358	4
359	6
360	6
361	5
362	8
363	7
364	7
365	10
366	8
367	7
368	7
369	7
370	4
371	8
372	3
373	4
374	7
375	5
376	5
377	8
378	4
379	8
380	5
381	5
382	4
383	3
384	7
385	3
386	3
387	10
388	5
389	1
390	9
391	9
392	4
393	6
394	4
395	2
396	5
397	5
398	6
399	6
400	3
401	9
402	2
403	3
404	7
405	8
406	5
407	8
408	6
409	8
410	2
411	2
412	1
413	2
414	3
415	3
416	4
417	4
418	3
419	4
420	2
421	7
422	3
423	2
424	1
425	5
426	5
427	4
428	2
429	1
430	5
431	1
432	3
433	8
434	3
435	3
436	4
437	8
438	4
439	1
440	3
442	3
443	6
444	2
445	4
447	2
448	2
449	9
450	5
451	4
452	7
453	2
454	3
455	4
456	1
457	1
458	3
459	5
460	2
461	4
462	6
463	4
464	5
465	5
466	4
468	1
469	2
470	2
471	2
472	1
473	1
474	2
475	5
476	2
477	4
479	1
480	5
481	2
482	2
483	2
484	4
485	7
486	5
488	3
489	2
490	2
492	2
493	2
494	3
495	3
496	2
497	2
498	3
499	3
500	2
501	2
502	3
503	6
504	3
505	1
506	2
507	5
508	2
509	3
510	5
511	1
512	1
513	2
514	1
515	2
516	1
517	4
518	2
519	1
520	4
521	4
522	3
523	1
524	2
525	3
527	3
529	1
531	2
532	2
534	1
535	2
536	1
537	3
538	2
539	4
540	3
541	3
542	2
544	2
545	4
546	1
547	3
548	1
549	1
550	4
551	4
553	1
554	1
555	2
556	2
557	2
558	2
561	3
562	2
563	1
564	4
566	3
567	2
568	2
569	2
570	1
571	1
572	1
573	1
574	2
575	3
576	3
577	5
578	1
579	1
580	1
581	2
582	3
583	1
584	1
585	2
586	2
587	5
588	3
589	2
590	2
591	2
593	2
596	1
597	3
598	4
599	1
600	1
601	3
602	4
603	1
604	1
605	2
606	5
612	3
613	1
614	2
615	3
616	3
618	1
619	5
620	2
621	1
622	4
623	2
625	2
627	2
628	2
629	1
630	2
632	1
633	2
634	2
635	1
636	2
637	1
638	3
640	2
642	2
643	2
646	1
647	2
649	2
650	1
651	2
652	2
654	2
655	1
656	2
657	1
658	2
662	1
663	1
665	1
666	3
667	1
670	1
671	1
672	2
674	1
679	1
681	1
682	3
683	1
684	3
686	1
689	1
692	1
693	2
694	2
695	2
697	2
699	1
700	1
701	2
702	1
703	1
704	1
705	2
706	1
707	2
708	1
711	1
712	2
713	2
716	2
717	1
720	1
721	4
722	1
725	1
726	1
729	1
730	1
731	1
732	1
733	1
736	4
737	1
738	2
741	1
742	1
743	1
744	2
745	1
746	1
750	1
751	2
752	1
754	1
756	2
757	1
759	2
760	2
761	2
765	2
768	3
770	1
771	1
772	1
773	2
781	3
782	1
783	1
784	1
786	1
787	2
788	1
790	2
791	2
792	2
797	2
800	1
802	1
804	1
809	1
812	2
815	1
819	1
821	2
822	1
824	1
825	1
828	1
829	1
831	1
832	1
836	1
838	2
840	2
841	3
843	2
846	1
852	2
855	2
858	1
862	1
865	1
875	1
876	1
878	1
883	2
885	1
886	2
888	1
890	1
892	1
894	1
895	2
899	1
901	1
905	1
907	1
909	2
914	2
919	1
920	2
924	1
931	1
932	1
933	1
935	1
938	1
941	1
956	1
961	2
967	1
969	3
970	1
975	1
976	1
977	1
980	1
982	1
984	1
988	1
996	1
999	1
1000	2
1001	1
1005	1
1006	1
1008	1
1009	1
1012	1
1014	1
1020	2
1021	2
1022	2
1025	1
1028	1
1029	1
1040	1
1054	1
1057	1
1062	1
1067	1
1068	1
1074	1
1077	1
1085	1
1090	1
1097	1
1103	1
1108	1
1112	1
1113	1
1115	2
1117	1
1120	1
1128	1
1131	2
1133	1
1138	1
1149	1
1151	1
1152	1
1153	1
1158	1
1161	1
1165	1
1170	1
1178	1
1184	1
1185	2
1189	1
1192	2
1206	1
1210	1
1215	1
1217	1
1224	2
1248	2
1255	1
1268	2
1299	1
1307	1
1308	1
1316	2
1358	1
1366	1
1379	1
1387	1
1399	1
1401	1
1406	1
1407	1
1459	1
1477	1
1502	1
1508	1
1524	1
1529	1
1541	1
1553	1
1557	1
1566	1
1570	1
1597	1
1632	1
1659	1
1662	1
1669	1
1693	1
1733	1
1782	1
1904	1
1938	1
2059	1
2201	1
2409	1
2433	1
2449	1
2530	1
2604	1
2750	1
3619	1
3992	1
6166	1
9615	1
20984	1
474638	1

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