Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e2/c5c6ec3b4ced32b6e2232ad2d8c614/aih-tih-sc-2ca847-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/07a162ed922e611318396795da887f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/07a162ed922e611318396795da887f/.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
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
Processed 147000000 records
Processed 148000000 records
Processed 149000000 records
Processed 150000000 records
Processed 151000000 records
Processed 152000000 records
Processed 153000000 records
Processed 154000000 records
Processed 155000000 records
Processed 156000000 records
Processed 157000000 records
Processed 158000000 records
Processed 159000000 records
Processed 160000000 records
Processed 161000000 records
Processed 162000000 records
Processed 163000000 records
Processed 164000000 records
Processed 165000000 records
Processed 166000000 records
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
Processed 177000000 records
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
Processed 189000000 records
Processed 190000000 records
Processed 191000000 records
Processed 192000000 records
Processed 193000000 records
Processed 194000000 records
Processed 195000000 records
Processed 196000000 records
Processed 197000000 records
Processed 198000000 records
Processed 199000000 records
Processed 200000000 records
Processed 201000000 records
Processed 202000000 records
Processed 203000000 records
Processed 204000000 records
Processed 205000000 records
Processed 206000000 records
Processed 207000000 records
Processed 208000000 records
Processed 209000000 records
Processed 210000000 records
Processed 211000000 records
Processed 212000000 records
Processed 213000000 records
Processed 214000000 records
Processed 215000000 records
Processed 216000000 records
Processed 217000000 records
Processed 218000000 records
Processed 219000000 records
Processed 220000000 records
Processed 221000000 records
Processed 222000000 records
Processed 223000000 records
Processed 224000000 records
Processed 225000000 records
Processed 226000000 records
Processed 227000000 records
Processed 228000000 records
Processed 229000000 records
Processed 230000000 records
Processed 231000000 records
Processed 232000000 records
Processed 233000000 records
Processed 234000000 records
Processed 235000000 records
Processed 236000000 records
Processed 237000000 records
Processed 238000000 records
Processed 239000000 records
Processed 240000000 records
Processed 241000000 records
Processed 242000000 records
Processed 243000000 records
Processed 244000000 records
Processed 245000000 records
Processed 246000000 records
Processed 247000000 records
Processed 248000000 records
Processed 249000000 records
Processed 250000000 records
Processed 251000000 records
Processed 252000000 records
Processed 253000000 records
Processed 254000000 records
Processed 255000000 records
Processed 256000000 records
Processed 257000000 records
Processed 258000000 records
Processed 259000000 records
Processed 260000000 records
Processed 261000000 records
Processed 262000000 records
Processed 263000000 records
Processed 264000000 records
Processed 265000000 records
Processed 266000000 records
Processed 267000000 records
Processed 268000000 records
Processed 269000000 records
Processed 270000000 records
Processed 271000000 records
Processed 272000000 records
Processed 273000000 records
Processed 274000000 records
Processed 275000000 records
Processed 276000000 records
Processed 277000000 records
Processed 278000000 records
Processed 279000000 records
Processed 280000000 records
Processed 281000000 records
Processed 282000000 records
Processed 283000000 records
Processed 284000000 records
Processed 285000000 records
Processed 286000000 records
Processed 287000000 records
Processed 288000000 records
Processed 289000000 records
Processed 290000000 records
Processed 291000000 records
Processed 292000000 records
Processed 293000000 records
Processed 294000000 records
Processed 295000000 records
Processed 296000000 records
Processed 297000000 records
Processed 298000000 records
Processed 299000000 records
Processed 300000000 records
Processed 301000000 records
Processed 302000000 records
Processed 303000000 records
Processed 304000000 records
Processed 305000000 records
Processed 306000000 records
Processed 307000000 records
Processed 308000000 records
Processed 309000000 records
Processed 310000000 records
Processed 311000000 records
Processed 312000000 records
Processed 313000000 records
Processed 314000000 records
Processed 315000000 records
Processed 316000000 records
Processed 317000000 records
Processed 318000000 records
Processed 319000000 records
Processed 320000000 records
Processed 321000000 records
Processed 322000000 records
Processed 323000000 records
Processed 324000000 records
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
Processed 334000000 records
paired = 166013258
unpaired = 2538368
MERGED PAIRED END READS = 166013258
MATES PROCESSED = 334564884
TOTAL READS     = 168551626
DISTINCT READS  = 5.08391e+07
DISTINCT COUNTS = 951
MAX COUNT       = 457889
COUNTS OF 1     = 1.69134e+07
MAX TERMS       = 100
OBSERVED COUNTS (457890)
1	16913420
2	10955213
3	7471381
4	4989034
5	3292318
6	2161793
7	1430317
8	960818
9	655199
10	457582
11	326722
12	238626
13	178228
14	136342
15	106127
16	82988
17	66089
18	53724
19	43328
20	35973
21	29846
22	25308
23	21020
24	18043
25	15624
26	13501
27	11829
28	10491
29	9277
30	8335
31	7340
32	6764
33	6015
34	5502
35	4924
36	4627
37	4240
38	3852
39	3605
40	3279
41	3052
42	2909
43	2669
44	2403
45	2409
46	2159
47	2078
48	1897
49	1829
50	1644
51	1631
52	1524
53	1319
54	1428
55	1273
56	1241
57	1133
58	1096
59	1025
60	957
61	970
62	962
63	875
64	863
65	830
66	788
67	754
68	691
69	679
70	681
71	591
72	623
73	591
74	584
75	504
76	539
77	534
78	533
79	482
80	447
81	481
82	435
83	437
84	433
85	378
86	398
87	372
88	348
89	325
90	327
91	313
92	340
93	297
94	305
95	248
96	258
97	255
98	267
99	257
100	250
101	264
102	228
103	234
104	215
105	235
106	226
107	196
108	175
109	196
110	195
111	205
112	196
113	162
114	180
115	182
116	172
117	160
118	172
119	147
120	144
121	150
122	156
123	145
124	140
125	153
126	121
127	133
128	133
129	139
130	112
131	118
132	121
133	121
134	125
135	109
136	109
137	109
138	114
139	99
140	84
141	96
142	90
143	121
144	80
145	102
146	76
147	97
148	97
149	96
150	89
151	81
152	91
153	73
154	100
155	81
156	89
157	69
158	72
159	83
160	63
161	77
162	66
163	83
164	78
165	60
166	63
167	71
168	60
169	62
170	67
171	59
172	58
173	61
174	59
175	60
176	66
177	78
178	51
179	53
180	54
181	45
182	55
183	45
184	51
185	57
186	53
187	42
188	39
189	28
190	41
191	39
192	41
193	34
194	32
195	44
196	41
197	28
198	48
199	41
200	29
201	35
202	44
203	39
204	29
205	43
206	35
207	36
208	34
209	24
210	35
211	38
212	45
213	44
214	29
215	34
216	40
217	39
218	24
219	30
220	27
221	25
222	29
223	23
224	21
225	36
226	21
227	25
228	23
229	21
230	32
231	21
232	28
233	39
234	22
235	20
236	32
237	29
238	31
239	19
240	23
241	17
242	34
243	27
244	25
245	20
246	18
247	23
248	21
249	20
250	21
251	20
252	15
253	16
254	12
255	22
256	15
257	19
258	18
259	20
260	15
261	15
262	19
263	19
264	17
265	23
266	13
267	23
268	17
269	16
270	12
271	14
272	18
273	25
274	17
275	17
276	15
277	15
278	14
279	10
280	19
281	15
282	10
283	16
284	19
285	16
286	11
287	14
288	6
289	17
290	19
291	22
292	15
293	13
294	20
295	13
296	10
297	12
298	10
299	15
300	10
301	17
302	12
303	16
304	13
305	17
306	10
307	12
308	5
309	15
310	9
311	14
312	15
313	8
314	18
315	11
316	10
317	16
318	9
319	9
320	10
321	13
322	15
323	12
324	8
325	7
326	13
327	12
328	9
329	11
330	8
331	7
332	8
333	12
334	15
335	4
336	6
337	8
338	8
339	12
340	6
341	7
342	15
343	13
344	4
345	9
346	10
347	7
348	13
349	10
350	14
351	3
352	5
353	8
354	7
355	13
356	6
357	6
358	12
359	6
360	8
361	3
362	7
363	9
364	11
365	10
366	3
367	7
368	7
369	8
370	8
371	4
372	6
373	2
374	8
375	9
376	5
377	8
378	6
379	8
380	10
381	8
382	9
383	9
384	12
385	14
386	9
387	6
388	4
389	9
390	6
391	3
392	8
393	6
394	8
395	4
396	5
397	4
398	6
399	5
400	5
401	11
402	6
403	6
404	7
405	5
406	8
407	4
408	3
409	1
410	3
411	4
412	7
413	2
414	8
415	5
416	4
417	7
418	5
419	5
420	9
421	8
422	6
423	4
424	8
425	3
426	5
427	3
428	4
429	3
430	3
431	5
432	4
433	5
434	6
435	5
436	5
437	5
438	5
439	14
440	5
441	5
442	4
443	3
444	7
445	6
446	5
447	5
448	4
449	2
450	5
451	2
452	2
453	11
454	2
455	2
456	3
457	3
458	7
459	3
460	3
461	2
462	4
463	3
464	4
465	4
466	4
467	6
468	2
469	7
470	3
471	4
472	1
473	4
474	3
475	3
476	6
477	5
478	5
479	3
480	7
481	3
482	2
483	2
484	7
485	1
486	4
487	4
488	5
489	6
490	4
491	2
492	4
493	2
494	2
495	2
496	10
497	3
498	3
499	3
500	1
501	1
502	4
503	7
504	2
505	1
506	4
507	4
508	3
509	1
510	5
512	2
513	7
514	1
515	4
516	2
517	5
518	2
519	2
520	4
521	2
522	2
524	5
525	1
526	2
527	1
528	2
529	3
531	4
532	2
533	3
534	2
535	3
536	2
537	2
538	2
540	3
541	1
542	3
543	3
544	4
545	4
546	3
547	1
549	2
550	2
551	3
552	2
553	1
554	2
555	2
556	2
557	4
558	4
559	3
560	3
563	1
564	3
565	1
567	2
568	1
569	1
570	4
571	1
572	2
575	1
576	1
577	6
578	2
579	3
580	1
581	2
582	1
584	2
585	2
587	2
588	1
590	1
591	1
592	3
594	2
595	1
596	7
597	2
598	1
599	3
600	1
601	1
602	2
603	4
604	1
605	2
606	1
607	4
608	3
609	1
610	4
611	1
612	4
613	1
615	1
617	2
618	1
619	3
620	2
621	4
623	2
624	2
625	1
626	1
627	1
629	1
630	4
631	2
632	2
633	2
634	4
635	2
636	2
638	1
639	3
640	1
641	2
642	3
643	1
645	1
646	1
647	2
648	2
649	1
650	1
651	3
652	2
653	3
654	2
655	1
656	2
657	5
658	2
659	2
660	2
665	1
666	2
667	1
670	3
672	1
673	3
674	1
675	1
676	2
678	1
679	2
680	2
681	2
683	1
684	4
685	2
686	2
687	1
688	1
689	1
691	2
693	2
694	1
695	2
696	7
698	1
701	3
702	2
704	1
705	2
706	3
707	2
708	2
709	1
710	2
711	1
712	3
713	3
715	2
716	1
717	1
718	1
720	1
721	1
722	1
725	1
726	1
727	2
728	1
730	2
731	1
734	1
736	1
737	2
740	2
742	1
743	1
744	1
745	2
746	1
747	1
748	2
749	1
750	1
753	1
754	1
755	3
756	1
757	2
760	3
761	1
763	1
764	2
765	2
766	2
767	2
768	1
769	1
770	1
772	1
775	2
777	2
778	1
783	1
784	1
787	1
789	1
791	1
792	1
793	1
794	1
797	1
798	1
801	1
804	1
805	1
807	3
808	2
810	2
811	1
815	1
816	2
818	1
819	2
820	5
822	1
829	2
832	1
833	1
834	2
836	1
837	1
846	2
849	2
851	1
855	1
862	2
863	3
869	1
871	1
873	2
875	1
876	2
880	1
884	1
886	2
890	2
891	2
896	1
902	1
904	1
905	2
908	2
911	2
920	1
922	1
923	1
925	1
926	1
928	1
929	2
930	1
935	1
940	1
943	1
944	1
946	1
948	1
949	1
954	1
955	1
964	1
971	1
972	2
973	1
974	1
976	2
983	1
984	3
986	1
992	1
996	1
999	1
1000	1
1002	1
1003	1
1006	1
1015	1
1021	1
1027	1
1028	1
1029	1
1032	1
1033	1
1034	1
1038	2
1041	1
1047	1
1050	1
1053	1
1055	1
1057	1
1059	1
1068	1
1069	1
1072	1
1073	1
1075	1
1077	1
1078	1
1082	1
1083	1
1084	1
1087	1
1090	1
1097	1
1098	1
1101	1
1104	1
1106	1
1107	1
1117	2
1124	1
1130	1
1132	1
1133	1
1137	1
1142	1
1147	1
1149	1
1150	1
1151	1
1152	1
1159	1
1160	1
1164	1
1165	1
1173	1
1179	1
1186	1
1187	1
1189	1
1191	1
1194	1
1195	1
1207	1
1213	1
1217	2
1218	1
1220	1
1231	1
1233	1
1234	1
1249	1
1252	1
1253	1
1260	1
1263	1
1268	1
1274	1
1282	1
1288	1
1304	1
1313	1
1343	1
1344	1
1350	1
1360	1
1401	1
1419	1
1430	1
1443	1
1471	1
1476	1
1479	1
1489	1
1492	1
1493	1
1501	1
1509	1
1519	1
1526	1
1527	1
1554	1
1557	1
1564	1
1582	1
1602	1
1633	1
1634	1
1638	1
1696	1
1725	1
1734	1
1744	1
1763	1
1775	1
1792	1
1827	1
1853	1
1862	1
1872	1
1890	1
1894	1
1915	1
2001	1
2003	1
2032	1
2045	1
2060	1
2210	1
2307	1
2363	1
2600	1
2631	1
2893	1
2972	1
3341	1
3354	1
3361	1
3804	1
3933	1
4077	1
4177	1
4334	1
4414	1
5391	1
6040	1
6196	1
15963	1
457889	1

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