Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/34/9e229e5808f18f38f1c14fb48ff904/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/cb5c4b183349561367b746d2c6cdd5/GM24385_0001_RNA_0001_23H5VFLT4_s24.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/34/9e229e5808f18f38f1c14fb48ff904/.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
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
Processed 415000000 records
Processed 416000000 records
Processed 417000000 records
Processed 418000000 records
Processed 419000000 records
Processed 420000000 records
Processed 421000000 records
Processed 422000000 records
Processed 423000000 records
Processed 424000000 records
Processed 425000000 records
Processed 426000000 records
Processed 427000000 records
Processed 428000000 records
Processed 429000000 records
Processed 430000000 records
Processed 431000000 records
Processed 432000000 records
Processed 433000000 records
Processed 434000000 records
Processed 435000000 records
Processed 436000000 records
Processed 437000000 records
Processed 438000000 records
Processed 439000000 records
Processed 440000000 records
Processed 441000000 records
Processed 442000000 records
Processed 443000000 records
Processed 444000000 records
Processed 445000000 records
Processed 446000000 records
Processed 447000000 records
Processed 448000000 records
Processed 449000000 records
Processed 450000000 records
Processed 451000000 records
Processed 452000000 records
Processed 453000000 records
Processed 454000000 records
Processed 455000000 records
Processed 456000000 records
Processed 457000000 records
Processed 458000000 records
paired = 227616002
unpaired = 3081696
MERGED PAIRED END READS = 227616002
MATES PROCESSED = 458313700
TOTAL READS     = 230697698
DISTINCT READS  = 8.74642e+07
DISTINCT COUNTS = 899
MAX COUNT       = 445446
COUNTS OF 1     = 4.01461e+07
MAX TERMS       = 100
OBSERVED COUNTS (445447)
1	40146086
2	18544220
3	10363279
4	6292086
5	3952351
6	2528139
7	1646250
8	1091990
9	739661
10	511919
11	363036
12	261904
13	192814
14	145468
15	111212
16	87030
17	69333
18	55573
19	44893
20	36479
21	30976
22	25835
23	22107
24	18586
25	15967
26	14070
27	11989
28	10621
29	9416
30	8511
31	7470
32	6651
33	6108
34	5622
35	5025
36	4507
37	4098
38	3738
39	3414
40	3273
41	2963
42	2744
43	2534
44	2351
45	2176
46	2046
47	1872
48	1810
49	1632
50	1594
51	1502
52	1369
53	1249
54	1257
55	1221
56	1151
57	1041
58	964
59	953
60	895
61	854
62	792
63	748
64	729
65	699
66	719
67	648
68	616
69	597
70	545
71	525
72	511
73	515
74	503
75	468
76	434
77	434
78	412
79	371
80	424
81	394
82	378
83	330
84	317
85	329
86	338
87	305
88	281
89	262
90	279
91	274
92	259
93	241
94	249
95	230
96	230
97	223
98	222
99	210
100	198
101	220
102	198
103	174
104	178
105	169
106	172
107	201
108	172
109	175
110	164
111	155
112	167
113	160
114	136
115	135
116	132
117	127
118	123
119	106
120	124
121	122
122	145
123	102
124	130
125	109
126	118
127	115
128	111
129	99
130	104
131	111
132	97
133	76
134	95
135	93
136	86
137	98
138	67
139	90
140	82
141	84
142	69
143	86
144	77
145	75
146	81
147	72
148	83
149	56
150	67
151	72
152	75
153	67
154	62
155	63
156	76
157	66
158	71
159	56
160	63
161	54
162	52
163	55
164	55
165	73
166	50
167	52
168	55
169	60
170	50
171	47
172	54
173	50
174	47
175	36
176	46
177	31
178	45
179	50
180	41
181	37
182	52
183	38
184	40
185	37
186	48
187	43
188	50
189	41
190	34
191	31
192	34
193	36
194	29
195	40
196	39
197	34
198	40
199	40
200	23
201	38
202	32
203	18
204	27
205	25
206	37
207	27
208	35
209	37
210	22
211	22
212	30
213	17
214	15
215	39
216	27
217	21
218	27
219	27
220	31
221	30
222	31
223	21
224	28
225	24
226	25
227	27
228	19
229	22
230	17
231	16
232	29
233	24
234	20
235	23
236	20
237	15
238	16
239	16
240	21
241	23
242	24
243	22
244	15
245	17
246	17
247	14
248	16
249	26
250	18
251	17
252	18
253	15
254	8
255	13
256	19
257	15
258	20
259	19
260	16
261	13
262	15
263	20
264	21
265	17
266	9
267	13
268	12
269	8
270	13
271	8
272	17
273	16
274	14
275	6
276	14
277	14
278	15
279	13
280	11
281	14
282	10
283	16
284	14
285	11
286	16
287	11
288	14
289	10
290	11
291	14
292	11
293	9
294	9
295	11
296	14
297	10
298	12
299	9
300	15
301	9
302	10
303	9
304	10
305	9
306	12
307	11
308	14
309	7
310	6
311	15
312	8
313	11
314	10
315	7
316	6
317	5
318	15
319	6
320	11
321	11
322	9
323	8
324	11
325	6
326	6
327	3
328	11
329	9
330	4
331	12
332	9
333	4
334	7
335	10
336	6
337	8
338	5
339	5
340	8
341	5
342	7
343	10
344	8
345	11
346	9
347	7
348	8
349	11
350	4
351	8
352	7
353	3
354	12
355	4
356	6
357	6
358	6
359	1
360	5
361	11
362	2
363	5
364	8
365	3
366	7
367	5
368	5
369	10
370	7
371	7
372	4
373	4
374	5
375	2
376	2
377	15
378	5
379	6
380	4
381	2
382	6
383	9
384	2
385	7
386	3
387	5
388	8
390	5
391	7
392	6
393	5
394	9
395	5
396	8
397	5
398	9
399	6
400	4
401	2
402	5
403	2
404	2
405	4
406	6
407	6
408	4
409	7
410	8
411	2
412	5
413	4
414	4
415	3
416	2
417	5
418	6
419	8
422	8
423	5
424	4
425	7
426	3
427	2
428	1
429	5
430	4
431	6
432	2
433	5
434	4
435	8
436	2
437	4
438	4
439	3
440	7
441	2
442	5
443	7
444	4
445	1
446	4
447	3
448	3
449	2
450	5
451	2
452	1
453	4
454	4
455	4
456	7
457	3
458	4
459	2
460	5
461	3
462	6
463	3
464	6
465	2
466	3
467	2
468	3
469	4
470	4
471	2
472	2
473	2
474	3
475	4
476	2
477	3
478	4
480	5
481	9
482	6
483	4
484	1
485	1
486	2
487	5
488	3
489	2
490	5
491	4
492	2
493	3
494	3
495	2
496	5
497	3
498	3
499	5
500	7
501	5
502	3
503	3
504	3
505	1
506	3
507	3
508	3
509	2
510	3
511	2
512	3
513	2
514	3
515	1
516	3
517	1
518	3
519	4
520	1
521	1
522	3
523	1
524	2
525	1
526	3
527	2
528	5
529	1
530	2
531	1
532	2
533	1
534	2
535	1
536	4
537	4
538	4
539	1
540	2
541	7
542	3
543	3
544	5
545	1
546	5
547	4
548	6
549	1
550	2
551	3
552	2
553	1
554	2
555	1
556	2
559	2
560	2
561	1
562	1
563	3
564	2
565	3
566	3
567	3
568	2
569	1
570	2
571	3
572	1
573	2
574	3
576	3
577	1
578	1
579	1
580	2
581	2
582	1
583	1
584	2
585	3
586	1
587	2
588	2
589	4
590	1
591	2
592	1
593	4
594	1
595	1
597	1
600	2
601	1
603	2
604	2
606	3
607	2
609	1
610	1
611	1
612	4
613	1
615	1
616	4
617	1
619	2
620	1
621	2
623	1
625	2
628	4
631	2
632	2
633	1
634	2
635	1
636	2
639	1
640	1
641	3
642	2
644	1
645	1
646	2
647	2
648	3
649	1
650	6
651	2
654	1
655	4
656	2
657	1
658	4
660	2
661	2
663	1
664	1
665	1
668	1
669	1
671	1
672	1
673	3
674	1
675	4
676	1
677	1
678	1
679	1
680	1
681	3
682	2
684	1
685	2
687	2
688	3
691	3
692	2
693	1
694	2
695	1
696	1
697	1
698	1
699	2
701	1
703	2
704	1
705	3
706	2
707	2
708	2
709	2
710	2
711	3
712	1
713	1
715	2
716	1
718	1
719	1
721	1
722	1
725	1
726	1
728	2
730	2
731	2
732	1
733	1
734	2
738	1
740	2
741	1
743	1
744	1
745	1
747	1
749	2
751	2
752	2
754	2
755	3
758	1
760	2
762	1
764	2
766	2
767	1
770	2
771	1
772	1
773	1
775	2
776	2
778	1
779	2
781	1
782	1
783	1
785	4
786	2
791	1
792	1
795	1
800	2
804	1
805	3
807	2
808	1
810	1
813	1
822	1
826	2
827	1
832	1
833	3
838	1
842	1
846	1
848	1
853	1
855	1
861	1
863	3
864	3
868	1
869	1
874	1
876	1
878	1
888	3
890	2
897	1
900	1
905	1
908	1
910	1
914	1
915	2
917	1
918	1
922	2
924	2
928	1
929	1
936	2
939	1
940	1
943	1
949	1
954	1
955	2
956	1
961	2
962	1
963	2
965	1
966	1
970	1
972	1
977	1
978	1
983	2
986	1
992	2
994	1
997	1
999	1
1001	2
1004	1
1007	1
1010	1
1011	1
1012	1
1013	1
1017	1
1024	1
1029	1
1041	1
1042	1
1046	1
1052	2
1055	1
1062	1
1067	1
1069	1
1074	2
1076	1
1078	1
1081	1
1082	1
1083	1
1085	1
1086	1
1095	1
1101	2
1103	1
1109	2
1125	1
1130	1
1136	1
1140	2
1146	1
1151	1
1157	1
1171	1
1173	1
1180	2
1207	1
1212	1
1225	1
1233	1
1240	1
1241	1
1243	1
1247	1
1248	2
1252	1
1255	1
1281	1
1285	1
1290	1
1304	1
1310	1
1319	1
1320	1
1330	1
1336	1
1369	1
1385	1
1387	1
1392	1
1394	1
1399	1
1400	1
1413	1
1433	1
1448	1
1452	1
1495	1
1497	1
1527	1
1543	2
1546	1
1551	1
1572	2
1609	1
1612	1
1642	1
1656	1
1664	1
1687	1
1689	1
1711	1
1722	1
1740	1
1808	1
1809	1
1845	1
1856	1
1892	1
1912	1
1943	1
2016	1
2297	1
2381	1
2472	1
2644	1
2647	1
2743	1
2959	1
3200	1
3564	1
4004	1
4313	1
5249	1
7598	1
17632	1
445446	1

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