2021-05-21 16:28:02 [INFO] Starting.
2021-05-21 16:28:02 [INFO] Processing SRP050102
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764959
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764959-SRR1658598
2021-05-21 16:28:02 [INFO] SRR1658598 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764939
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764939-SRR1658573
2021-05-21 16:28:02 [INFO] SRR1658573 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764958
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764958-SRR1658596
2021-05-21 16:28:02 [INFO] SRR1658596 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764958-SRR1658597
2021-05-21 16:28:02 [INFO] SRR1658597 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764940
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764940-SRR1658574
2021-05-21 16:28:02 [INFO] SRR1658574 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764940-SRR1658576
2021-05-21 16:28:02 [INFO] SRR1658576 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764940-SRR1658575
2021-05-21 16:28:02 [INFO] SRR1658575 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764946
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764946-SRR1658582
2021-05-21 16:28:02 [INFO] SRR1658582 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764950
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764950-SRR1658587
2021-05-21 16:28:02 [INFO] SRR1658587 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764936
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764936-SRR1658570
2021-05-21 16:28:02 [INFO] SRR1658570 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764952
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764952-SRR1658589
2021-05-21 16:28:02 [INFO] SRR1658589 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764949
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764949-SRR1658586
2021-05-21 16:28:02 [INFO] SRR1658586 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764949-SRR1658585
2021-05-21 16:28:02 [INFO] SRR1658585 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764957
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764957-SRR1658594
2021-05-21 16:28:02 [INFO] SRR1658594 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764957-SRR1658595
2021-05-21 16:28:02 [INFO] SRR1658595 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764948
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764948-SRR1658584
2021-05-21 16:28:02 [INFO] SRR1658584 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764945
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764945-SRR1658581
2021-05-21 16:28:02 [INFO] SRR1658581 is still running. Skipping.
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764960
2021-05-21 16:28:02 [INFO] Processing SRP050102-SRX764960-SRR1658599
2021-05-21 16:28:02 [INFO] Building 10Kbp network for SRR1658599
2021-05-21 16:58:55 [INFO] Processing SRP050102-SRX764943
2021-05-21 16:58:55 [INFO] Processing SRP050102-SRX764943-SRR1658579
2021-05-21 16:58:55 [INFO] SRR1658579 is still running. Skipping.
2021-05-21 16:58:55 [INFO] Processing SRP050102-SRX764953
2021-05-21 16:58:55 [INFO] Processing SRP050102-SRX764953-SRR1658590
2021-05-21 16:58:55 [INFO] SRR1658590 is still running. Skipping.
2021-05-21 16:58:55 [INFO] Processing SRP050102-SRX764944
2021-05-21 16:58:55 [INFO] Processing SRP050102-SRX764944-SRR1658580
2021-05-21 16:58:55 [INFO] SRR1658580 is still running. Skipping.
2021-05-21 16:58:55 [INFO] Processing SRP050102-SRX764951
2021-05-21 16:58:55 [INFO] Processing SRP050102-SRX764951-SRR1658588
2021-05-21 16:58:55 [INFO] SRR1658588 is still running. Skipping.
2021-05-21 16:58:55 [INFO] Processing SRP050102-SRX764938
2021-05-21 16:58:55 [INFO] Processing SRP050102-SRX764938-SRR1658572
2021-05-21 16:58:55 [INFO] Building 10Kbp network for SRR1658572
2021-05-21 17:33:07 [INFO] Processing SRP050102-SRX764961
2021-05-21 17:33:07 [INFO] Processing SRP050102-SRX764961-SRR1658600
2021-05-21 17:33:07 [INFO] Building 10Kbp network for SRR1658600
2021-05-21 18:13:29 [INFO] Processing SRP050102-SRX764937
2021-05-21 18:13:30 [INFO] Processing SRP050102-SRX764937-SRR1658571
2021-05-21 18:13:30 [INFO] Building 10Kbp network for SRR1658571
2021-05-21 18:13:30 [WARNING] SRR1658571: bin_aggregate.py returned stderr.
stderr -->
Traceback (most recent call last):
File "/grid/gillis/data/nfox/hi_c_data_processing/software/bin_aggregate.py", line 171, in <module>
main(args.regions, args.datafolder, args.delim,
File "/grid/gillis/data/nfox/hi_c_data_processing/software/bin_aggregate.py", line 82, in main
regions = generate_regions(int(regions), datafolder)
File "/grid/gillis/data/nfox/hi_c_data_processing/software/bin_aggregate.py", line 44, in generate_regions
return(pd.concat(chrom_regions, ignore_index=True))
File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/pandas/core/reshape/concat.py", line 274, in concat
op = _Concatenator(
File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/pandas/core/reshape/concat.py", line 331, in __init__
raise ValueError("No objects to concatenate")
ValueError: No objects to concatenate

<-- stderr
2021-05-21 18:13:30 [INFO] Processing SRP050102-SRX764964
2021-05-21 18:13:30 [INFO] Processing SRP050102-SRX764964-SRR1658603
2021-05-21 18:13:30 [INFO] SRR1658603 is still running. Skipping.
2021-05-21 18:13:30 [INFO] Processing SRP050102-SRX764963
2021-05-21 18:13:30 [INFO] Processing SRP050102-SRX764963-SRR1658602
2021-05-21 18:13:30 [INFO] SRR1658602 is still running. Skipping.
2021-05-21 18:13:30 [INFO] Processing SRP050102-SRX764947
2021-05-21 18:13:30 [INFO] Processing SRP050102-SRX764947-SRR1658583
2021-05-21 18:13:30 [INFO] SRR1658583 is still running. Skipping.
2021-05-21 18:13:30 [INFO] Processing SRP050102-SRX764962
2021-05-21 18:13:30 [INFO] Processing SRP050102-SRX764962-SRR1658601
2021-05-21 18:13:30 [INFO] Building 10Kbp network for SRR1658601
2021-05-21 18:51:50 [INFO] Processing SRP050102-SRX764955
2021-05-21 18:51:50 [INFO] Processing SRP050102-SRX764955-SRR1658592
2021-05-21 18:51:50 [INFO] Building 10Kbp network for SRR1658592
2021-05-21 19:25:47 [INFO] Processing SRP050102-SRX764954
2021-05-21 19:25:47 [INFO] Processing SRP050102-SRX764954-SRR1658591
2021-05-21 19:25:47 [INFO] SRR1658591 is still running. Skipping.
2021-05-21 19:25:47 [INFO] Processing SRP050102-SRX764941
2021-05-21 19:25:47 [INFO] Processing SRP050102-SRX764941-SRR1658577
2021-05-21 19:25:47 [INFO] SRR1658577 is still running. Skipping.
2021-05-21 19:25:47 [INFO] Processing SRP050102-SRX764956
2021-05-21 19:25:47 [INFO] Processing SRP050102-SRX764956-SRR1658593
2021-05-21 19:25:47 [INFO] SRR1658593 is still running. Skipping.
2021-05-21 19:25:47 [INFO] Processing SRP050102-SRX764942
2021-05-21 19:25:47 [INFO] Processing SRP050102-SRX764942-SRR1658578
2021-05-21 19:25:47 [INFO] SRR1658578 is still running. Skipping.
2021-05-21 19:25:47 [INFO] Finished.