Job ID = 6454263 SRX = SRX193336 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:55:34 prefetch.2.10.7: 1) Downloading 'SRR585069'... 2020-06-21T08:55:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:01:21 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:01:21 prefetch.2.10.7: 1) 'SRR585069' was downloaded successfully Read 48356671 spots for SRR585069/SRR585069.sra Written 48356671 spots for SRR585069/SRR585069.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:13:06 48356671 reads; of these: 48356671 (100.00%) were unpaired; of these: 1715363 (3.55%) aligned 0 times 39369325 (81.41%) aligned exactly 1 time 7271983 (15.04%) aligned >1 times 96.45% overall alignment rate Time searching: 00:13:06 Overall time: 00:13:06 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 14159082 / 46641308 = 0.3036 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sun, 21 Jun 2020 18:27:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sun, 21 Jun 2020 18:27:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:27:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:27:36: 1000000 INFO @ Sun, 21 Jun 2020 18:27:41: 2000000 INFO @ Sun, 21 Jun 2020 18:27:47: 3000000 INFO @ Sun, 21 Jun 2020 18:27:52: 4000000 INFO @ Sun, 21 Jun 2020 18:27:58: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sun, 21 Jun 2020 18:28:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sun, 21 Jun 2020 18:28:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:28:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:28:04: 6000000 INFO @ Sun, 21 Jun 2020 18:28:08: 1000000 INFO @ Sun, 21 Jun 2020 18:28:11: 7000000 INFO @ Sun, 21 Jun 2020 18:28:15: 2000000 INFO @ Sun, 21 Jun 2020 18:28:18: 8000000 INFO @ Sun, 21 Jun 2020 18:28:23: 3000000 INFO @ Sun, 21 Jun 2020 18:28:24: 9000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sun, 21 Jun 2020 18:28:30: 4000000 INFO @ Sun, 21 Jun 2020 18:28:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sun, 21 Jun 2020 18:28:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:28:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:28:31: 10000000 INFO @ Sun, 21 Jun 2020 18:28:37: 5000000 INFO @ Sun, 21 Jun 2020 18:28:38: 1000000 INFO @ Sun, 21 Jun 2020 18:28:38: 11000000 INFO @ Sun, 21 Jun 2020 18:28:45: 2000000 INFO @ Sun, 21 Jun 2020 18:28:45: 6000000 INFO @ Sun, 21 Jun 2020 18:28:45: 12000000 INFO @ Sun, 21 Jun 2020 18:28:52: 3000000 INFO @ Sun, 21 Jun 2020 18:28:52: 13000000 INFO @ Sun, 21 Jun 2020 18:28:52: 7000000 INFO @ Sun, 21 Jun 2020 18:28:59: 4000000 INFO @ Sun, 21 Jun 2020 18:28:59: 14000000 INFO @ Sun, 21 Jun 2020 18:29:00: 8000000 INFO @ Sun, 21 Jun 2020 18:29:06: 5000000 INFO @ Sun, 21 Jun 2020 18:29:06: 15000000 INFO @ Sun, 21 Jun 2020 18:29:07: 9000000 INFO @ Sun, 21 Jun 2020 18:29:13: 16000000 INFO @ Sun, 21 Jun 2020 18:29:13: 6000000 INFO @ Sun, 21 Jun 2020 18:29:15: 10000000 INFO @ Sun, 21 Jun 2020 18:29:20: 17000000 INFO @ Sun, 21 Jun 2020 18:29:20: 7000000 INFO @ Sun, 21 Jun 2020 18:29:22: 11000000 INFO @ Sun, 21 Jun 2020 18:29:27: 18000000 INFO @ Sun, 21 Jun 2020 18:29:27: 8000000 INFO @ Sun, 21 Jun 2020 18:29:30: 12000000 INFO @ Sun, 21 Jun 2020 18:29:34: 9000000 INFO @ Sun, 21 Jun 2020 18:29:34: 19000000 INFO @ Sun, 21 Jun 2020 18:29:37: 13000000 INFO @ Sun, 21 Jun 2020 18:29:41: 10000000 INFO @ Sun, 21 Jun 2020 18:29:41: 20000000 INFO @ Sun, 21 Jun 2020 18:29:44: 14000000 INFO @ Sun, 21 Jun 2020 18:29:48: 11000000 INFO @ Sun, 21 Jun 2020 18:29:48: 21000000 INFO @ Sun, 21 Jun 2020 18:29:51: 15000000 INFO @ Sun, 21 Jun 2020 18:29:55: 12000000 INFO @ Sun, 21 Jun 2020 18:29:55: 22000000 INFO @ Sun, 21 Jun 2020 18:29:59: 16000000 INFO @ Sun, 21 Jun 2020 18:30:02: 13000000 INFO @ Sun, 21 Jun 2020 18:30:02: 23000000 INFO @ Sun, 21 Jun 2020 18:30:06: 17000000 INFO @ Sun, 21 Jun 2020 18:30:09: 14000000 INFO @ Sun, 21 Jun 2020 18:30:09: 24000000 INFO @ Sun, 21 Jun 2020 18:30:14: 18000000 INFO @ Sun, 21 Jun 2020 18:30:16: 15000000 INFO @ Sun, 21 Jun 2020 18:30:16: 25000000 INFO @ Sun, 21 Jun 2020 18:30:21: 19000000 INFO @ Sun, 21 Jun 2020 18:30:23: 16000000 INFO @ Sun, 21 Jun 2020 18:30:23: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:30:28: 20000000 INFO @ Sun, 21 Jun 2020 18:30:30: 17000000 INFO @ Sun, 21 Jun 2020 18:30:30: 27000000 INFO @ Sun, 21 Jun 2020 18:30:36: 21000000 INFO @ Sun, 21 Jun 2020 18:30:36: 18000000 INFO @ Sun, 21 Jun 2020 18:30:38: 28000000 INFO @ Sun, 21 Jun 2020 18:30:43: 22000000 INFO @ Sun, 21 Jun 2020 18:30:43: 19000000 INFO @ Sun, 21 Jun 2020 18:30:45: 29000000 INFO @ Sun, 21 Jun 2020 18:30:50: 20000000 INFO @ Sun, 21 Jun 2020 18:30:51: 23000000 INFO @ Sun, 21 Jun 2020 18:30:52: 30000000 INFO @ Sun, 21 Jun 2020 18:30:57: 21000000 INFO @ Sun, 21 Jun 2020 18:30:58: 24000000 INFO @ Sun, 21 Jun 2020 18:30:59: 31000000 INFO @ Sun, 21 Jun 2020 18:31:04: 22000000 INFO @ Sun, 21 Jun 2020 18:31:06: 25000000 INFO @ Sun, 21 Jun 2020 18:31:06: 32000000 INFO @ Sun, 21 Jun 2020 18:31:09: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:31:09: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:31:09: #1 total tags in treatment: 32482226 INFO @ Sun, 21 Jun 2020 18:31:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:31:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:31:10: #1 tags after filtering in treatment: 32482111 INFO @ Sun, 21 Jun 2020 18:31:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:31:10: #1 finished! INFO @ Sun, 21 Jun 2020 18:31:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:31:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:31:11: 23000000 INFO @ Sun, 21 Jun 2020 18:31:13: #2 number of paired peaks: 2259 INFO @ Sun, 21 Jun 2020 18:31:13: start model_add_line... INFO @ Sun, 21 Jun 2020 18:31:13: start X-correlation... INFO @ Sun, 21 Jun 2020 18:31:13: end of X-cor INFO @ Sun, 21 Jun 2020 18:31:13: #2 finished! INFO @ Sun, 21 Jun 2020 18:31:13: #2 predicted fragment length is 120 bps INFO @ Sun, 21 Jun 2020 18:31:13: #2 alternative fragment length(s) may be 2,99,120 bps INFO @ Sun, 21 Jun 2020 18:31:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.05_model.r INFO @ Sun, 21 Jun 2020 18:31:13: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:31:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:31:13: 26000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:31:18: 24000000 INFO @ Sun, 21 Jun 2020 18:31:21: 27000000 INFO @ Sun, 21 Jun 2020 18:31:25: 25000000 INFO @ Sun, 21 Jun 2020 18:31:28: 28000000 INFO @ Sun, 21 Jun 2020 18:31:31: 26000000 INFO @ Sun, 21 Jun 2020 18:31:36: 29000000 INFO @ Sun, 21 Jun 2020 18:31:38: 27000000 INFO @ Sun, 21 Jun 2020 18:31:43: 30000000 INFO @ Sun, 21 Jun 2020 18:31:46: 28000000 INFO @ Sun, 21 Jun 2020 18:31:51: 31000000 INFO @ Sun, 21 Jun 2020 18:31:53: 29000000 INFO @ Sun, 21 Jun 2020 18:31:59: 32000000 INFO @ Sun, 21 Jun 2020 18:31:59: 30000000 INFO @ Sun, 21 Jun 2020 18:32:03: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:32:03: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:32:03: #1 total tags in treatment: 32482226 INFO @ Sun, 21 Jun 2020 18:32:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:32:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:32:04: #1 tags after filtering in treatment: 32482111 INFO @ Sun, 21 Jun 2020 18:32:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:32:04: #1 finished! INFO @ Sun, 21 Jun 2020 18:32:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:32:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:32:06: 31000000 INFO @ Sun, 21 Jun 2020 18:32:06: #2 number of paired peaks: 2259 INFO @ Sun, 21 Jun 2020 18:32:06: start model_add_line... INFO @ Sun, 21 Jun 2020 18:32:06: start X-correlation... INFO @ Sun, 21 Jun 2020 18:32:06: end of X-cor INFO @ Sun, 21 Jun 2020 18:32:06: #2 finished! INFO @ Sun, 21 Jun 2020 18:32:06: #2 predicted fragment length is 120 bps INFO @ Sun, 21 Jun 2020 18:32:06: #2 alternative fragment length(s) may be 2,99,120 bps INFO @ Sun, 21 Jun 2020 18:32:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.10_model.r INFO @ Sun, 21 Jun 2020 18:32:06: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:32:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:32:12: 32000000 INFO @ Sun, 21 Jun 2020 18:32:15: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:32:15: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:32:15: #1 total tags in treatment: 32482226 INFO @ Sun, 21 Jun 2020 18:32:15: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:32:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:32:15: #1 tags after filtering in treatment: 32482111 INFO @ Sun, 21 Jun 2020 18:32:15: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:32:15: #1 finished! INFO @ Sun, 21 Jun 2020 18:32:15: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:32:15: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:32:18: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:32:18: #2 number of paired peaks: 2259 INFO @ Sun, 21 Jun 2020 18:32:18: start model_add_line... INFO @ Sun, 21 Jun 2020 18:32:18: start X-correlation... INFO @ Sun, 21 Jun 2020 18:32:18: end of X-cor INFO @ Sun, 21 Jun 2020 18:32:18: #2 finished! INFO @ Sun, 21 Jun 2020 18:32:18: #2 predicted fragment length is 120 bps INFO @ Sun, 21 Jun 2020 18:32:18: #2 alternative fragment length(s) may be 2,99,120 bps INFO @ Sun, 21 Jun 2020 18:32:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.20_model.r INFO @ Sun, 21 Jun 2020 18:32:18: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:32:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:32:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:32:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:32:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.05_summits.bed INFO @ Sun, 21 Jun 2020 18:32:49: Done! pass1 - making usageList (171 chroms): 4 millis pass2 - checking and writing primary data (18233 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:33:15: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:33:26: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:33:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:33:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:33:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.10_summits.bed INFO @ Sun, 21 Jun 2020 18:33:48: Done! pass1 - making usageList (143 chroms): 3 millis pass2 - checking and writing primary data (12092 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:33:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:33:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:33:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193336/SRX193336.20_summits.bed INFO @ Sun, 21 Jun 2020 18:33:59: Done! pass1 - making usageList (115 chroms): 2 millis pass2 - checking and writing primary data (4953 records, 4 fields): 39 millis CompletedMACS2peakCalling