Job ID = 6456747 SRX = SRX3981647 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:01:01 prefetch.2.10.7: 1) Downloading 'SRR7050325'... 2020-06-21T11:01:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:02:03 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:02:03 prefetch.2.10.7: 'SRR7050325' is valid 2020-06-21T11:02:03 prefetch.2.10.7: 1) 'SRR7050325' was downloaded successfully 2020-06-21T11:02:03 prefetch.2.10.7: 'SRR7050325' has 0 unresolved dependencies Read 13555808 spots for SRR7050325/SRR7050325.sra Written 13555808 spots for SRR7050325/SRR7050325.sra 2020-06-21T11:02:56 prefetch.2.10.7: 1) Downloading 'SRR7050326'... 2020-06-21T11:02:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:04:09 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:04:09 prefetch.2.10.7: 'SRR7050326' is valid 2020-06-21T11:04:09 prefetch.2.10.7: 1) 'SRR7050326' was downloaded successfully 2020-06-21T11:04:09 prefetch.2.10.7: 'SRR7050326' has 0 unresolved dependencies Read 13441102 spots for SRR7050326/SRR7050326.sra Written 13441102 spots for SRR7050326/SRR7050326.sra 2020-06-21T11:05:02 prefetch.2.10.7: 1) Downloading 'SRR7050327'... 2020-06-21T11:05:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:06:56 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:06:57 prefetch.2.10.7: 'SRR7050327' is valid 2020-06-21T11:06:57 prefetch.2.10.7: 1) 'SRR7050327' was downloaded successfully 2020-06-21T11:06:57 prefetch.2.10.7: 'SRR7050327' has 0 unresolved dependencies Read 13427000 spots for SRR7050327/SRR7050327.sra Written 13427000 spots for SRR7050327/SRR7050327.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: 00:09:23 40423910 reads; of these: 40423910 (100.00%) were unpaired; of these: 1081546 (2.68%) aligned 0 times 33822083 (83.67%) aligned exactly 1 time 5520281 (13.66%) aligned >1 times 97.32% overall alignment rate Time searching: 00:09:23 Overall time: 00:09:23 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] 9115499 / 39342364 = 0.2317 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 20:26:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.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 20:26:07: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:26:07: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:26:13: 1000000 INFO @ Sun, 21 Jun 2020 20:26:19: 2000000 INFO @ Sun, 21 Jun 2020 20:26:24: 3000000 INFO @ Sun, 21 Jun 2020 20:26:30: 4000000 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 20:26:36: 5000000 INFO @ Sun, 21 Jun 2020 20:26:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.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 20:26:37: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:26:37: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:26:42: 1000000 INFO @ Sun, 21 Jun 2020 20:26:42: 6000000 INFO @ Sun, 21 Jun 2020 20:26:48: 2000000 INFO @ Sun, 21 Jun 2020 20:26:49: 7000000 INFO @ Sun, 21 Jun 2020 20:26:53: 3000000 INFO @ Sun, 21 Jun 2020 20:26:55: 8000000 INFO @ Sun, 21 Jun 2020 20:26:58: 4000000 INFO @ Sun, 21 Jun 2020 20:27:02: 9000000 INFO @ Sun, 21 Jun 2020 20:27:03: 5000000 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 20:27:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.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 20:27:07: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:27:07: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:27:09: 10000000 INFO @ Sun, 21 Jun 2020 20:27:09: 6000000 INFO @ Sun, 21 Jun 2020 20:27:12: 1000000 INFO @ Sun, 21 Jun 2020 20:27:14: 7000000 INFO @ Sun, 21 Jun 2020 20:27:15: 11000000 INFO @ Sun, 21 Jun 2020 20:27:18: 2000000 INFO @ Sun, 21 Jun 2020 20:27:19: 8000000 INFO @ Sun, 21 Jun 2020 20:27:22: 12000000 INFO @ Sun, 21 Jun 2020 20:27:23: 3000000 INFO @ Sun, 21 Jun 2020 20:27:25: 9000000 INFO @ Sun, 21 Jun 2020 20:27:28: 13000000 INFO @ Sun, 21 Jun 2020 20:27:28: 4000000 INFO @ Sun, 21 Jun 2020 20:27:30: 10000000 INFO @ Sun, 21 Jun 2020 20:27:34: 5000000 INFO @ Sun, 21 Jun 2020 20:27:34: 14000000 INFO @ Sun, 21 Jun 2020 20:27:36: 11000000 INFO @ Sun, 21 Jun 2020 20:27:39: 6000000 INFO @ Sun, 21 Jun 2020 20:27:41: 15000000 INFO @ Sun, 21 Jun 2020 20:27:41: 12000000 INFO @ Sun, 21 Jun 2020 20:27:45: 7000000 INFO @ Sun, 21 Jun 2020 20:27:47: 13000000 INFO @ Sun, 21 Jun 2020 20:27:48: 16000000 INFO @ Sun, 21 Jun 2020 20:27:50: 8000000 INFO @ Sun, 21 Jun 2020 20:27:52: 14000000 INFO @ Sun, 21 Jun 2020 20:27:54: 17000000 INFO @ Sun, 21 Jun 2020 20:27:56: 9000000 INFO @ Sun, 21 Jun 2020 20:27:58: 15000000 INFO @ Sun, 21 Jun 2020 20:28:01: 18000000 INFO @ Sun, 21 Jun 2020 20:28:01: 10000000 INFO @ Sun, 21 Jun 2020 20:28:04: 16000000 INFO @ Sun, 21 Jun 2020 20:28:06: 11000000 INFO @ Sun, 21 Jun 2020 20:28:07: 19000000 INFO @ Sun, 21 Jun 2020 20:28:09: 17000000 INFO @ Sun, 21 Jun 2020 20:28:12: 12000000 INFO @ Sun, 21 Jun 2020 20:28:14: 20000000 INFO @ Sun, 21 Jun 2020 20:28:15: 18000000 INFO @ Sun, 21 Jun 2020 20:28:17: 13000000 INFO @ Sun, 21 Jun 2020 20:28:20: 21000000 INFO @ Sun, 21 Jun 2020 20:28:21: 19000000 INFO @ Sun, 21 Jun 2020 20:28:22: 14000000 INFO @ Sun, 21 Jun 2020 20:28:27: 20000000 INFO @ Sun, 21 Jun 2020 20:28:27: 22000000 INFO @ Sun, 21 Jun 2020 20:28:28: 15000000 INFO @ Sun, 21 Jun 2020 20:28:33: 21000000 INFO @ Sun, 21 Jun 2020 20:28:33: 16000000 INFO @ Sun, 21 Jun 2020 20:28:34: 23000000 INFO @ Sun, 21 Jun 2020 20:28:38: 22000000 INFO @ Sun, 21 Jun 2020 20:28:39: 17000000 INFO @ Sun, 21 Jun 2020 20:28:40: 24000000 INFO @ Sun, 21 Jun 2020 20:28:44: 23000000 INFO @ Sun, 21 Jun 2020 20:28:44: 18000000 INFO @ Sun, 21 Jun 2020 20:28:47: 25000000 INFO @ Sun, 21 Jun 2020 20:28:50: 19000000 INFO @ Sun, 21 Jun 2020 20:28:50: 24000000 INFO @ Sun, 21 Jun 2020 20:28:53: 26000000 INFO @ Sun, 21 Jun 2020 20:28:55: 20000000 INFO @ Sun, 21 Jun 2020 20:28:55: 25000000 INFO @ Sun, 21 Jun 2020 20:29:00: 27000000 INFO @ Sun, 21 Jun 2020 20:29:01: 21000000 INFO @ Sun, 21 Jun 2020 20:29:01: 26000000 INFO @ Sun, 21 Jun 2020 20:29:06: 22000000 INFO @ Sun, 21 Jun 2020 20:29:07: 28000000 INFO @ Sun, 21 Jun 2020 20:29:08: 27000000 INFO @ Sun, 21 Jun 2020 20:29:11: 23000000 INFO @ Sun, 21 Jun 2020 20:29:13: 28000000 INFO @ Sun, 21 Jun 2020 20:29:14: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:29:17: 24000000 INFO @ Sun, 21 Jun 2020 20:29:19: 29000000 INFO @ Sun, 21 Jun 2020 20:29:20: 30000000 INFO @ Sun, 21 Jun 2020 20:29:22: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:29:22: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:29:22: #1 total tags in treatment: 30226865 INFO @ Sun, 21 Jun 2020 20:29:22: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:29:22: #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 20:29:23: 25000000 INFO @ Sun, 21 Jun 2020 20:29:23: #1 tags after filtering in treatment: 30226798 INFO @ Sun, 21 Jun 2020 20:29:23: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:29:23: #1 finished! INFO @ Sun, 21 Jun 2020 20:29:23: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:29:23: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:29:25: #2 number of paired peaks: 1618 INFO @ Sun, 21 Jun 2020 20:29:25: start model_add_line... INFO @ Sun, 21 Jun 2020 20:29:25: 30000000 INFO @ Sun, 21 Jun 2020 20:29:25: start X-correlation... INFO @ Sun, 21 Jun 2020 20:29:25: end of X-cor INFO @ Sun, 21 Jun 2020 20:29:25: #2 finished! INFO @ Sun, 21 Jun 2020 20:29:25: #2 predicted fragment length is 120 bps INFO @ Sun, 21 Jun 2020 20:29:25: #2 alternative fragment length(s) may be 2,90,104,120 bps INFO @ Sun, 21 Jun 2020 20:29:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.05_model.r INFO @ Sun, 21 Jun 2020 20:29:25: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:29:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:29:27: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:29:27: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:29:27: #1 total tags in treatment: 30226865 INFO @ Sun, 21 Jun 2020 20:29:27: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:29:27: #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 20:29:28: #1 tags after filtering in treatment: 30226798 INFO @ Sun, 21 Jun 2020 20:29:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:29:28: #1 finished! INFO @ Sun, 21 Jun 2020 20:29:28: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:29:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:29:28: 26000000 INFO @ Sun, 21 Jun 2020 20:29:30: #2 number of paired peaks: 1618 INFO @ Sun, 21 Jun 2020 20:29:30: start model_add_line... INFO @ Sun, 21 Jun 2020 20:29:30: start X-correlation... INFO @ Sun, 21 Jun 2020 20:29:30: end of X-cor INFO @ Sun, 21 Jun 2020 20:29:30: #2 finished! INFO @ Sun, 21 Jun 2020 20:29:30: #2 predicted fragment length is 120 bps INFO @ Sun, 21 Jun 2020 20:29:30: #2 alternative fragment length(s) may be 2,90,104,120 bps INFO @ Sun, 21 Jun 2020 20:29:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.10_model.r INFO @ Sun, 21 Jun 2020 20:29:30: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:29:30: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:29:34: 27000000 INFO @ Sun, 21 Jun 2020 20:29:39: 28000000 INFO @ Sun, 21 Jun 2020 20:29:45: 29000000 INFO @ Sun, 21 Jun 2020 20:29:50: 30000000 INFO @ Sun, 21 Jun 2020 20:29:52: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:29:52: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:29:52: #1 total tags in treatment: 30226865 INFO @ Sun, 21 Jun 2020 20:29:52: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:29:52: #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 20:29:52: #1 tags after filtering in treatment: 30226798 INFO @ Sun, 21 Jun 2020 20:29:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:29:52: #1 finished! INFO @ Sun, 21 Jun 2020 20:29:52: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:29:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:29:54: #2 number of paired peaks: 1618 INFO @ Sun, 21 Jun 2020 20:29:54: start model_add_line... INFO @ Sun, 21 Jun 2020 20:29:55: start X-correlation... INFO @ Sun, 21 Jun 2020 20:29:55: end of X-cor INFO @ Sun, 21 Jun 2020 20:29:55: #2 finished! INFO @ Sun, 21 Jun 2020 20:29:55: #2 predicted fragment length is 120 bps INFO @ Sun, 21 Jun 2020 20:29:55: #2 alternative fragment length(s) may be 2,90,104,120 bps INFO @ Sun, 21 Jun 2020 20:29:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.20_model.r INFO @ Sun, 21 Jun 2020 20:29:55: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:29:55: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:30:32: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:30:36: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:31:00: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:31:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:31:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:31:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.05_summits.bed INFO @ Sun, 21 Jun 2020 20:31:02: Done! pass1 - making usageList (172 chroms): 2 millis pass2 - checking and writing primary data (12014 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:31:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:31:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:31:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.10_summits.bed INFO @ Sun, 21 Jun 2020 20:31:07: Done! pass1 - making usageList (129 chroms): 1 millis pass2 - checking and writing primary data (5298 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:31:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:31:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:31:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981647/SRX3981647.20_summits.bed INFO @ Sun, 21 Jun 2020 20:31:30: Done! pass1 - making usageList (77 chroms): 1 millis pass2 - checking and writing primary data (1186 records, 4 fields): 6 millis CompletedMACS2peakCalling