Job ID = 6457244 SRX = SRX4579164 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:36:25 prefetch.2.10.7: 1) Downloading 'SRR7722307'... 2020-06-21T11:36:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:45:24 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:45:24 prefetch.2.10.7: 1) 'SRR7722307' was downloaded successfully 2020-06-21T11:45:24 prefetch.2.10.7: 'SRR7722307' has 0 unresolved dependencies Read 96164127 spots for SRR7722307/SRR7722307.sra Written 96164127 spots for SRR7722307/SRR7722307.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: 00:14:54 96164127 reads; of these: 96164127 (100.00%) were unpaired; of these: 52181039 (54.26%) aligned 0 times 37874265 (39.39%) aligned exactly 1 time 6108823 (6.35%) aligned >1 times 45.74% overall alignment rate Time searching: 00:14:54 Overall time: 00:14:54 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] 18829094 / 43983088 = 0.4281 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 21:12:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.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 21:12:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:12:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:12:53: 1000000 INFO @ Sun, 21 Jun 2020 21:12:58: 2000000 INFO @ Sun, 21 Jun 2020 21:13:03: 3000000 INFO @ Sun, 21 Jun 2020 21:13:08: 4000000 INFO @ Sun, 21 Jun 2020 21:13:14: 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 21:13:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.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 21:13:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:13:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:13:19: 6000000 INFO @ Sun, 21 Jun 2020 21:13:24: 1000000 INFO @ Sun, 21 Jun 2020 21:13:24: 7000000 INFO @ Sun, 21 Jun 2020 21:13:29: 2000000 INFO @ Sun, 21 Jun 2020 21:13:30: 8000000 INFO @ Sun, 21 Jun 2020 21:13:35: 3000000 INFO @ Sun, 21 Jun 2020 21:13:35: 9000000 INFO @ Sun, 21 Jun 2020 21:13:41: 10000000 INFO @ Sun, 21 Jun 2020 21:13:41: 4000000 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 21:13:47: 11000000 INFO @ Sun, 21 Jun 2020 21:13:47: 5000000 INFO @ Sun, 21 Jun 2020 21:13:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.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 21:13:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:13:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:13:52: 12000000 INFO @ Sun, 21 Jun 2020 21:13:53: 6000000 INFO @ Sun, 21 Jun 2020 21:13:55: 1000000 INFO @ Sun, 21 Jun 2020 21:13:58: 13000000 INFO @ Sun, 21 Jun 2020 21:13:59: 7000000 INFO @ Sun, 21 Jun 2020 21:14:02: 2000000 INFO @ Sun, 21 Jun 2020 21:14:04: 14000000 INFO @ Sun, 21 Jun 2020 21:14:05: 8000000 INFO @ Sun, 21 Jun 2020 21:14:09: 3000000 INFO @ Sun, 21 Jun 2020 21:14:10: 15000000 INFO @ Sun, 21 Jun 2020 21:14:10: 9000000 INFO @ Sun, 21 Jun 2020 21:14:15: 4000000 INFO @ Sun, 21 Jun 2020 21:14:15: 16000000 INFO @ Sun, 21 Jun 2020 21:14:16: 10000000 INFO @ Sun, 21 Jun 2020 21:14:21: 17000000 INFO @ Sun, 21 Jun 2020 21:14:21: 5000000 INFO @ Sun, 21 Jun 2020 21:14:22: 11000000 INFO @ Sun, 21 Jun 2020 21:14:27: 18000000 INFO @ Sun, 21 Jun 2020 21:14:28: 6000000 INFO @ Sun, 21 Jun 2020 21:14:28: 12000000 INFO @ Sun, 21 Jun 2020 21:14:32: 19000000 INFO @ Sun, 21 Jun 2020 21:14:34: 13000000 INFO @ Sun, 21 Jun 2020 21:14:35: 7000000 INFO @ Sun, 21 Jun 2020 21:14:38: 20000000 INFO @ Sun, 21 Jun 2020 21:14:40: 14000000 INFO @ Sun, 21 Jun 2020 21:14:41: 8000000 INFO @ Sun, 21 Jun 2020 21:14:44: 21000000 INFO @ Sun, 21 Jun 2020 21:14:46: 15000000 INFO @ Sun, 21 Jun 2020 21:14:47: 9000000 INFO @ Sun, 21 Jun 2020 21:14:50: 22000000 INFO @ Sun, 21 Jun 2020 21:14:51: 16000000 INFO @ Sun, 21 Jun 2020 21:14:53: 10000000 INFO @ Sun, 21 Jun 2020 21:14:55: 23000000 INFO @ Sun, 21 Jun 2020 21:14:57: 17000000 INFO @ Sun, 21 Jun 2020 21:14:59: 11000000 INFO @ Sun, 21 Jun 2020 21:15:01: 24000000 INFO @ Sun, 21 Jun 2020 21:15:03: 18000000 INFO @ Sun, 21 Jun 2020 21:15:05: 12000000 INFO @ Sun, 21 Jun 2020 21:15:07: 25000000 INFO @ Sun, 21 Jun 2020 21:15:08: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:15:08: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:15:08: #1 total tags in treatment: 25153994 INFO @ Sun, 21 Jun 2020 21:15:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:15:08: #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 21:15:08: #1 tags after filtering in treatment: 25153913 INFO @ Sun, 21 Jun 2020 21:15:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:15:08: #1 finished! INFO @ Sun, 21 Jun 2020 21:15:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:15:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:15:08: 19000000 INFO @ Sun, 21 Jun 2020 21:15:10: 13000000 INFO @ Sun, 21 Jun 2020 21:15:11: #2 number of paired peaks: 9500 INFO @ Sun, 21 Jun 2020 21:15:11: start model_add_line... INFO @ Sun, 21 Jun 2020 21:15:11: start X-correlation... INFO @ Sun, 21 Jun 2020 21:15:11: end of X-cor INFO @ Sun, 21 Jun 2020 21:15:11: #2 finished! INFO @ Sun, 21 Jun 2020 21:15:11: #2 predicted fragment length is 239 bps INFO @ Sun, 21 Jun 2020 21:15:11: #2 alternative fragment length(s) may be 3,239,257 bps INFO @ Sun, 21 Jun 2020 21:15:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.05_model.r INFO @ Sun, 21 Jun 2020 21:15:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:15:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:15:14: 20000000 INFO @ Sun, 21 Jun 2020 21:15:16: 14000000 INFO @ Sun, 21 Jun 2020 21:15:19: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:15:22: 15000000 INFO @ Sun, 21 Jun 2020 21:15:26: 22000000 INFO @ Sun, 21 Jun 2020 21:15:28: 16000000 INFO @ Sun, 21 Jun 2020 21:15:31: 23000000 INFO @ Sun, 21 Jun 2020 21:15:34: 17000000 INFO @ Sun, 21 Jun 2020 21:15:37: 24000000 INFO @ Sun, 21 Jun 2020 21:15:40: 18000000 INFO @ Sun, 21 Jun 2020 21:15:43: 25000000 INFO @ Sun, 21 Jun 2020 21:15:44: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:15:44: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:15:44: #1 total tags in treatment: 25153994 INFO @ Sun, 21 Jun 2020 21:15:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:15:44: #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 21:15:45: #1 tags after filtering in treatment: 25153913 INFO @ Sun, 21 Jun 2020 21:15:45: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:15:45: #1 finished! INFO @ Sun, 21 Jun 2020 21:15:45: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:15:45: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:15:45: 19000000 INFO @ Sun, 21 Jun 2020 21:15:47: #2 number of paired peaks: 9500 INFO @ Sun, 21 Jun 2020 21:15:47: start model_add_line... INFO @ Sun, 21 Jun 2020 21:15:47: start X-correlation... INFO @ Sun, 21 Jun 2020 21:15:47: end of X-cor INFO @ Sun, 21 Jun 2020 21:15:47: #2 finished! INFO @ Sun, 21 Jun 2020 21:15:47: #2 predicted fragment length is 239 bps INFO @ Sun, 21 Jun 2020 21:15:47: #2 alternative fragment length(s) may be 3,239,257 bps INFO @ Sun, 21 Jun 2020 21:15:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.10_model.r INFO @ Sun, 21 Jun 2020 21:15:47: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:15:47: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:15:51: 20000000 INFO @ Sun, 21 Jun 2020 21:15:56: 21000000 INFO @ Sun, 21 Jun 2020 21:16:02: 22000000 INFO @ Sun, 21 Jun 2020 21:16:07: 23000000 INFO @ Sun, 21 Jun 2020 21:16:13: 24000000 INFO @ Sun, 21 Jun 2020 21:16:18: 25000000 INFO @ Sun, 21 Jun 2020 21:16:19: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:16:19: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:16:19: #1 total tags in treatment: 25153994 INFO @ Sun, 21 Jun 2020 21:16:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:16:19: #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 21:16:20: #1 tags after filtering in treatment: 25153913 INFO @ Sun, 21 Jun 2020 21:16:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:16:20: #1 finished! INFO @ Sun, 21 Jun 2020 21:16:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:16:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:16:22: #2 number of paired peaks: 9500 INFO @ Sun, 21 Jun 2020 21:16:22: start model_add_line... INFO @ Sun, 21 Jun 2020 21:16:22: start X-correlation... INFO @ Sun, 21 Jun 2020 21:16:22: end of X-cor INFO @ Sun, 21 Jun 2020 21:16:22: #2 finished! INFO @ Sun, 21 Jun 2020 21:16:22: #2 predicted fragment length is 239 bps INFO @ Sun, 21 Jun 2020 21:16:22: #2 alternative fragment length(s) may be 3,239,257 bps INFO @ Sun, 21 Jun 2020 21:16:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.20_model.r INFO @ Sun, 21 Jun 2020 21:16:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:16:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:16:23: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:16:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:16:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:16:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.05_summits.bed INFO @ Sun, 21 Jun 2020 21:16:48: Done! pass1 - making usageList (167 chroms): 2 millis pass2 - checking and writing primary data (10270 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:17:00: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:17:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:17:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:17:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.10_summits.bed INFO @ Sun, 21 Jun 2020 21:17:26: Done! pass1 - making usageList (136 chroms): 2 millis pass2 - checking and writing primary data (7808 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:17:34: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:17:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:17:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:17:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4579164/SRX4579164.20_summits.bed INFO @ Sun, 21 Jun 2020 21:17:58: Done! pass1 - making usageList (93 chroms): 2 millis pass2 - checking and writing primary data (4386 records, 4 fields): 8 millis CompletedMACS2peakCalling