Job ID = 6457513 SRX = SRX4664664 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:38:55 prefetch.2.10.7: 1) Downloading 'SRR7813091'... 2020-06-21T11:38:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:44:56 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:44:56 prefetch.2.10.7: 1) 'SRR7813091' was downloaded successfully Read 38279615 spots for SRR7813091/SRR7813091.sra Written 38279615 spots for SRR7813091/SRR7813091.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: 00:11:01 38279615 reads; of these: 38279615 (100.00%) were unpaired; of these: 1476601 (3.86%) aligned 0 times 25721897 (67.19%) aligned exactly 1 time 11081117 (28.95%) aligned >1 times 96.14% overall alignment rate Time searching: 00:11:01 Overall time: 00:11:01 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 16 files... [bam_rmdupse_core] 11147304 / 36803014 = 0.3029 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 21:06:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.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 21:06:55: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:06:55: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:07:00: 1000000 INFO @ Sun, 21 Jun 2020 21:07:05: 2000000 INFO @ Sun, 21 Jun 2020 21:07:11: 3000000 INFO @ Sun, 21 Jun 2020 21:07:16: 4000000 INFO @ Sun, 21 Jun 2020 21:07:21: 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 21:07:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.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 21:07:25: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:07:25: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:07:27: 6000000 INFO @ Sun, 21 Jun 2020 21:07:30: 1000000 INFO @ Sun, 21 Jun 2020 21:07:32: 7000000 INFO @ Sun, 21 Jun 2020 21:07:36: 2000000 INFO @ Sun, 21 Jun 2020 21:07:38: 8000000 INFO @ Sun, 21 Jun 2020 21:07:42: 3000000 INFO @ Sun, 21 Jun 2020 21:07:43: 9000000 INFO @ Sun, 21 Jun 2020 21:07:47: 4000000 INFO @ Sun, 21 Jun 2020 21:07:49: 10000000 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 21:07:53: 5000000 INFO @ Sun, 21 Jun 2020 21:07:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.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 21:07:55: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:07:55: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:07:55: 11000000 INFO @ Sun, 21 Jun 2020 21:07:59: 6000000 INFO @ Sun, 21 Jun 2020 21:08:01: 1000000 INFO @ Sun, 21 Jun 2020 21:08:01: 12000000 INFO @ Sun, 21 Jun 2020 21:08:05: 7000000 INFO @ Sun, 21 Jun 2020 21:08:07: 2000000 INFO @ Sun, 21 Jun 2020 21:08:07: 13000000 INFO @ Sun, 21 Jun 2020 21:08:12: 8000000 INFO @ Sun, 21 Jun 2020 21:08:13: 3000000 INFO @ Sun, 21 Jun 2020 21:08:14: 14000000 INFO @ Sun, 21 Jun 2020 21:08:18: 9000000 INFO @ Sun, 21 Jun 2020 21:08:20: 4000000 INFO @ Sun, 21 Jun 2020 21:08:20: 15000000 INFO @ Sun, 21 Jun 2020 21:08:24: 10000000 INFO @ Sun, 21 Jun 2020 21:08:26: 5000000 INFO @ Sun, 21 Jun 2020 21:08:27: 16000000 INFO @ Sun, 21 Jun 2020 21:08:31: 11000000 INFO @ Sun, 21 Jun 2020 21:08:32: 6000000 INFO @ Sun, 21 Jun 2020 21:08:33: 17000000 INFO @ Sun, 21 Jun 2020 21:08:37: 12000000 INFO @ Sun, 21 Jun 2020 21:08:38: 7000000 INFO @ Sun, 21 Jun 2020 21:08:40: 18000000 INFO @ Sun, 21 Jun 2020 21:08:43: 13000000 INFO @ Sun, 21 Jun 2020 21:08:45: 8000000 INFO @ Sun, 21 Jun 2020 21:08:46: 19000000 INFO @ Sun, 21 Jun 2020 21:08:50: 14000000 INFO @ Sun, 21 Jun 2020 21:08:51: 9000000 INFO @ Sun, 21 Jun 2020 21:08:52: 20000000 INFO @ Sun, 21 Jun 2020 21:08:56: 15000000 INFO @ Sun, 21 Jun 2020 21:08:57: 10000000 INFO @ Sun, 21 Jun 2020 21:08:59: 21000000 INFO @ Sun, 21 Jun 2020 21:09:03: 16000000 INFO @ Sun, 21 Jun 2020 21:09:04: 11000000 INFO @ Sun, 21 Jun 2020 21:09:06: 22000000 INFO @ Sun, 21 Jun 2020 21:09:09: 17000000 INFO @ Sun, 21 Jun 2020 21:09:10: 12000000 INFO @ Sun, 21 Jun 2020 21:09:13: 23000000 INFO @ Sun, 21 Jun 2020 21:09:15: 18000000 INFO @ Sun, 21 Jun 2020 21:09:16: 13000000 INFO @ Sun, 21 Jun 2020 21:09:19: 24000000 INFO @ Sun, 21 Jun 2020 21:09:22: 19000000 INFO @ Sun, 21 Jun 2020 21:09:23: 14000000 INFO @ Sun, 21 Jun 2020 21:09:25: 25000000 INFO @ Sun, 21 Jun 2020 21:09:28: 20000000 INFO @ Sun, 21 Jun 2020 21:09:29: 15000000 INFO @ Sun, 21 Jun 2020 21:09:30: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:09:30: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:09:30: #1 total tags in treatment: 25655710 INFO @ Sun, 21 Jun 2020 21:09:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:09:30: #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 21:09:31: #1 tags after filtering in treatment: 25655654 INFO @ Sun, 21 Jun 2020 21:09:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:09:31: #1 finished! INFO @ Sun, 21 Jun 2020 21:09:31: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:09:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:09:33: #2 number of paired peaks: 1072 INFO @ Sun, 21 Jun 2020 21:09:33: start model_add_line... INFO @ Sun, 21 Jun 2020 21:09:33: start X-correlation... INFO @ Sun, 21 Jun 2020 21:09:33: end of X-cor INFO @ Sun, 21 Jun 2020 21:09:33: #2 finished! INFO @ Sun, 21 Jun 2020 21:09:33: #2 predicted fragment length is 168 bps INFO @ Sun, 21 Jun 2020 21:09:33: #2 alternative fragment length(s) may be 4,168 bps INFO @ Sun, 21 Jun 2020 21:09:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.05_model.r INFO @ Sun, 21 Jun 2020 21:09:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:09:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:09:35: 21000000 INFO @ Sun, 21 Jun 2020 21:09:35: 16000000 INFO @ Sun, 21 Jun 2020 21:09:40: 22000000 INFO @ Sun, 21 Jun 2020 21:09:41: 17000000 INFO @ Sun, 21 Jun 2020 21:09:46: 23000000 INFO @ Sun, 21 Jun 2020 21:09:46: 18000000 INFO @ Sun, 21 Jun 2020 21:09:52: 24000000 INFO @ Sun, 21 Jun 2020 21:09:52: 19000000 INFO @ Sun, 21 Jun 2020 21:09:58: 25000000 INFO @ Sun, 21 Jun 2020 21:09:58: 20000000 INFO @ Sun, 21 Jun 2020 21:10:02: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:10:02: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:10:02: #1 total tags in treatment: 25655710 INFO @ Sun, 21 Jun 2020 21:10:02: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:10:02: #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 21:10:03: #1 tags after filtering in treatment: 25655654 INFO @ Sun, 21 Jun 2020 21:10:03: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:10:03: #1 finished! INFO @ Sun, 21 Jun 2020 21:10:03: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:10:03: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:10:05: 21000000 INFO @ Sun, 21 Jun 2020 21:10:05: #2 number of paired peaks: 1072 INFO @ Sun, 21 Jun 2020 21:10:05: start model_add_line... INFO @ Sun, 21 Jun 2020 21:10:05: start X-correlation... INFO @ Sun, 21 Jun 2020 21:10:05: end of X-cor INFO @ Sun, 21 Jun 2020 21:10:05: #2 finished! INFO @ Sun, 21 Jun 2020 21:10:05: #2 predicted fragment length is 168 bps INFO @ Sun, 21 Jun 2020 21:10:05: #2 alternative fragment length(s) may be 4,168 bps INFO @ Sun, 21 Jun 2020 21:10:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.10_model.r INFO @ Sun, 21 Jun 2020 21:10:05: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:10:05: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:10:10: 22000000 INFO @ Sun, 21 Jun 2020 21:10:16: 23000000 INFO @ Sun, 21 Jun 2020 21:10:21: 24000000 INFO @ Sun, 21 Jun 2020 21:10:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:10:27: 25000000 INFO @ Sun, 21 Jun 2020 21:10:31: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:10:31: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:10:31: #1 total tags in treatment: 25655710 INFO @ Sun, 21 Jun 2020 21:10:31: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:10:31: #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 21:10:32: #1 tags after filtering in treatment: 25655654 INFO @ Sun, 21 Jun 2020 21:10:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:10:32: #1 finished! INFO @ Sun, 21 Jun 2020 21:10:32: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:10:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:10:34: #2 number of paired peaks: 1072 INFO @ Sun, 21 Jun 2020 21:10:34: start model_add_line... INFO @ Sun, 21 Jun 2020 21:10:34: start X-correlation... INFO @ Sun, 21 Jun 2020 21:10:34: end of X-cor INFO @ Sun, 21 Jun 2020 21:10:34: #2 finished! INFO @ Sun, 21 Jun 2020 21:10:34: #2 predicted fragment length is 168 bps INFO @ Sun, 21 Jun 2020 21:10:34: #2 alternative fragment length(s) may be 4,168 bps INFO @ Sun, 21 Jun 2020 21:10:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.20_model.r INFO @ Sun, 21 Jun 2020 21:10:34: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:10:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:10:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:10:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:10:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.05_summits.bed INFO @ Sun, 21 Jun 2020 21:10:48: Done! pass1 - making usageList (716 chroms): 2 millis pass2 - checking and writing primary data (5748 records, 4 fields): 44 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:10:59: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:11:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:11:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:11:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.10_summits.bed INFO @ Sun, 21 Jun 2020 21:11:20: Done! pass1 - making usageList (614 chroms): 1 millis pass2 - checking and writing primary data (3746 records, 4 fields): 59 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:11:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:11:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:11:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:11:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664664/SRX4664664.20_summits.bed INFO @ Sun, 21 Jun 2020 21:11:48: Done! pass1 - making usageList (482 chroms): 1 millis pass2 - checking and writing primary data (2167 records, 4 fields): 36 millis CompletedMACS2peakCalling