Job ID = 6457556 SRX = SRX4669045 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:44:18 prefetch.2.10.7: 1) Downloading 'SRR7817570'... 2020-06-21T11:44:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:47:27 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:47:27 prefetch.2.10.7: 1) 'SRR7817570' was downloaded successfully 2020-06-21T11:47:27 prefetch.2.10.7: 'SRR7817570' has 0 unresolved dependencies Read 32196919 spots for SRR7817570/SRR7817570.sra Written 32196919 spots for SRR7817570/SRR7817570.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: 00:07:40 32196919 reads; of these: 32196919 (100.00%) were unpaired; of these: 5577870 (17.32%) aligned 0 times 19881895 (61.75%) aligned exactly 1 time 6737154 (20.92%) aligned >1 times 82.68% overall alignment rate Time searching: 00:07:40 Overall time: 00:07:40 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 12 files... [bam_rmdupse_core] 8620040 / 26619049 = 0.3238 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 21:01:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.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 21:01:38: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:01:38: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:01:45: 1000000 INFO @ Sun, 21 Jun 2020 21:01:52: 2000000 INFO @ Sun, 21 Jun 2020 21:01:59: 3000000 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 21:02:06: 4000000 INFO @ Sun, 21 Jun 2020 21:02:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.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 21:02:08: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:02:08: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:02:14: 5000000 INFO @ Sun, 21 Jun 2020 21:02:16: 1000000 INFO @ Sun, 21 Jun 2020 21:02:22: 6000000 INFO @ Sun, 21 Jun 2020 21:02:24: 2000000 INFO @ Sun, 21 Jun 2020 21:02:30: 7000000 INFO @ Sun, 21 Jun 2020 21:02:32: 3000000 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 21:02:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.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 21:02:38: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:02:38: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:02:38: 8000000 INFO @ Sun, 21 Jun 2020 21:02:40: 4000000 INFO @ Sun, 21 Jun 2020 21:02:46: 1000000 INFO @ Sun, 21 Jun 2020 21:02:47: 9000000 INFO @ Sun, 21 Jun 2020 21:02:48: 5000000 INFO @ Sun, 21 Jun 2020 21:02:55: 2000000 INFO @ Sun, 21 Jun 2020 21:02:55: 10000000 INFO @ Sun, 21 Jun 2020 21:02:56: 6000000 INFO @ Sun, 21 Jun 2020 21:03:03: 3000000 INFO @ Sun, 21 Jun 2020 21:03:04: 11000000 INFO @ Sun, 21 Jun 2020 21:03:04: 7000000 INFO @ Sun, 21 Jun 2020 21:03:11: 4000000 INFO @ Sun, 21 Jun 2020 21:03:12: 8000000 INFO @ Sun, 21 Jun 2020 21:03:12: 12000000 INFO @ Sun, 21 Jun 2020 21:03:19: 5000000 INFO @ Sun, 21 Jun 2020 21:03:20: 9000000 INFO @ Sun, 21 Jun 2020 21:03:21: 13000000 INFO @ Sun, 21 Jun 2020 21:03:27: 6000000 INFO @ Sun, 21 Jun 2020 21:03:28: 10000000 INFO @ Sun, 21 Jun 2020 21:03:29: 14000000 INFO @ Sun, 21 Jun 2020 21:03:35: 7000000 INFO @ Sun, 21 Jun 2020 21:03:36: 11000000 INFO @ Sun, 21 Jun 2020 21:03:38: 15000000 INFO @ Sun, 21 Jun 2020 21:03:43: 8000000 INFO @ Sun, 21 Jun 2020 21:03:44: 12000000 INFO @ Sun, 21 Jun 2020 21:03:47: 16000000 INFO @ Sun, 21 Jun 2020 21:03:51: 9000000 INFO @ Sun, 21 Jun 2020 21:03:52: 13000000 INFO @ Sun, 21 Jun 2020 21:03:55: 17000000 INFO @ Sun, 21 Jun 2020 21:03:59: 10000000 INFO @ Sun, 21 Jun 2020 21:04:00: 14000000 INFO @ Sun, 21 Jun 2020 21:04:03: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:04:03: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:04:03: #1 total tags in treatment: 17999009 INFO @ Sun, 21 Jun 2020 21:04:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:04:03: #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 21:04:04: #1 tags after filtering in treatment: 17999007 INFO @ Sun, 21 Jun 2020 21:04:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:04:04: #1 finished! INFO @ Sun, 21 Jun 2020 21:04:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:04:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:04:05: #2 number of paired peaks: 1991 INFO @ Sun, 21 Jun 2020 21:04:05: start model_add_line... INFO @ Sun, 21 Jun 2020 21:04:06: start X-correlation... INFO @ Sun, 21 Jun 2020 21:04:06: end of X-cor INFO @ Sun, 21 Jun 2020 21:04:06: #2 finished! INFO @ Sun, 21 Jun 2020 21:04:06: #2 predicted fragment length is 164 bps INFO @ Sun, 21 Jun 2020 21:04:06: #2 alternative fragment length(s) may be 164 bps INFO @ Sun, 21 Jun 2020 21:04:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.05_model.r INFO @ Sun, 21 Jun 2020 21:04:06: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:04:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:04:07: 11000000 BedGraph に変換しました。 INFO @ Sun, 21 Jun 2020 21:04:08: 15000000 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:04:14: 12000000 INFO @ Sun, 21 Jun 2020 21:04:16: 16000000 INFO @ Sun, 21 Jun 2020 21:04:22: 13000000 INFO @ Sun, 21 Jun 2020 21:04:23: 17000000 INFO @ Sun, 21 Jun 2020 21:04:29: 14000000 INFO @ Sun, 21 Jun 2020 21:04:30: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:04:30: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:04:30: #1 total tags in treatment: 17999009 INFO @ Sun, 21 Jun 2020 21:04:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:04:30: #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 21:04:31: #1 tags after filtering in treatment: 17999007 INFO @ Sun, 21 Jun 2020 21:04:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:04:31: #1 finished! INFO @ Sun, 21 Jun 2020 21:04:31: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:04:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:04:32: #2 number of paired peaks: 1991 INFO @ Sun, 21 Jun 2020 21:04:32: start model_add_line... INFO @ Sun, 21 Jun 2020 21:04:33: start X-correlation... INFO @ Sun, 21 Jun 2020 21:04:33: end of X-cor INFO @ Sun, 21 Jun 2020 21:04:33: #2 finished! INFO @ Sun, 21 Jun 2020 21:04:33: #2 predicted fragment length is 164 bps INFO @ Sun, 21 Jun 2020 21:04:33: #2 alternative fragment length(s) may be 164 bps INFO @ Sun, 21 Jun 2020 21:04:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.10_model.r INFO @ Sun, 21 Jun 2020 21:04:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:04:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:04:36: 15000000 INFO @ Sun, 21 Jun 2020 21:04:42: 16000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:04:49: 17000000 INFO @ Sun, 21 Jun 2020 21:04:52: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:04:55: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:04:55: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:04:55: #1 total tags in treatment: 17999009 INFO @ Sun, 21 Jun 2020 21:04:55: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:04:55: #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 21:04:56: #1 tags after filtering in treatment: 17999007 INFO @ Sun, 21 Jun 2020 21:04:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:04:56: #1 finished! INFO @ Sun, 21 Jun 2020 21:04:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:04:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:04:57: #2 number of paired peaks: 1991 INFO @ Sun, 21 Jun 2020 21:04:57: start model_add_line... INFO @ Sun, 21 Jun 2020 21:04:57: start X-correlation... INFO @ Sun, 21 Jun 2020 21:04:57: end of X-cor INFO @ Sun, 21 Jun 2020 21:04:57: #2 finished! INFO @ Sun, 21 Jun 2020 21:04:57: #2 predicted fragment length is 164 bps INFO @ Sun, 21 Jun 2020 21:04:57: #2 alternative fragment length(s) may be 164 bps INFO @ Sun, 21 Jun 2020 21:04:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.20_model.r INFO @ Sun, 21 Jun 2020 21:04:57: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:04:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:05:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:05:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:05:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.05_summits.bed INFO @ Sun, 21 Jun 2020 21:05:13: Done! pass1 - making usageList (684 chroms): 3 millis pass2 - checking and writing primary data (10675 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:05:19: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:05:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:05:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:05:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.10_summits.bed INFO @ Sun, 21 Jun 2020 21:05:41: Done! pass1 - making usageList (536 chroms): 2 millis pass2 - checking and writing primary data (7274 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:05:44: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:06:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:06:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:06:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4669045/SRX4669045.20_summits.bed INFO @ Sun, 21 Jun 2020 21:06:05: Done! pass1 - making usageList (338 chroms): 2 millis pass2 - checking and writing primary data (3864 records, 4 fields): 15 millis CompletedMACS2peakCalling