Job ID = 6453686 SRX = SRX1361355 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:32:55 prefetch.2.10.7: 1) Downloading 'SRR2749793'... 2020-06-21T08:32:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:48:13 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:48:13 prefetch.2.10.7: 1) 'SRR2749793' was downloaded successfully Read 56635007 spots for SRR2749793/SRR2749793.sra Written 56635007 spots for SRR2749793/SRR2749793.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: 00:16:43 56635007 reads; of these: 56635007 (100.00%) were unpaired; of these: 2633176 (4.65%) aligned 0 times 39604050 (69.93%) aligned exactly 1 time 14397781 (25.42%) aligned >1 times 95.35% overall alignment rate Time searching: 00:16:43 Overall time: 00:16:43 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 24 files... [bam_rmdupse_core] 26121892 / 54001831 = 0.4837 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 18:21:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.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 18:21:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:21:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:21:17: 1000000 INFO @ Sun, 21 Jun 2020 18:21:22: 2000000 INFO @ Sun, 21 Jun 2020 18:21:27: 3000000 INFO @ Sun, 21 Jun 2020 18:21:32: 4000000 INFO @ Sun, 21 Jun 2020 18:21:36: 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 18:21:41: 6000000 INFO @ Sun, 21 Jun 2020 18:21:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.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 18:21:42: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:21:42: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:21:46: 7000000 INFO @ Sun, 21 Jun 2020 18:21:47: 1000000 INFO @ Sun, 21 Jun 2020 18:21:51: 8000000 INFO @ Sun, 21 Jun 2020 18:21:52: 2000000 INFO @ Sun, 21 Jun 2020 18:21:56: 9000000 INFO @ Sun, 21 Jun 2020 18:21:57: 3000000 INFO @ Sun, 21 Jun 2020 18:22:01: 10000000 INFO @ Sun, 21 Jun 2020 18:22:01: 4000000 INFO @ Sun, 21 Jun 2020 18:22:06: 11000000 INFO @ Sun, 21 Jun 2020 18:22:06: 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 18:22:11: 12000000 INFO @ Sun, 21 Jun 2020 18:22:11: 6000000 INFO @ Sun, 21 Jun 2020 18:22:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.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 18:22:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:22:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:22:15: 13000000 INFO @ Sun, 21 Jun 2020 18:22:16: 7000000 INFO @ Sun, 21 Jun 2020 18:22:17: 1000000 INFO @ Sun, 21 Jun 2020 18:22:20: 14000000 INFO @ Sun, 21 Jun 2020 18:22:21: 8000000 INFO @ Sun, 21 Jun 2020 18:22:22: 2000000 INFO @ Sun, 21 Jun 2020 18:22:25: 15000000 INFO @ Sun, 21 Jun 2020 18:22:26: 9000000 INFO @ Sun, 21 Jun 2020 18:22:27: 3000000 INFO @ Sun, 21 Jun 2020 18:22:30: 16000000 INFO @ Sun, 21 Jun 2020 18:22:31: 10000000 INFO @ Sun, 21 Jun 2020 18:22:31: 4000000 INFO @ Sun, 21 Jun 2020 18:22:34: 17000000 INFO @ Sun, 21 Jun 2020 18:22:35: 11000000 INFO @ Sun, 21 Jun 2020 18:22:36: 5000000 INFO @ Sun, 21 Jun 2020 18:22:39: 18000000 INFO @ Sun, 21 Jun 2020 18:22:40: 12000000 INFO @ Sun, 21 Jun 2020 18:22:41: 6000000 INFO @ Sun, 21 Jun 2020 18:22:44: 19000000 INFO @ Sun, 21 Jun 2020 18:22:45: 13000000 INFO @ Sun, 21 Jun 2020 18:22:46: 7000000 INFO @ Sun, 21 Jun 2020 18:22:49: 20000000 INFO @ Sun, 21 Jun 2020 18:22:50: 14000000 INFO @ Sun, 21 Jun 2020 18:22:51: 8000000 INFO @ Sun, 21 Jun 2020 18:22:54: 21000000 INFO @ Sun, 21 Jun 2020 18:22:54: 15000000 INFO @ Sun, 21 Jun 2020 18:22:55: 9000000 INFO @ Sun, 21 Jun 2020 18:22:59: 22000000 INFO @ Sun, 21 Jun 2020 18:22:59: 16000000 INFO @ Sun, 21 Jun 2020 18:23:00: 10000000 INFO @ Sun, 21 Jun 2020 18:23:04: 23000000 INFO @ Sun, 21 Jun 2020 18:23:04: 17000000 INFO @ Sun, 21 Jun 2020 18:23:05: 11000000 INFO @ Sun, 21 Jun 2020 18:23:09: 24000000 INFO @ Sun, 21 Jun 2020 18:23:09: 18000000 INFO @ Sun, 21 Jun 2020 18:23:10: 12000000 INFO @ Sun, 21 Jun 2020 18:23:14: 19000000 INFO @ Sun, 21 Jun 2020 18:23:14: 25000000 INFO @ Sun, 21 Jun 2020 18:23:15: 13000000 INFO @ Sun, 21 Jun 2020 18:23:18: 20000000 INFO @ Sun, 21 Jun 2020 18:23:19: 26000000 INFO @ Sun, 21 Jun 2020 18:23:20: 14000000 INFO @ Sun, 21 Jun 2020 18:23:23: 21000000 INFO @ Sun, 21 Jun 2020 18:23:24: 27000000 INFO @ Sun, 21 Jun 2020 18:23:24: 15000000 INFO @ Sun, 21 Jun 2020 18:23:28: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:23:28: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:23:28: #1 total tags in treatment: 27879939 INFO @ Sun, 21 Jun 2020 18:23:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:23:28: #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 18:23:29: 22000000 INFO @ Sun, 21 Jun 2020 18:23:29: #1 tags after filtering in treatment: 27879895 INFO @ Sun, 21 Jun 2020 18:23:29: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:23:29: #1 finished! INFO @ Sun, 21 Jun 2020 18:23:29: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:23:29: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:23:29: 16000000 INFO @ Sun, 21 Jun 2020 18:23:31: #2 number of paired peaks: 1310 INFO @ Sun, 21 Jun 2020 18:23:31: start model_add_line... INFO @ Sun, 21 Jun 2020 18:23:31: start X-correlation... INFO @ Sun, 21 Jun 2020 18:23:31: end of X-cor INFO @ Sun, 21 Jun 2020 18:23:31: #2 finished! INFO @ Sun, 21 Jun 2020 18:23:31: #2 predicted fragment length is 189 bps INFO @ Sun, 21 Jun 2020 18:23:31: #2 alternative fragment length(s) may be 189 bps INFO @ Sun, 21 Jun 2020 18:23:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.05_model.r INFO @ Sun, 21 Jun 2020 18:23:31: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:23:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:23:33: 23000000 INFO @ Sun, 21 Jun 2020 18:23:34: 17000000 INFO @ Sun, 21 Jun 2020 18:23:38: 24000000 INFO @ Sun, 21 Jun 2020 18:23:39: 18000000 INFO @ Sun, 21 Jun 2020 18:23:43: 25000000 INFO @ Sun, 21 Jun 2020 18:23:44: 19000000 INFO @ Sun, 21 Jun 2020 18:23:48: 26000000 INFO @ Sun, 21 Jun 2020 18:23:49: 20000000 INFO @ Sun, 21 Jun 2020 18:23:54: 27000000 INFO @ Sun, 21 Jun 2020 18:23:54: 21000000 INFO @ Sun, 21 Jun 2020 18:23:58: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:23:58: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:23:58: #1 total tags in treatment: 27879939 INFO @ Sun, 21 Jun 2020 18:23:58: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:23:58: #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 18:23:59: #1 tags after filtering in treatment: 27879895 INFO @ Sun, 21 Jun 2020 18:23:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:23:59: #1 finished! INFO @ Sun, 21 Jun 2020 18:23:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:23:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:23:59: 22000000 INFO @ Sun, 21 Jun 2020 18:24:01: #2 number of paired peaks: 1310 INFO @ Sun, 21 Jun 2020 18:24:01: start model_add_line... INFO @ Sun, 21 Jun 2020 18:24:01: start X-correlation... INFO @ Sun, 21 Jun 2020 18:24:01: end of X-cor INFO @ Sun, 21 Jun 2020 18:24:01: #2 finished! INFO @ Sun, 21 Jun 2020 18:24:01: #2 predicted fragment length is 189 bps INFO @ Sun, 21 Jun 2020 18:24:01: #2 alternative fragment length(s) may be 189 bps INFO @ Sun, 21 Jun 2020 18:24:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.10_model.r INFO @ Sun, 21 Jun 2020 18:24:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:24:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:24:04: 23000000 INFO @ Sun, 21 Jun 2020 18:24:10: 24000000 INFO @ Sun, 21 Jun 2020 18:24:15: 25000000 INFO @ Sun, 21 Jun 2020 18:24:20: 26000000 INFO @ Sun, 21 Jun 2020 18:24:25: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:24:30: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:24:30: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:24:30: #1 total tags in treatment: 27879939 INFO @ Sun, 21 Jun 2020 18:24:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:24:30: #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 18:24:30: #1 tags after filtering in treatment: 27879895 INFO @ Sun, 21 Jun 2020 18:24:30: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:24:30: #1 finished! INFO @ Sun, 21 Jun 2020 18:24:30: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:24:30: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:24:32: #2 number of paired peaks: 1310 INFO @ Sun, 21 Jun 2020 18:24:32: start model_add_line... INFO @ Sun, 21 Jun 2020 18:24:33: start X-correlation... INFO @ Sun, 21 Jun 2020 18:24:33: end of X-cor INFO @ Sun, 21 Jun 2020 18:24:33: #2 finished! INFO @ Sun, 21 Jun 2020 18:24:33: #2 predicted fragment length is 189 bps INFO @ Sun, 21 Jun 2020 18:24:33: #2 alternative fragment length(s) may be 189 bps INFO @ Sun, 21 Jun 2020 18:24:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.20_model.r INFO @ Sun, 21 Jun 2020 18:24:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:24:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:24:34: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:25:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:25:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:25:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.05_summits.bed INFO @ Sun, 21 Jun 2020 18:25:03: Done! pass1 - making usageList (719 chroms): 2 millis pass2 - checking and writing primary data (8924 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:25:05: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:25:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:25:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:25:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.10_summits.bed INFO @ Sun, 21 Jun 2020 18:25:33: Done! pass1 - making usageList (652 chroms): 2 millis pass2 - checking and writing primary data (7401 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:25:36: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:26:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:26:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:26:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361355/SRX1361355.20_summits.bed INFO @ Sun, 21 Jun 2020 18:26:02: Done! pass1 - making usageList (595 chroms): 2 millis pass2 - checking and writing primary data (5677 records, 4 fields): 20 millis CompletedMACS2peakCalling