Job ID = 6453112 SRX = SRX1032411 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:16:48 prefetch.2.10.7: 1) Downloading 'SRR2031912'... 2020-06-21T08:16:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:20:27 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:20:27 prefetch.2.10.7: 1) 'SRR2031912' was downloaded successfully Read 30131820 spots for SRR2031912/SRR2031912.sra Written 30131820 spots for SRR2031912/SRR2031912.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: 00:08:26 30131820 reads; of these: 30131820 (100.00%) were unpaired; of these: 911168 (3.02%) aligned 0 times 21582553 (71.63%) aligned exactly 1 time 7638099 (25.35%) aligned >1 times 96.98% overall alignment rate Time searching: 00:08:26 Overall time: 00:08:26 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] 5842597 / 29220652 = 0.1999 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 17:37:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.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 17:37:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:37:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:37:44: 1000000 INFO @ Sun, 21 Jun 2020 17:37:49: 2000000 INFO @ Sun, 21 Jun 2020 17:37:54: 3000000 INFO @ Sun, 21 Jun 2020 17:37:59: 4000000 INFO @ Sun, 21 Jun 2020 17:38:05: 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 17:38:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.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 17:38:09: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:38:09: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:38:10: 6000000 INFO @ Sun, 21 Jun 2020 17:38:14: 1000000 INFO @ Sun, 21 Jun 2020 17:38:15: 7000000 INFO @ Sun, 21 Jun 2020 17:38:20: 2000000 INFO @ Sun, 21 Jun 2020 17:38:21: 8000000 INFO @ Sun, 21 Jun 2020 17:38:25: 3000000 INFO @ Sun, 21 Jun 2020 17:38:26: 9000000 INFO @ Sun, 21 Jun 2020 17:38:31: 4000000 INFO @ Sun, 21 Jun 2020 17:38:32: 10000000 INFO @ Sun, 21 Jun 2020 17:38:36: 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 17:38:37: 11000000 INFO @ Sun, 21 Jun 2020 17:38:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.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 17:38:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:38:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:38:42: 6000000 INFO @ Sun, 21 Jun 2020 17:38:43: 12000000 INFO @ Sun, 21 Jun 2020 17:38:44: 1000000 INFO @ Sun, 21 Jun 2020 17:38:48: 7000000 INFO @ Sun, 21 Jun 2020 17:38:49: 13000000 INFO @ Sun, 21 Jun 2020 17:38:50: 2000000 INFO @ Sun, 21 Jun 2020 17:38:53: 8000000 INFO @ Sun, 21 Jun 2020 17:38:55: 14000000 INFO @ Sun, 21 Jun 2020 17:38:56: 3000000 INFO @ Sun, 21 Jun 2020 17:38:59: 9000000 INFO @ Sun, 21 Jun 2020 17:39:00: 15000000 INFO @ Sun, 21 Jun 2020 17:39:01: 4000000 INFO @ Sun, 21 Jun 2020 17:39:04: 10000000 INFO @ Sun, 21 Jun 2020 17:39:06: 16000000 INFO @ Sun, 21 Jun 2020 17:39:07: 5000000 INFO @ Sun, 21 Jun 2020 17:39:10: 11000000 INFO @ Sun, 21 Jun 2020 17:39:11: 17000000 INFO @ Sun, 21 Jun 2020 17:39:13: 6000000 INFO @ Sun, 21 Jun 2020 17:39:16: 12000000 INFO @ Sun, 21 Jun 2020 17:39:17: 18000000 INFO @ Sun, 21 Jun 2020 17:39:18: 7000000 INFO @ Sun, 21 Jun 2020 17:39:22: 13000000 INFO @ Sun, 21 Jun 2020 17:39:23: 19000000 INFO @ Sun, 21 Jun 2020 17:39:24: 8000000 INFO @ Sun, 21 Jun 2020 17:39:27: 14000000 INFO @ Sun, 21 Jun 2020 17:39:28: 20000000 INFO @ Sun, 21 Jun 2020 17:39:29: 9000000 INFO @ Sun, 21 Jun 2020 17:39:33: 15000000 INFO @ Sun, 21 Jun 2020 17:39:34: 21000000 INFO @ Sun, 21 Jun 2020 17:39:35: 10000000 INFO @ Sun, 21 Jun 2020 17:39:38: 16000000 INFO @ Sun, 21 Jun 2020 17:39:39: 22000000 INFO @ Sun, 21 Jun 2020 17:39:40: 11000000 INFO @ Sun, 21 Jun 2020 17:39:44: 17000000 INFO @ Sun, 21 Jun 2020 17:39:45: 23000000 INFO @ Sun, 21 Jun 2020 17:39:46: 12000000 INFO @ Sun, 21 Jun 2020 17:39:47: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 17:39:47: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 17:39:47: #1 total tags in treatment: 23378055 INFO @ Sun, 21 Jun 2020 17:39:47: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:39:47: #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 17:39:48: #1 tags after filtering in treatment: 23378054 INFO @ Sun, 21 Jun 2020 17:39:48: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:39:48: #1 finished! INFO @ Sun, 21 Jun 2020 17:39:48: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:39:48: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:39:50: 18000000 INFO @ Sun, 21 Jun 2020 17:39:50: #2 number of paired peaks: 1483 INFO @ Sun, 21 Jun 2020 17:39:50: start model_add_line... INFO @ Sun, 21 Jun 2020 17:39:50: start X-correlation... INFO @ Sun, 21 Jun 2020 17:39:50: end of X-cor INFO @ Sun, 21 Jun 2020 17:39:50: #2 finished! INFO @ Sun, 21 Jun 2020 17:39:50: #2 predicted fragment length is 106 bps INFO @ Sun, 21 Jun 2020 17:39:50: #2 alternative fragment length(s) may be 4,106 bps INFO @ Sun, 21 Jun 2020 17:39:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.05_model.r INFO @ Sun, 21 Jun 2020 17:39:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:39:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:39:51: 13000000 INFO @ Sun, 21 Jun 2020 17:39:56: 19000000 INFO @ Sun, 21 Jun 2020 17:39:57: 14000000 INFO @ Sun, 21 Jun 2020 17:40:01: 20000000 INFO @ Sun, 21 Jun 2020 17:40:03: 15000000 INFO @ Sun, 21 Jun 2020 17:40:06: 21000000 INFO @ Sun, 21 Jun 2020 17:40:08: 16000000 INFO @ Sun, 21 Jun 2020 17:40:12: 22000000 INFO @ Sun, 21 Jun 2020 17:40:13: 17000000 INFO @ Sun, 21 Jun 2020 17:40:17: 23000000 INFO @ Sun, 21 Jun 2020 17:40:19: 18000000 INFO @ Sun, 21 Jun 2020 17:40:20: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 17:40:20: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 17:40:20: #1 total tags in treatment: 23378055 INFO @ Sun, 21 Jun 2020 17:40:20: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:40:20: #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 17:40:20: #1 tags after filtering in treatment: 23378054 INFO @ Sun, 21 Jun 2020 17:40:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:40:20: #1 finished! INFO @ Sun, 21 Jun 2020 17:40:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:40:20: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:40:22: #2 number of paired peaks: 1483 INFO @ Sun, 21 Jun 2020 17:40:22: start model_add_line... INFO @ Sun, 21 Jun 2020 17:40:22: start X-correlation... INFO @ Sun, 21 Jun 2020 17:40:22: end of X-cor INFO @ Sun, 21 Jun 2020 17:40:22: #2 finished! INFO @ Sun, 21 Jun 2020 17:40:22: #2 predicted fragment length is 106 bps INFO @ Sun, 21 Jun 2020 17:40:22: #2 alternative fragment length(s) may be 4,106 bps INFO @ Sun, 21 Jun 2020 17:40:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.10_model.r INFO @ Sun, 21 Jun 2020 17:40:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:40:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:40:25: 19000000 INFO @ Sun, 21 Jun 2020 17:40:30: 20000000 INFO @ Sun, 21 Jun 2020 17:40:35: 21000000 INFO @ Sun, 21 Jun 2020 17:40:40: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:40:40: 22000000 INFO @ Sun, 21 Jun 2020 17:40:46: 23000000 INFO @ Sun, 21 Jun 2020 17:40:48: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 17:40:48: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 17:40:48: #1 total tags in treatment: 23378055 INFO @ Sun, 21 Jun 2020 17:40:48: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:40:48: #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 17:40:49: #1 tags after filtering in treatment: 23378054 INFO @ Sun, 21 Jun 2020 17:40:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:40:49: #1 finished! INFO @ Sun, 21 Jun 2020 17:40:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:40:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:40:50: #2 number of paired peaks: 1483 INFO @ Sun, 21 Jun 2020 17:40:50: start model_add_line... INFO @ Sun, 21 Jun 2020 17:40:50: start X-correlation... INFO @ Sun, 21 Jun 2020 17:40:50: end of X-cor INFO @ Sun, 21 Jun 2020 17:40:50: #2 finished! INFO @ Sun, 21 Jun 2020 17:40:50: #2 predicted fragment length is 106 bps INFO @ Sun, 21 Jun 2020 17:40:50: #2 alternative fragment length(s) may be 4,106 bps INFO @ Sun, 21 Jun 2020 17:40:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.20_model.r INFO @ Sun, 21 Jun 2020 17:40:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:40:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:41:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:41:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:41:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.05_summits.bed INFO @ Sun, 21 Jun 2020 17:41:03: Done! pass1 - making usageList (828 chroms): 1 millis pass2 - checking and writing primary data (5905 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:41:12: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:41:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:41:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:41:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.10_summits.bed INFO @ Sun, 21 Jun 2020 17:41:36: Done! pass1 - making usageList (709 chroms): 2 millis pass2 - checking and writing primary data (3125 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:41:40: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:42:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:42:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:42:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1032411/SRX1032411.20_summits.bed INFO @ Sun, 21 Jun 2020 17:42:04: Done! pass1 - making usageList (454 chroms): 1 millis pass2 - checking and writing primary data (1215 records, 4 fields): 14 millis CompletedMACS2peakCalling