Job ID = 6453243 SRX = SRX110762 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:12:48 prefetch.2.10.7: 1) Downloading 'SRR388344'... 2020-06-21T08:12:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:18:51 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:18:51 prefetch.2.10.7: 1) 'SRR388344' was downloaded successfully Read 40037701 spots for SRR388344/SRR388344.sra Written 40037701 spots for SRR388344/SRR388344.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: 00:06:54 40037701 reads; of these: 40037701 (100.00%) were unpaired; of these: 4874250 (12.17%) aligned 0 times 32285872 (80.64%) aligned exactly 1 time 2877579 (7.19%) aligned >1 times 87.83% overall alignment rate Time searching: 00:06:54 Overall time: 00:06:54 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 12 files... [bam_rmdupse_core] 11971058 / 35163451 = 0.3404 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 17:34:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.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 17:34:20: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:34:20: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:34:25: 1000000 INFO @ Sun, 21 Jun 2020 17:34:29: 2000000 INFO @ Sun, 21 Jun 2020 17:34:34: 3000000 INFO @ Sun, 21 Jun 2020 17:34:38: 4000000 INFO @ Sun, 21 Jun 2020 17:34:43: 5000000 INFO @ Sun, 21 Jun 2020 17:34:47: 6000000 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 17:34:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.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 17:34:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:34:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:34:52: 7000000 INFO @ Sun, 21 Jun 2020 17:34:55: 1000000 INFO @ Sun, 21 Jun 2020 17:34:57: 8000000 INFO @ Sun, 21 Jun 2020 17:35:00: 2000000 INFO @ Sun, 21 Jun 2020 17:35:01: 9000000 INFO @ Sun, 21 Jun 2020 17:35:04: 3000000 INFO @ Sun, 21 Jun 2020 17:35:06: 10000000 INFO @ Sun, 21 Jun 2020 17:35:09: 4000000 INFO @ Sun, 21 Jun 2020 17:35:11: 11000000 INFO @ Sun, 21 Jun 2020 17:35:14: 5000000 INFO @ Sun, 21 Jun 2020 17:35:15: 12000000 BedGraph に変換中... INFO @ Sun, 21 Jun 2020 17:35:18: 6000000 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 17:35:20: 13000000 INFO @ Sun, 21 Jun 2020 17:35:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.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 17:35:20: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:35:20: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:35:23: 7000000 INFO @ Sun, 21 Jun 2020 17:35:25: 14000000 INFO @ Sun, 21 Jun 2020 17:35:25: 1000000 INFO @ Sun, 21 Jun 2020 17:35:28: 8000000 INFO @ Sun, 21 Jun 2020 17:35:29: 15000000 INFO @ Sun, 21 Jun 2020 17:35:30: 2000000 INFO @ Sun, 21 Jun 2020 17:35:33: 9000000 INFO @ Sun, 21 Jun 2020 17:35:34: 16000000 INFO @ Sun, 21 Jun 2020 17:35:34: 3000000 INFO @ Sun, 21 Jun 2020 17:35:37: 10000000 INFO @ Sun, 21 Jun 2020 17:35:38: 17000000 INFO @ Sun, 21 Jun 2020 17:35:39: 4000000 INFO @ Sun, 21 Jun 2020 17:35:42: 11000000 INFO @ Sun, 21 Jun 2020 17:35:43: 18000000 INFO @ Sun, 21 Jun 2020 17:35:44: 5000000 INFO @ Sun, 21 Jun 2020 17:35:47: 12000000 INFO @ Sun, 21 Jun 2020 17:35:48: 19000000 INFO @ Sun, 21 Jun 2020 17:35:48: 6000000 INFO @ Sun, 21 Jun 2020 17:35:51: 13000000 INFO @ Sun, 21 Jun 2020 17:35:53: 20000000 INFO @ Sun, 21 Jun 2020 17:35:53: 7000000 INFO @ Sun, 21 Jun 2020 17:35:56: 14000000 INFO @ Sun, 21 Jun 2020 17:35:57: 21000000 INFO @ Sun, 21 Jun 2020 17:35:58: 8000000 INFO @ Sun, 21 Jun 2020 17:36:01: 15000000 INFO @ Sun, 21 Jun 2020 17:36:02: 22000000 INFO @ Sun, 21 Jun 2020 17:36:02: 9000000 INFO @ Sun, 21 Jun 2020 17:36:05: 16000000 INFO @ Sun, 21 Jun 2020 17:36:06: 23000000 INFO @ Sun, 21 Jun 2020 17:36:07: 10000000 INFO @ Sun, 21 Jun 2020 17:36:08: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:36:08: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:36:08: #1 total tags in treatment: 23192393 INFO @ Sun, 21 Jun 2020 17:36:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:36:08: #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 17:36:08: #1 tags after filtering in treatment: 23192322 INFO @ Sun, 21 Jun 2020 17:36:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:36:08: #1 finished! INFO @ Sun, 21 Jun 2020 17:36:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:36:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:36:10: 17000000 INFO @ Sun, 21 Jun 2020 17:36:10: #2 number of paired peaks: 3871 INFO @ Sun, 21 Jun 2020 17:36:10: start model_add_line... INFO @ Sun, 21 Jun 2020 17:36:10: start X-correlation... INFO @ Sun, 21 Jun 2020 17:36:10: end of X-cor INFO @ Sun, 21 Jun 2020 17:36:10: #2 finished! INFO @ Sun, 21 Jun 2020 17:36:10: #2 predicted fragment length is 110 bps INFO @ Sun, 21 Jun 2020 17:36:10: #2 alternative fragment length(s) may be 110 bps INFO @ Sun, 21 Jun 2020 17:36:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.05_model.r INFO @ Sun, 21 Jun 2020 17:36:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:36:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:36:12: 11000000 INFO @ Sun, 21 Jun 2020 17:36:15: 18000000 INFO @ Sun, 21 Jun 2020 17:36:16: 12000000 INFO @ Sun, 21 Jun 2020 17:36:19: 19000000 INFO @ Sun, 21 Jun 2020 17:36:21: 13000000 INFO @ Sun, 21 Jun 2020 17:36:24: 20000000 INFO @ Sun, 21 Jun 2020 17:36:26: 14000000 INFO @ Sun, 21 Jun 2020 17:36:29: 21000000 INFO @ Sun, 21 Jun 2020 17:36:30: 15000000 INFO @ Sun, 21 Jun 2020 17:36:34: 22000000 INFO @ Sun, 21 Jun 2020 17:36:35: 16000000 INFO @ Sun, 21 Jun 2020 17:36:38: 23000000 INFO @ Sun, 21 Jun 2020 17:36:40: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:36:40: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:36:40: #1 total tags in treatment: 23192393 INFO @ Sun, 21 Jun 2020 17:36:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:36:40: #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 17:36:40: 17000000 INFO @ Sun, 21 Jun 2020 17:36:40: #1 tags after filtering in treatment: 23192322 INFO @ Sun, 21 Jun 2020 17:36:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:36:40: #1 finished! INFO @ Sun, 21 Jun 2020 17:36:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:36:40: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:36:42: #2 number of paired peaks: 3871 INFO @ Sun, 21 Jun 2020 17:36:42: start model_add_line... INFO @ Sun, 21 Jun 2020 17:36:42: start X-correlation... INFO @ Sun, 21 Jun 2020 17:36:42: end of X-cor INFO @ Sun, 21 Jun 2020 17:36:42: #2 finished! INFO @ Sun, 21 Jun 2020 17:36:42: #2 predicted fragment length is 110 bps INFO @ Sun, 21 Jun 2020 17:36:42: #2 alternative fragment length(s) may be 110 bps INFO @ Sun, 21 Jun 2020 17:36:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.10_model.r INFO @ Sun, 21 Jun 2020 17:36:42: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:36:42: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:36:44: 18000000 INFO @ Sun, 21 Jun 2020 17:36:49: 19000000 INFO @ Sun, 21 Jun 2020 17:36:54: 20000000 INFO @ Sun, 21 Jun 2020 17:36:58: 21000000 INFO @ Sun, 21 Jun 2020 17:37:00: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:37:03: 22000000 INFO @ Sun, 21 Jun 2020 17:37:07: 23000000 INFO @ Sun, 21 Jun 2020 17:37:08: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:37:08: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:37:08: #1 total tags in treatment: 23192393 INFO @ Sun, 21 Jun 2020 17:37:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:37:08: #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 17:37:09: #1 tags after filtering in treatment: 23192322 INFO @ Sun, 21 Jun 2020 17:37:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:37:09: #1 finished! INFO @ Sun, 21 Jun 2020 17:37:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:37:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:37:11: #2 number of paired peaks: 3871 INFO @ Sun, 21 Jun 2020 17:37:11: start model_add_line... INFO @ Sun, 21 Jun 2020 17:37:11: start X-correlation... INFO @ Sun, 21 Jun 2020 17:37:11: end of X-cor INFO @ Sun, 21 Jun 2020 17:37:11: #2 finished! INFO @ Sun, 21 Jun 2020 17:37:11: #2 predicted fragment length is 110 bps INFO @ Sun, 21 Jun 2020 17:37:11: #2 alternative fragment length(s) may be 110 bps INFO @ Sun, 21 Jun 2020 17:37:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.20_model.r INFO @ Sun, 21 Jun 2020 17:37:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:37:11: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:37:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:37:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:37:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.05_summits.bed INFO @ Sun, 21 Jun 2020 17:37:27: Done! pass1 - making usageList (115 chroms): 3 millis pass2 - checking and writing primary data (18995 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:37:38: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:38:04: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:38:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:38:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:38:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.10_summits.bed INFO @ Sun, 21 Jun 2020 17:38:07: Done! pass1 - making usageList (90 chroms): 2 millis pass2 - checking and writing primary data (13469 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:38:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:38:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:38:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110762/SRX110762.20_summits.bed INFO @ Sun, 21 Jun 2020 17:38:32: Done! pass1 - making usageList (73 chroms): 2 millis pass2 - checking and writing primary data (8461 records, 4 fields): 12 millis CompletedMACS2peakCalling