Job ID = 6457487 SRX = SRX4664645 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:32:28 prefetch.2.10.7: 1) Downloading 'SRR7813072'... 2020-06-21T11:32:28 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:35:27 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:35:27 prefetch.2.10.7: 1) 'SRR7813072' was downloaded successfully Read 24537737 spots for SRR7813072/SRR7813072.sra Written 24537737 spots for SRR7813072/SRR7813072.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: 00:06:51 24537737 reads; of these: 24537737 (100.00%) were unpaired; of these: 683780 (2.79%) aligned 0 times 17500787 (71.32%) aligned exactly 1 time 6353170 (25.89%) aligned >1 times 97.21% overall alignment rate Time searching: 00:06:51 Overall time: 00:06:51 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] 5118198 / 23853957 = 0.2146 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 20:48:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.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 20:48:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:48:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:48:22: 1000000 INFO @ Sun, 21 Jun 2020 20:48:27: 2000000 INFO @ Sun, 21 Jun 2020 20:48:32: 3000000 INFO @ Sun, 21 Jun 2020 20:48:37: 4000000 INFO @ Sun, 21 Jun 2020 20:48:42: 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 20:48:47: 6000000 INFO @ Sun, 21 Jun 2020 20:48:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.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 20:48:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:48:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:48:52: 7000000 INFO @ Sun, 21 Jun 2020 20:48:53: 1000000 INFO @ Sun, 21 Jun 2020 20:48:58: 8000000 INFO @ Sun, 21 Jun 2020 20:48:58: 2000000 INFO @ Sun, 21 Jun 2020 20:49:03: 9000000 INFO @ Sun, 21 Jun 2020 20:49:04: 3000000 INFO @ Sun, 21 Jun 2020 20:49:09: 10000000 INFO @ Sun, 21 Jun 2020 20:49:09: 4000000 INFO @ Sun, 21 Jun 2020 20:49:14: 11000000 INFO @ Sun, 21 Jun 2020 20:49:15: 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 20:49:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.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 20:49:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:49:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:49:20: 12000000 INFO @ Sun, 21 Jun 2020 20:49:20: 6000000 INFO @ Sun, 21 Jun 2020 20:49:23: 1000000 INFO @ Sun, 21 Jun 2020 20:49:25: 13000000 INFO @ Sun, 21 Jun 2020 20:49:25: 7000000 INFO @ Sun, 21 Jun 2020 20:49:28: 2000000 INFO @ Sun, 21 Jun 2020 20:49:31: 14000000 INFO @ Sun, 21 Jun 2020 20:49:31: 8000000 INFO @ Sun, 21 Jun 2020 20:49:34: 3000000 INFO @ Sun, 21 Jun 2020 20:49:36: 15000000 INFO @ Sun, 21 Jun 2020 20:49:37: 9000000 INFO @ Sun, 21 Jun 2020 20:49:39: 4000000 INFO @ Sun, 21 Jun 2020 20:49:42: 16000000 INFO @ Sun, 21 Jun 2020 20:49:42: 10000000 INFO @ Sun, 21 Jun 2020 20:49:45: 5000000 INFO @ Sun, 21 Jun 2020 20:49:47: 17000000 INFO @ Sun, 21 Jun 2020 20:49:48: 11000000 INFO @ Sun, 21 Jun 2020 20:49:50: 6000000 INFO @ Sun, 21 Jun 2020 20:49:53: 12000000 INFO @ Sun, 21 Jun 2020 20:49:53: 18000000 INFO @ Sun, 21 Jun 2020 20:49:56: 7000000 INFO @ Sun, 21 Jun 2020 20:49:57: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:49:57: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:49:57: #1 total tags in treatment: 18735759 INFO @ Sun, 21 Jun 2020 20:49:57: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:49:57: #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 20:49:58: #1 tags after filtering in treatment: 18735684 INFO @ Sun, 21 Jun 2020 20:49:58: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:49:58: #1 finished! INFO @ Sun, 21 Jun 2020 20:49:58: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:49:58: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:49:58: 13000000 INFO @ Sun, 21 Jun 2020 20:49:59: #2 number of paired peaks: 2118 INFO @ Sun, 21 Jun 2020 20:49:59: start model_add_line... INFO @ Sun, 21 Jun 2020 20:49:59: start X-correlation... INFO @ Sun, 21 Jun 2020 20:50:00: end of X-cor INFO @ Sun, 21 Jun 2020 20:50:00: #2 finished! INFO @ Sun, 21 Jun 2020 20:50:00: #2 predicted fragment length is 133 bps INFO @ Sun, 21 Jun 2020 20:50:00: #2 alternative fragment length(s) may be 133 bps INFO @ Sun, 21 Jun 2020 20:50:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.05_model.r INFO @ Sun, 21 Jun 2020 20:50:00: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:50:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:50:01: 8000000 INFO @ Sun, 21 Jun 2020 20:50:04: 14000000 INFO @ Sun, 21 Jun 2020 20:50:07: 9000000 INFO @ Sun, 21 Jun 2020 20:50:09: 15000000 INFO @ Sun, 21 Jun 2020 20:50:12: 10000000 INFO @ Sun, 21 Jun 2020 20:50:15: 16000000 INFO @ Sun, 21 Jun 2020 20:50:18: 11000000 INFO @ Sun, 21 Jun 2020 20:50:21: 17000000 INFO @ Sun, 21 Jun 2020 20:50:23: 12000000 INFO @ Sun, 21 Jun 2020 20:50:26: 18000000 INFO @ Sun, 21 Jun 2020 20:50:29: 13000000 INFO @ Sun, 21 Jun 2020 20:50:30: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:50:30: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:50:30: #1 total tags in treatment: 18735759 INFO @ Sun, 21 Jun 2020 20:50:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:50:30: #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 20:50:31: #1 tags after filtering in treatment: 18735684 INFO @ Sun, 21 Jun 2020 20:50:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:50:31: #1 finished! INFO @ Sun, 21 Jun 2020 20:50:31: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:50:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:50:32: #2 number of paired peaks: 2118 INFO @ Sun, 21 Jun 2020 20:50:32: start model_add_line... INFO @ Sun, 21 Jun 2020 20:50:32: start X-correlation... INFO @ Sun, 21 Jun 2020 20:50:33: end of X-cor INFO @ Sun, 21 Jun 2020 20:50:33: #2 finished! INFO @ Sun, 21 Jun 2020 20:50:33: #2 predicted fragment length is 133 bps INFO @ Sun, 21 Jun 2020 20:50:33: #2 alternative fragment length(s) may be 133 bps INFO @ Sun, 21 Jun 2020 20:50:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.10_model.r INFO @ Sun, 21 Jun 2020 20:50:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:50:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:50:34: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:50:38: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:50:39: 15000000 INFO @ Sun, 21 Jun 2020 20:50:45: 16000000 INFO @ Sun, 21 Jun 2020 20:50:50: 17000000 INFO @ Sun, 21 Jun 2020 20:50:55: 18000000 INFO @ Sun, 21 Jun 2020 20:50:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:50:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:50:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.05_summits.bed INFO @ Sun, 21 Jun 2020 20:50:57: Done! pass1 - making usageList (585 chroms): 2 millis pass2 - checking and writing primary data (10059 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:50:59: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:50:59: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:50:59: #1 total tags in treatment: 18735759 INFO @ Sun, 21 Jun 2020 20:50:59: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:50:59: #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 20:51:00: #1 tags after filtering in treatment: 18735684 INFO @ Sun, 21 Jun 2020 20:51:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:51:00: #1 finished! INFO @ Sun, 21 Jun 2020 20:51:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:51:00: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:51:01: #2 number of paired peaks: 2118 INFO @ Sun, 21 Jun 2020 20:51:01: start model_add_line... INFO @ Sun, 21 Jun 2020 20:51:01: start X-correlation... INFO @ Sun, 21 Jun 2020 20:51:01: end of X-cor INFO @ Sun, 21 Jun 2020 20:51:01: #2 finished! INFO @ Sun, 21 Jun 2020 20:51:01: #2 predicted fragment length is 133 bps INFO @ Sun, 21 Jun 2020 20:51:01: #2 alternative fragment length(s) may be 133 bps INFO @ Sun, 21 Jun 2020 20:51:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.20_model.r INFO @ Sun, 21 Jun 2020 20:51:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:51:01: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:51:13: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:51:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:51:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:51:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.10_summits.bed INFO @ Sun, 21 Jun 2020 20:51:31: Done! pass1 - making usageList (505 chroms): 2 millis pass2 - checking and writing primary data (7189 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:51:41: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:52:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:52:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:52:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664645/SRX4664645.20_summits.bed INFO @ Sun, 21 Jun 2020 20:52:00: Done! pass1 - making usageList (436 chroms): 2 millis pass2 - checking and writing primary data (4725 records, 4 fields): 17 millis CompletedMACS2peakCalling