Job ID = 6452911 SRX = SRX042251 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:57:30 prefetch.2.10.7: 1) Downloading 'SRR100232'... 2020-06-21T07:57:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:05:26 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:05:26 prefetch.2.10.7: 1) 'SRR100232' was downloaded successfully Read 31472062 spots for SRR100232/SRR100232.sra Written 31472062 spots for SRR100232/SRR100232.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: 00:08:43 31472062 reads; of these: 31472062 (100.00%) were unpaired; of these: 4694228 (14.92%) aligned 0 times 25253865 (80.24%) aligned exactly 1 time 1523969 (4.84%) aligned >1 times 85.08% overall alignment rate Time searching: 00:08:43 Overall time: 00:08:43 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 12 files... [bam_rmdupse_core] 12094765 / 26777834 = 0.4517 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 17:23:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.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 17:23:49: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:23:49: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:23:55: 1000000 INFO @ Sun, 21 Jun 2020 17:24:01: 2000000 INFO @ Sun, 21 Jun 2020 17:24:07: 3000000 INFO @ Sun, 21 Jun 2020 17:24:13: 4000000 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 17:24:19: 5000000 INFO @ Sun, 21 Jun 2020 17:24:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.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 17:24:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:24:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:24:25: 6000000 INFO @ Sun, 21 Jun 2020 17:24:25: 1000000 INFO @ Sun, 21 Jun 2020 17:24:32: 7000000 INFO @ Sun, 21 Jun 2020 17:24:32: 2000000 INFO @ Sun, 21 Jun 2020 17:24:38: 8000000 INFO @ Sun, 21 Jun 2020 17:24:38: 3000000 INFO @ Sun, 21 Jun 2020 17:24:45: 9000000 INFO @ Sun, 21 Jun 2020 17:24:45: 4000000 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 17:24:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.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 17:24:49: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:24:49: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:24:51: 10000000 INFO @ Sun, 21 Jun 2020 17:24:51: 5000000 INFO @ Sun, 21 Jun 2020 17:24:55: 1000000 INFO @ Sun, 21 Jun 2020 17:24:58: 6000000 INFO @ Sun, 21 Jun 2020 17:24:58: 11000000 INFO @ Sun, 21 Jun 2020 17:25:02: 2000000 INFO @ Sun, 21 Jun 2020 17:25:04: 7000000 INFO @ Sun, 21 Jun 2020 17:25:05: 12000000 INFO @ Sun, 21 Jun 2020 17:25:09: 3000000 INFO @ Sun, 21 Jun 2020 17:25:11: 8000000 INFO @ Sun, 21 Jun 2020 17:25:12: 13000000 INFO @ Sun, 21 Jun 2020 17:25:16: 4000000 INFO @ Sun, 21 Jun 2020 17:25:17: 9000000 INFO @ Sun, 21 Jun 2020 17:25:19: 14000000 INFO @ Sun, 21 Jun 2020 17:25:23: 5000000 INFO @ Sun, 21 Jun 2020 17:25:24: #1 tag size is determined as 76 bps INFO @ Sun, 21 Jun 2020 17:25:24: #1 tag size = 76 INFO @ Sun, 21 Jun 2020 17:25:24: #1 total tags in treatment: 14683069 INFO @ Sun, 21 Jun 2020 17:25:24: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:25:24: #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 17:25:24: 10000000 INFO @ Sun, 21 Jun 2020 17:25:24: #1 tags after filtering in treatment: 14682578 INFO @ Sun, 21 Jun 2020 17:25:24: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:25:24: #1 finished! INFO @ Sun, 21 Jun 2020 17:25:24: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:25:24: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:25:25: #2 number of paired peaks: 2484 INFO @ Sun, 21 Jun 2020 17:25:25: start model_add_line... INFO @ Sun, 21 Jun 2020 17:25:26: start X-correlation... INFO @ Sun, 21 Jun 2020 17:25:26: end of X-cor INFO @ Sun, 21 Jun 2020 17:25:26: #2 finished! INFO @ Sun, 21 Jun 2020 17:25:26: #2 predicted fragment length is 350 bps INFO @ Sun, 21 Jun 2020 17:25:26: #2 alternative fragment length(s) may be 350 bps INFO @ Sun, 21 Jun 2020 17:25:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.05_model.r INFO @ Sun, 21 Jun 2020 17:25:26: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:25:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:25:29: 6000000 INFO @ Sun, 21 Jun 2020 17:25:31: 11000000 INFO @ Sun, 21 Jun 2020 17:25:36: 7000000 INFO @ Sun, 21 Jun 2020 17:25:37: 12000000 INFO @ Sun, 21 Jun 2020 17:25:43: 8000000 INFO @ Sun, 21 Jun 2020 17:25:44: 13000000 INFO @ Sun, 21 Jun 2020 17:25:49: 9000000 INFO @ Sun, 21 Jun 2020 17:25:51: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:25:56: #1 tag size is determined as 76 bps INFO @ Sun, 21 Jun 2020 17:25:56: #1 tag size = 76 INFO @ Sun, 21 Jun 2020 17:25:56: #1 total tags in treatment: 14683069 INFO @ Sun, 21 Jun 2020 17:25:56: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:25:56: #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 17:25:56: 10000000 INFO @ Sun, 21 Jun 2020 17:25:56: #1 tags after filtering in treatment: 14682578 INFO @ Sun, 21 Jun 2020 17:25:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:25:56: #1 finished! INFO @ Sun, 21 Jun 2020 17:25:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:25:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:25:58: #2 number of paired peaks: 2484 INFO @ Sun, 21 Jun 2020 17:25:58: start model_add_line... INFO @ Sun, 21 Jun 2020 17:25:58: start X-correlation... INFO @ Sun, 21 Jun 2020 17:25:58: end of X-cor INFO @ Sun, 21 Jun 2020 17:25:58: #2 finished! INFO @ Sun, 21 Jun 2020 17:25:58: #2 predicted fragment length is 350 bps INFO @ Sun, 21 Jun 2020 17:25:58: #2 alternative fragment length(s) may be 350 bps INFO @ Sun, 21 Jun 2020 17:25:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.10_model.r INFO @ Sun, 21 Jun 2020 17:25:58: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:25:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:26:02: 11000000 INFO @ Sun, 21 Jun 2020 17:26:08: 12000000 INFO @ Sun, 21 Jun 2020 17:26:13: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:26:15: 13000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:26:21: 14000000 INFO @ Sun, 21 Jun 2020 17:26:26: #1 tag size is determined as 76 bps INFO @ Sun, 21 Jun 2020 17:26:26: #1 tag size = 76 INFO @ Sun, 21 Jun 2020 17:26:26: #1 total tags in treatment: 14683069 INFO @ Sun, 21 Jun 2020 17:26:26: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:26:26: #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 17:26:26: #1 tags after filtering in treatment: 14682578 INFO @ Sun, 21 Jun 2020 17:26:26: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:26:26: #1 finished! INFO @ Sun, 21 Jun 2020 17:26:26: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:26:26: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:26:28: #2 number of paired peaks: 2484 INFO @ Sun, 21 Jun 2020 17:26:28: start model_add_line... INFO @ Sun, 21 Jun 2020 17:26:28: start X-correlation... INFO @ Sun, 21 Jun 2020 17:26:28: end of X-cor INFO @ Sun, 21 Jun 2020 17:26:28: #2 finished! INFO @ Sun, 21 Jun 2020 17:26:28: #2 predicted fragment length is 350 bps INFO @ Sun, 21 Jun 2020 17:26:28: #2 alternative fragment length(s) may be 350 bps INFO @ Sun, 21 Jun 2020 17:26:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.20_model.r INFO @ Sun, 21 Jun 2020 17:26:28: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:26:28: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:26:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:26:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:26:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.05_summits.bed INFO @ Sun, 21 Jun 2020 17:26:33: Done! pass1 - making usageList (56 chroms): 3 millis pass2 - checking and writing primary data (13829 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:26:45: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:27:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:27:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:27:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.10_summits.bed INFO @ Sun, 21 Jun 2020 17:27:05: Done! pass1 - making usageList (51 chroms): 2 millis pass2 - checking and writing primary data (10151 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:27:14: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:27:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:27:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:27:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX042251/SRX042251.20_summits.bed INFO @ Sun, 21 Jun 2020 17:27:33: Done! pass1 - making usageList (35 chroms): 2 millis pass2 - checking and writing primary data (6175 records, 4 fields): 8 millis CompletedMACS2peakCalling