Job ID = 16439708 SRX = SRX14237852 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 30380946 spots for SRR18086352/SRR18086352.sra Written 30380946 spots for SRR18086352/SRR18086352.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439830 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:11:27 30380946 reads; of these: 30380946 (100.00%) were unpaired; of these: 1552007 (5.11%) aligned 0 times 24255633 (79.84%) aligned exactly 1 time 4573306 (15.05%) aligned >1 times 94.89% overall alignment rate Time searching: 00:11:28 Overall time: 00:11:28 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 5608066 / 28828939 = 0.1945 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:22:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.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 @ Tue, 02 Aug 2022 16:22:54: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:22:54: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:23:04: 1000000 INFO @ Tue, 02 Aug 2022 16:23:15: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:23:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.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 @ Tue, 02 Aug 2022 16:23:23: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:23:23: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:23:25: 3000000 INFO @ Tue, 02 Aug 2022 16:23:34: 4000000 INFO @ Tue, 02 Aug 2022 16:23:34: 1000000 INFO @ Tue, 02 Aug 2022 16:23:42: 5000000 INFO @ Tue, 02 Aug 2022 16:23:44: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:23:51: 6000000 INFO @ Tue, 02 Aug 2022 16:23:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.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 @ Tue, 02 Aug 2022 16:23:53: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:23:53: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:23:53: 3000000 INFO @ Tue, 02 Aug 2022 16:24:00: 7000000 INFO @ Tue, 02 Aug 2022 16:24:03: 1000000 INFO @ Tue, 02 Aug 2022 16:24:03: 4000000 INFO @ Tue, 02 Aug 2022 16:24:09: 8000000 INFO @ Tue, 02 Aug 2022 16:24:13: 5000000 INFO @ Tue, 02 Aug 2022 16:24:13: 2000000 INFO @ Tue, 02 Aug 2022 16:24:20: 9000000 INFO @ Tue, 02 Aug 2022 16:24:23: 6000000 INFO @ Tue, 02 Aug 2022 16:24:23: 3000000 INFO @ Tue, 02 Aug 2022 16:24:31: 10000000 INFO @ Tue, 02 Aug 2022 16:24:33: 7000000 INFO @ Tue, 02 Aug 2022 16:24:34: 4000000 INFO @ Tue, 02 Aug 2022 16:24:41: 11000000 INFO @ Tue, 02 Aug 2022 16:24:43: 8000000 INFO @ Tue, 02 Aug 2022 16:24:44: 5000000 INFO @ Tue, 02 Aug 2022 16:24:52: 12000000 INFO @ Tue, 02 Aug 2022 16:24:53: 9000000 INFO @ Tue, 02 Aug 2022 16:24:54: 6000000 INFO @ Tue, 02 Aug 2022 16:25:03: 13000000 INFO @ Tue, 02 Aug 2022 16:25:03: 10000000 INFO @ Tue, 02 Aug 2022 16:25:04: 7000000 INFO @ Tue, 02 Aug 2022 16:25:12: 14000000 INFO @ Tue, 02 Aug 2022 16:25:13: 11000000 INFO @ Tue, 02 Aug 2022 16:25:14: 8000000 INFO @ Tue, 02 Aug 2022 16:25:22: 12000000 INFO @ Tue, 02 Aug 2022 16:25:22: 15000000 INFO @ Tue, 02 Aug 2022 16:25:24: 9000000 INFO @ Tue, 02 Aug 2022 16:25:32: 13000000 INFO @ Tue, 02 Aug 2022 16:25:32: 16000000 INFO @ Tue, 02 Aug 2022 16:25:34: 10000000 INFO @ Tue, 02 Aug 2022 16:25:42: 17000000 INFO @ Tue, 02 Aug 2022 16:25:42: 14000000 INFO @ Tue, 02 Aug 2022 16:25:44: 11000000 INFO @ Tue, 02 Aug 2022 16:25:52: 15000000 INFO @ Tue, 02 Aug 2022 16:25:53: 18000000 INFO @ Tue, 02 Aug 2022 16:25:54: 12000000 INFO @ Tue, 02 Aug 2022 16:26:03: 16000000 INFO @ Tue, 02 Aug 2022 16:26:03: 19000000 INFO @ Tue, 02 Aug 2022 16:26:04: 13000000 INFO @ Tue, 02 Aug 2022 16:26:12: 17000000 INFO @ Tue, 02 Aug 2022 16:26:13: 20000000 INFO @ Tue, 02 Aug 2022 16:26:14: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:26:22: 18000000 INFO @ Tue, 02 Aug 2022 16:26:23: 21000000 INFO @ Tue, 02 Aug 2022 16:26:24: 15000000 INFO @ Tue, 02 Aug 2022 16:26:32: 19000000 INFO @ Tue, 02 Aug 2022 16:26:33: 22000000 INFO @ Tue, 02 Aug 2022 16:26:34: 16000000 INFO @ Tue, 02 Aug 2022 16:26:42: 20000000 INFO @ Tue, 02 Aug 2022 16:26:43: 23000000 INFO @ Tue, 02 Aug 2022 16:26:43: 17000000 INFO @ Tue, 02 Aug 2022 16:26:45: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:26:45: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:26:45: #1 total tags in treatment: 23220873 INFO @ Tue, 02 Aug 2022 16:26:45: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:26:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:26:46: #1 tags after filtering in treatment: 23220873 INFO @ Tue, 02 Aug 2022 16:26:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:26:46: #1 finished! INFO @ Tue, 02 Aug 2022 16:26:46: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:26:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:26:48: #2 number of paired peaks: 2725 INFO @ Tue, 02 Aug 2022 16:26:48: start model_add_line... INFO @ Tue, 02 Aug 2022 16:26:48: start X-correlation... INFO @ Tue, 02 Aug 2022 16:26:49: end of X-cor INFO @ Tue, 02 Aug 2022 16:26:49: #2 finished! INFO @ Tue, 02 Aug 2022 16:26:49: #2 predicted fragment length is 223 bps INFO @ Tue, 02 Aug 2022 16:26:49: #2 alternative fragment length(s) may be 223 bps INFO @ Tue, 02 Aug 2022 16:26:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.05_model.r INFO @ Tue, 02 Aug 2022 16:26:49: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:26:49: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:26:52: 21000000 INFO @ Tue, 02 Aug 2022 16:26:53: 18000000 INFO @ Tue, 02 Aug 2022 16:27:02: 22000000 INFO @ Tue, 02 Aug 2022 16:27:03: 19000000 INFO @ Tue, 02 Aug 2022 16:27:12: 23000000 INFO @ Tue, 02 Aug 2022 16:27:13: 20000000 INFO @ Tue, 02 Aug 2022 16:27:14: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:27:14: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:27:14: #1 total tags in treatment: 23220873 INFO @ Tue, 02 Aug 2022 16:27:14: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:27:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:27:15: #1 tags after filtering in treatment: 23220873 INFO @ Tue, 02 Aug 2022 16:27:15: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:27:15: #1 finished! INFO @ Tue, 02 Aug 2022 16:27:15: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:27:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:27:17: #2 number of paired peaks: 2725 INFO @ Tue, 02 Aug 2022 16:27:17: start model_add_line... INFO @ Tue, 02 Aug 2022 16:27:17: start X-correlation... INFO @ Tue, 02 Aug 2022 16:27:17: end of X-cor INFO @ Tue, 02 Aug 2022 16:27:17: #2 finished! INFO @ Tue, 02 Aug 2022 16:27:17: #2 predicted fragment length is 223 bps INFO @ Tue, 02 Aug 2022 16:27:17: #2 alternative fragment length(s) may be 223 bps INFO @ Tue, 02 Aug 2022 16:27:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.10_model.r INFO @ Tue, 02 Aug 2022 16:27:17: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:27:17: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:27:23: 21000000 INFO @ Tue, 02 Aug 2022 16:27:33: 22000000 INFO @ Tue, 02 Aug 2022 16:27:43: 23000000 INFO @ Tue, 02 Aug 2022 16:27:45: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:27:45: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:27:45: #1 total tags in treatment: 23220873 INFO @ Tue, 02 Aug 2022 16:27:45: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:27:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:27:46: #1 tags after filtering in treatment: 23220873 INFO @ Tue, 02 Aug 2022 16:27:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:27:46: #1 finished! INFO @ Tue, 02 Aug 2022 16:27:46: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:27:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:27:47: #2 number of paired peaks: 2725 INFO @ Tue, 02 Aug 2022 16:27:47: start model_add_line... INFO @ Tue, 02 Aug 2022 16:27:48: start X-correlation... INFO @ Tue, 02 Aug 2022 16:27:48: end of X-cor INFO @ Tue, 02 Aug 2022 16:27:48: #2 finished! INFO @ Tue, 02 Aug 2022 16:27:48: #2 predicted fragment length is 223 bps INFO @ Tue, 02 Aug 2022 16:27:48: #2 alternative fragment length(s) may be 223 bps INFO @ Tue, 02 Aug 2022 16:27:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.20_model.r INFO @ Tue, 02 Aug 2022 16:27:48: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:27:48: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:27:53: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:28:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:28:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:28:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.05_summits.bed INFO @ Tue, 02 Aug 2022 16:28:17: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (7870 records, 4 fields): 75 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:28:21: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:28:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:28:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:28:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.10_summits.bed INFO @ Tue, 02 Aug 2022 16:28:44: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (6556 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:28:51: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:29:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:29:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:29:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14237852/SRX14237852.20_summits.bed INFO @ Tue, 02 Aug 2022 16:29:15: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (5016 records, 4 fields): 30 millis CompletedMACS2peakCalling