Job ID = 14168482 SRX = SRX9730754 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 28025445 spots for SRR13301832/SRR13301832.sra Written 28025445 spots for SRR13301832/SRR13301832.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169631 ("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: 00:13:19 28025445 reads; of these: 28025445 (100.00%) were unpaired; of these: 757327 (2.70%) aligned 0 times 22195690 (79.20%) aligned exactly 1 time 5072428 (18.10%) aligned >1 times 97.30% overall alignment rate Time searching: 00:13:19 Overall time: 00:13:19 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] 14267193 / 27268118 = 0.5232 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 18:59:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.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 @ Fri, 10 Dec 2021 18:59:24: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:59:24: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:59:30: 1000000 INFO @ Fri, 10 Dec 2021 18:59:37: 2000000 INFO @ Fri, 10 Dec 2021 18:59:43: 3000000 INFO @ Fri, 10 Dec 2021 18:59:49: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 18:59:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.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 @ Fri, 10 Dec 2021 18:59:53: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:59:53: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:59:55: 5000000 INFO @ Fri, 10 Dec 2021 19:00:01: 1000000 INFO @ Fri, 10 Dec 2021 19:00:02: 6000000 INFO @ Fri, 10 Dec 2021 19:00:08: 2000000 INFO @ Fri, 10 Dec 2021 19:00:09: 7000000 INFO @ Fri, 10 Dec 2021 19:00:15: 3000000 INFO @ Fri, 10 Dec 2021 19:00:17: 8000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 19:00:22: 4000000 INFO @ Fri, 10 Dec 2021 19:00:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.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 @ Fri, 10 Dec 2021 19:00:23: #1 read tag files... INFO @ Fri, 10 Dec 2021 19:00:23: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 19:00:24: 9000000 INFO @ Fri, 10 Dec 2021 19:00:29: 5000000 INFO @ Fri, 10 Dec 2021 19:00:31: 1000000 INFO @ Fri, 10 Dec 2021 19:00:31: 10000000 INFO @ Fri, 10 Dec 2021 19:00:37: 6000000 INFO @ Fri, 10 Dec 2021 19:00:38: 2000000 INFO @ Fri, 10 Dec 2021 19:00:38: 11000000 INFO @ Fri, 10 Dec 2021 19:00:44: 7000000 INFO @ Fri, 10 Dec 2021 19:00:45: 3000000 INFO @ Fri, 10 Dec 2021 19:00:46: 12000000 INFO @ Fri, 10 Dec 2021 19:00:51: 8000000 INFO @ Fri, 10 Dec 2021 19:00:53: 4000000 INFO @ Fri, 10 Dec 2021 19:00:53: 13000000 INFO @ Fri, 10 Dec 2021 19:00:53: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:00:53: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:00:53: #1 total tags in treatment: 13000925 INFO @ Fri, 10 Dec 2021 19:00:53: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:00:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 19:00:53: #1 tags after filtering in treatment: 13000925 INFO @ Fri, 10 Dec 2021 19:00:53: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:00:53: #1 finished! INFO @ Fri, 10 Dec 2021 19:00:53: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:00:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:00:55: #2 number of paired peaks: 12730 INFO @ Fri, 10 Dec 2021 19:00:55: start model_add_line... INFO @ Fri, 10 Dec 2021 19:00:55: start X-correlation... INFO @ Fri, 10 Dec 2021 19:00:55: end of X-cor INFO @ Fri, 10 Dec 2021 19:00:55: #2 finished! INFO @ Fri, 10 Dec 2021 19:00:55: #2 predicted fragment length is 191 bps INFO @ Fri, 10 Dec 2021 19:00:55: #2 alternative fragment length(s) may be 191 bps INFO @ Fri, 10 Dec 2021 19:00:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.05_model.r INFO @ Fri, 10 Dec 2021 19:00:55: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:00:55: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 19:00:59: 9000000 INFO @ Fri, 10 Dec 2021 19:01:00: 5000000 INFO @ Fri, 10 Dec 2021 19:01:06: 10000000 INFO @ Fri, 10 Dec 2021 19:01:08: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 19:01:14: 11000000 INFO @ Fri, 10 Dec 2021 19:01:15: 7000000 INFO @ Fri, 10 Dec 2021 19:01:21: 12000000 INFO @ Fri, 10 Dec 2021 19:01:23: 8000000 INFO @ Fri, 10 Dec 2021 19:01:28: 13000000 INFO @ Fri, 10 Dec 2021 19:01:28: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:01:28: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:01:28: #1 total tags in treatment: 13000925 INFO @ Fri, 10 Dec 2021 19:01:28: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:01:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 19:01:28: #1 tags after filtering in treatment: 13000925 INFO @ Fri, 10 Dec 2021 19:01:28: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:01:28: #1 finished! INFO @ Fri, 10 Dec 2021 19:01:28: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:01:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:01:30: 9000000 INFO @ Fri, 10 Dec 2021 19:01:30: #2 number of paired peaks: 12730 INFO @ Fri, 10 Dec 2021 19:01:30: start model_add_line... INFO @ Fri, 10 Dec 2021 19:01:30: start X-correlation... INFO @ Fri, 10 Dec 2021 19:01:30: end of X-cor INFO @ Fri, 10 Dec 2021 19:01:30: #2 finished! INFO @ Fri, 10 Dec 2021 19:01:30: #2 predicted fragment length is 191 bps INFO @ Fri, 10 Dec 2021 19:01:30: #2 alternative fragment length(s) may be 191 bps INFO @ Fri, 10 Dec 2021 19:01:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.10_model.r INFO @ Fri, 10 Dec 2021 19:01:30: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:01:30: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 19:01:37: 10000000 INFO @ Fri, 10 Dec 2021 19:01:39: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:01:43: 11000000 INFO @ Fri, 10 Dec 2021 19:01:50: 12000000 INFO @ Fri, 10 Dec 2021 19:01:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.05_peaks.xls INFO @ Fri, 10 Dec 2021 19:01:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:01:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.05_summits.bed INFO @ Fri, 10 Dec 2021 19:01:53: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (9152 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 19:01:57: 13000000 INFO @ Fri, 10 Dec 2021 19:01:57: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:01:57: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:01:57: #1 total tags in treatment: 13000925 INFO @ Fri, 10 Dec 2021 19:01:57: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:01:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 19:01:57: #1 tags after filtering in treatment: 13000925 INFO @ Fri, 10 Dec 2021 19:01:57: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:01:57: #1 finished! INFO @ Fri, 10 Dec 2021 19:01:57: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:01:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:01:59: #2 number of paired peaks: 12730 INFO @ Fri, 10 Dec 2021 19:01:59: start model_add_line... INFO @ Fri, 10 Dec 2021 19:01:59: start X-correlation... INFO @ Fri, 10 Dec 2021 19:01:59: end of X-cor INFO @ Fri, 10 Dec 2021 19:01:59: #2 finished! INFO @ Fri, 10 Dec 2021 19:01:59: #2 predicted fragment length is 191 bps INFO @ Fri, 10 Dec 2021 19:01:59: #2 alternative fragment length(s) may be 191 bps INFO @ Fri, 10 Dec 2021 19:01:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.20_model.r INFO @ Fri, 10 Dec 2021 19:01:59: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:01:59: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 19:02:13: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:02:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.10_peaks.xls INFO @ Fri, 10 Dec 2021 19:02:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:02:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.10_summits.bed INFO @ Fri, 10 Dec 2021 19:02:27: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (8313 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 19:02:42: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:02:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.20_peaks.xls INFO @ Fri, 10 Dec 2021 19:02:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:02:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730754/SRX9730754.20_summits.bed INFO @ Fri, 10 Dec 2021 19:02:55: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (7248 records, 4 fields): 15 millis CompletedMACS2peakCalling