Job ID = 14167112 SRX = SRX4712934 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 24040990 spots for SRR7874064/SRR7874064.sra Written 24040990 spots for SRR7874064/SRR7874064.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167549 ("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: 00:07:52 24040990 reads; of these: 24040990 (100.00%) were unpaired; of these: 625113 (2.60%) aligned 0 times 18298692 (76.11%) aligned exactly 1 time 5117185 (21.29%) aligned >1 times 97.40% overall alignment rate Time searching: 00:07:53 Overall time: 00:07:53 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] 8042875 / 23415877 = 0.3435 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 10:14:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.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 10:14:48: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:14:48: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:14:53: 1000000 INFO @ Fri, 10 Dec 2021 10:14:59: 2000000 INFO @ Fri, 10 Dec 2021 10:15:04: 3000000 INFO @ Fri, 10 Dec 2021 10:15:10: 4000000 INFO @ Fri, 10 Dec 2021 10:15:15: 5000000 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 10:15:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.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 10:15:17: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:15:17: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:15:21: 6000000 INFO @ Fri, 10 Dec 2021 10:15:24: 1000000 INFO @ Fri, 10 Dec 2021 10:15:27: 7000000 INFO @ Fri, 10 Dec 2021 10:15:30: 2000000 INFO @ Fri, 10 Dec 2021 10:15:33: 8000000 INFO @ Fri, 10 Dec 2021 10:15:36: 3000000 INFO @ Fri, 10 Dec 2021 10:15:40: 9000000 INFO @ Fri, 10 Dec 2021 10:15:42: 4000000 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 10:15:46: 10000000 INFO @ Fri, 10 Dec 2021 10:15:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.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 10:15:47: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:15:47: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:15:49: 5000000 INFO @ Fri, 10 Dec 2021 10:15:52: 11000000 INFO @ Fri, 10 Dec 2021 10:15:54: 1000000 INFO @ Fri, 10 Dec 2021 10:15:55: 6000000 INFO @ Fri, 10 Dec 2021 10:15:59: 12000000 INFO @ Fri, 10 Dec 2021 10:16:00: 2000000 INFO @ Fri, 10 Dec 2021 10:16:01: 7000000 INFO @ Fri, 10 Dec 2021 10:16:05: 13000000 INFO @ Fri, 10 Dec 2021 10:16:06: 3000000 INFO @ Fri, 10 Dec 2021 10:16:07: 8000000 INFO @ Fri, 10 Dec 2021 10:16:11: 14000000 INFO @ Fri, 10 Dec 2021 10:16:14: 4000000 INFO @ Fri, 10 Dec 2021 10:16:14: 9000000 INFO @ Fri, 10 Dec 2021 10:16:18: 15000000 INFO @ Fri, 10 Dec 2021 10:16:20: 10000000 INFO @ Fri, 10 Dec 2021 10:16:20: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:16:20: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:16:20: #1 total tags in treatment: 15373002 INFO @ Fri, 10 Dec 2021 10:16:20: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:16:20: #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 10:16:20: 5000000 INFO @ Fri, 10 Dec 2021 10:16:20: #1 tags after filtering in treatment: 15373002 INFO @ Fri, 10 Dec 2021 10:16:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:16:20: #1 finished! INFO @ Fri, 10 Dec 2021 10:16:20: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:16:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:16:22: #2 number of paired peaks: 5838 INFO @ Fri, 10 Dec 2021 10:16:22: start model_add_line... INFO @ Fri, 10 Dec 2021 10:16:22: start X-correlation... INFO @ Fri, 10 Dec 2021 10:16:22: end of X-cor INFO @ Fri, 10 Dec 2021 10:16:22: #2 finished! INFO @ Fri, 10 Dec 2021 10:16:22: #2 predicted fragment length is 159 bps INFO @ Fri, 10 Dec 2021 10:16:22: #2 alternative fragment length(s) may be 159 bps INFO @ Fri, 10 Dec 2021 10:16:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.05_model.r INFO @ Fri, 10 Dec 2021 10:16:22: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:16:22: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:16:26: 11000000 INFO @ Fri, 10 Dec 2021 10:16:27: 6000000 INFO @ Fri, 10 Dec 2021 10:16:32: 12000000 INFO @ Fri, 10 Dec 2021 10:16:33: 7000000 INFO @ Fri, 10 Dec 2021 10:16:39: 13000000 INFO @ Fri, 10 Dec 2021 10:16:40: 8000000 INFO @ Fri, 10 Dec 2021 10:16:45: 14000000 INFO @ Fri, 10 Dec 2021 10:16:46: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 10:16:52: 15000000 INFO @ Fri, 10 Dec 2021 10:16:53: 10000000 INFO @ Fri, 10 Dec 2021 10:16:54: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:16:54: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:16:54: #1 total tags in treatment: 15373002 INFO @ Fri, 10 Dec 2021 10:16:54: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:16:54: #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 10:16:55: #1 tags after filtering in treatment: 15373002 INFO @ Fri, 10 Dec 2021 10:16:55: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:16:55: #1 finished! INFO @ Fri, 10 Dec 2021 10:16:55: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:16:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:16:56: #2 number of paired peaks: 5838 INFO @ Fri, 10 Dec 2021 10:16:56: start model_add_line... INFO @ Fri, 10 Dec 2021 10:16:56: start X-correlation... INFO @ Fri, 10 Dec 2021 10:16:56: end of X-cor INFO @ Fri, 10 Dec 2021 10:16:56: #2 finished! INFO @ Fri, 10 Dec 2021 10:16:56: #2 predicted fragment length is 159 bps INFO @ Fri, 10 Dec 2021 10:16:56: #2 alternative fragment length(s) may be 159 bps INFO @ Fri, 10 Dec 2021 10:16:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.10_model.r INFO @ Fri, 10 Dec 2021 10:16:56: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:16:56: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:16:59: 11000000 INFO @ Fri, 10 Dec 2021 10:17:04: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:17:05: 12000000 INFO @ Fri, 10 Dec 2021 10:17:11: 13000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 10:17:17: 14000000 INFO @ Fri, 10 Dec 2021 10:17:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.05_peaks.xls INFO @ Fri, 10 Dec 2021 10:17:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:17:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.05_summits.bed INFO @ Fri, 10 Dec 2021 10:17:22: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (9813 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 10:17:24: 15000000 INFO @ Fri, 10 Dec 2021 10:17:26: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:17:26: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:17:26: #1 total tags in treatment: 15373002 INFO @ Fri, 10 Dec 2021 10:17:26: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:17:26: #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 10:17:26: #1 tags after filtering in treatment: 15373002 INFO @ Fri, 10 Dec 2021 10:17:26: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:17:26: #1 finished! INFO @ Fri, 10 Dec 2021 10:17:26: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:17:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:17:28: #2 number of paired peaks: 5838 INFO @ Fri, 10 Dec 2021 10:17:28: start model_add_line... INFO @ Fri, 10 Dec 2021 10:17:28: start X-correlation... INFO @ Fri, 10 Dec 2021 10:17:28: end of X-cor INFO @ Fri, 10 Dec 2021 10:17:28: #2 finished! INFO @ Fri, 10 Dec 2021 10:17:28: #2 predicted fragment length is 159 bps INFO @ Fri, 10 Dec 2021 10:17:28: #2 alternative fragment length(s) may be 159 bps INFO @ Fri, 10 Dec 2021 10:17:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.20_model.r INFO @ Fri, 10 Dec 2021 10:17:28: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:17:28: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:17:37: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:17:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.10_peaks.xls INFO @ Fri, 10 Dec 2021 10:17:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:17:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.10_summits.bed INFO @ Fri, 10 Dec 2021 10:17:55: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6828 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 10:18:08: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:18:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.20_peaks.xls INFO @ Fri, 10 Dec 2021 10:18:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:18:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712934/SRX4712934.20_summits.bed INFO @ Fri, 10 Dec 2021 10:18:26: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4292 records, 4 fields): 16 millis CompletedMACS2peakCalling