Job ID = 14166960 SRX = SRX7541128 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 46914779 spots for SRR10871142/SRR10871142.sra Written 46914779 spots for SRR10871142/SRR10871142.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167280 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:08:29 46914779 reads; of these: 46914779 (100.00%) were unpaired; of these: 14607208 (31.14%) aligned 0 times 28757345 (61.30%) aligned exactly 1 time 3550226 (7.57%) aligned >1 times 68.86% overall alignment rate Time searching: 00:08:30 Overall time: 00:08:30 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 16 files... [bam_rmdupse_core] 8499901 / 32307571 = 0.2631 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 08:20:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.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 08:20:39: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:20:39: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:20:45: 1000000 INFO @ Fri, 10 Dec 2021 08:20:50: 2000000 INFO @ Fri, 10 Dec 2021 08:20:55: 3000000 INFO @ Fri, 10 Dec 2021 08:21:01: 4000000 INFO @ Fri, 10 Dec 2021 08:21:06: 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 08:21:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.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 08:21:09: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:21:09: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:21:11: 6000000 INFO @ Fri, 10 Dec 2021 08:21:15: 1000000 INFO @ Fri, 10 Dec 2021 08:21:17: 7000000 INFO @ Fri, 10 Dec 2021 08:21:21: 2000000 INFO @ Fri, 10 Dec 2021 08:21:23: 8000000 INFO @ Fri, 10 Dec 2021 08:21:27: 3000000 INFO @ Fri, 10 Dec 2021 08:21:29: 9000000 INFO @ Fri, 10 Dec 2021 08:21:33: 4000000 INFO @ Fri, 10 Dec 2021 08:21:35: 10000000 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 08:21:39: 5000000 INFO @ Fri, 10 Dec 2021 08:21:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.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 08:21:39: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:21:39: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:21:41: 11000000 INFO @ Fri, 10 Dec 2021 08:21:45: 6000000 INFO @ Fri, 10 Dec 2021 08:21:45: 1000000 INFO @ Fri, 10 Dec 2021 08:21:47: 12000000 INFO @ Fri, 10 Dec 2021 08:21:51: 7000000 INFO @ Fri, 10 Dec 2021 08:21:51: 2000000 INFO @ Fri, 10 Dec 2021 08:21:53: 13000000 INFO @ Fri, 10 Dec 2021 08:21:57: 8000000 INFO @ Fri, 10 Dec 2021 08:21:57: 3000000 INFO @ Fri, 10 Dec 2021 08:21:59: 14000000 INFO @ Fri, 10 Dec 2021 08:22:02: 9000000 INFO @ Fri, 10 Dec 2021 08:22:03: 4000000 INFO @ Fri, 10 Dec 2021 08:22:05: 15000000 INFO @ Fri, 10 Dec 2021 08:22:08: 10000000 INFO @ Fri, 10 Dec 2021 08:22:09: 5000000 INFO @ Fri, 10 Dec 2021 08:22:11: 16000000 INFO @ Fri, 10 Dec 2021 08:22:14: 11000000 INFO @ Fri, 10 Dec 2021 08:22:15: 6000000 INFO @ Fri, 10 Dec 2021 08:22:16: 17000000 INFO @ Fri, 10 Dec 2021 08:22:20: 12000000 INFO @ Fri, 10 Dec 2021 08:22:21: 7000000 INFO @ Fri, 10 Dec 2021 08:22:22: 18000000 INFO @ Fri, 10 Dec 2021 08:22:26: 13000000 INFO @ Fri, 10 Dec 2021 08:22:27: 8000000 INFO @ Fri, 10 Dec 2021 08:22:28: 19000000 INFO @ Fri, 10 Dec 2021 08:22:32: 14000000 INFO @ Fri, 10 Dec 2021 08:22:33: 9000000 INFO @ Fri, 10 Dec 2021 08:22:34: 20000000 INFO @ Fri, 10 Dec 2021 08:22:38: 15000000 INFO @ Fri, 10 Dec 2021 08:22:39: 10000000 INFO @ Fri, 10 Dec 2021 08:22:40: 21000000 INFO @ Fri, 10 Dec 2021 08:22:44: 16000000 INFO @ Fri, 10 Dec 2021 08:22:45: 11000000 INFO @ Fri, 10 Dec 2021 08:22:46: 22000000 INFO @ Fri, 10 Dec 2021 08:22:50: 17000000 INFO @ Fri, 10 Dec 2021 08:22:51: 12000000 INFO @ Fri, 10 Dec 2021 08:22:52: 23000000 INFO @ Fri, 10 Dec 2021 08:22:56: 18000000 INFO @ Fri, 10 Dec 2021 08:22:57: 13000000 INFO @ Fri, 10 Dec 2021 08:22:57: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:22:57: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:22:57: #1 total tags in treatment: 23807670 INFO @ Fri, 10 Dec 2021 08:22:57: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:22:57: #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 08:22:58: #1 tags after filtering in treatment: 23807670 INFO @ Fri, 10 Dec 2021 08:22:58: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:22:58: #1 finished! INFO @ Fri, 10 Dec 2021 08:22:58: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:22:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:22:59: #2 number of paired peaks: 1097 INFO @ Fri, 10 Dec 2021 08:22:59: start model_add_line... INFO @ Fri, 10 Dec 2021 08:22:59: start X-correlation... INFO @ Fri, 10 Dec 2021 08:22:59: end of X-cor INFO @ Fri, 10 Dec 2021 08:22:59: #2 finished! INFO @ Fri, 10 Dec 2021 08:22:59: #2 predicted fragment length is 240 bps INFO @ Fri, 10 Dec 2021 08:22:59: #2 alternative fragment length(s) may be 240 bps INFO @ Fri, 10 Dec 2021 08:22:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.05_model.r INFO @ Fri, 10 Dec 2021 08:22:59: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:22:59: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:23:02: 19000000 INFO @ Fri, 10 Dec 2021 08:23:03: 14000000 INFO @ Fri, 10 Dec 2021 08:23:08: 20000000 INFO @ Fri, 10 Dec 2021 08:23:09: 15000000 INFO @ Fri, 10 Dec 2021 08:23:15: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 08:23:15: 16000000 INFO @ Fri, 10 Dec 2021 08:23:21: 22000000 INFO @ Fri, 10 Dec 2021 08:23:22: 17000000 INFO @ Fri, 10 Dec 2021 08:23:27: 23000000 INFO @ Fri, 10 Dec 2021 08:23:28: 18000000 INFO @ Fri, 10 Dec 2021 08:23:32: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:23:32: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:23:32: #1 total tags in treatment: 23807670 INFO @ Fri, 10 Dec 2021 08:23:32: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:23:32: #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 08:23:33: #1 tags after filtering in treatment: 23807670 INFO @ Fri, 10 Dec 2021 08:23:33: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:23:33: #1 finished! INFO @ Fri, 10 Dec 2021 08:23:33: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:23:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:23:34: 19000000 INFO @ Fri, 10 Dec 2021 08:23:34: #2 number of paired peaks: 1097 INFO @ Fri, 10 Dec 2021 08:23:34: start model_add_line... INFO @ Fri, 10 Dec 2021 08:23:35: start X-correlation... INFO @ Fri, 10 Dec 2021 08:23:35: end of X-cor INFO @ Fri, 10 Dec 2021 08:23:35: #2 finished! INFO @ Fri, 10 Dec 2021 08:23:35: #2 predicted fragment length is 240 bps INFO @ Fri, 10 Dec 2021 08:23:35: #2 alternative fragment length(s) may be 240 bps INFO @ Fri, 10 Dec 2021 08:23:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.10_model.r INFO @ Fri, 10 Dec 2021 08:23:35: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:23:35: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:23:40: 20000000 INFO @ Fri, 10 Dec 2021 08:23:45: 21000000 INFO @ Fri, 10 Dec 2021 08:23:48: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:23:50: 22000000 INFO @ Fri, 10 Dec 2021 08:23:56: 23000000 INFO @ Fri, 10 Dec 2021 08:24:00: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:24:00: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:24:00: #1 total tags in treatment: 23807670 INFO @ Fri, 10 Dec 2021 08:24:00: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:24:00: #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 08:24:00: #1 tags after filtering in treatment: 23807670 INFO @ Fri, 10 Dec 2021 08:24:00: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:24:00: #1 finished! INFO @ Fri, 10 Dec 2021 08:24:00: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:24:00: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 08:24:02: #2 number of paired peaks: 1097 INFO @ Fri, 10 Dec 2021 08:24:02: start model_add_line... INFO @ Fri, 10 Dec 2021 08:24:02: start X-correlation... INFO @ Fri, 10 Dec 2021 08:24:02: end of X-cor INFO @ Fri, 10 Dec 2021 08:24:02: #2 finished! INFO @ Fri, 10 Dec 2021 08:24:02: #2 predicted fragment length is 240 bps INFO @ Fri, 10 Dec 2021 08:24:02: #2 alternative fragment length(s) may be 240 bps INFO @ Fri, 10 Dec 2021 08:24:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.20_model.r INFO @ Fri, 10 Dec 2021 08:24:02: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:24:02: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:24:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.05_peaks.xls INFO @ Fri, 10 Dec 2021 08:24:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:24:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.05_summits.bed INFO @ Fri, 10 Dec 2021 08:24:10: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (7320 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:24:23: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:24:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.10_peaks.xls INFO @ Fri, 10 Dec 2021 08:24:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:24:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.10_summits.bed INFO @ Fri, 10 Dec 2021 08:24:45: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (6452 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:24:51: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:25:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.20_peaks.xls INFO @ Fri, 10 Dec 2021 08:25:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:25:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541128/SRX7541128.20_summits.bed INFO @ Fri, 10 Dec 2021 08:25:12: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (5379 records, 4 fields): 7 millis CompletedMACS2peakCalling