Job ID = 6626549 SRX = SRX6813086 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 16127739 spots for SRR10080056/SRR10080056.sra Written 16127739 spots for SRR10080056/SRR10080056.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626678 ("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: 00:03:14 16127739 reads; of these: 16127739 (100.00%) were unpaired; of these: 6934166 (43.00%) aligned 0 times 7489838 (46.44%) aligned exactly 1 time 1703735 (10.56%) aligned >1 times 57.00% overall alignment rate Time searching: 00:03:14 Overall time: 00:03:14 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_rmdupse_core] 634602 / 9193573 = 0.0690 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 @ Tue, 14 Jul 2020 07:35:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.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, 14 Jul 2020 07:35:34: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:35:34: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:35:39: 1000000 INFO @ Tue, 14 Jul 2020 07:35:44: 2000000 INFO @ Tue, 14 Jul 2020 07:35:49: 3000000 INFO @ Tue, 14 Jul 2020 07:35:53: 4000000 INFO @ Tue, 14 Jul 2020 07:35:58: 5000000 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 @ Tue, 14 Jul 2020 07:36:03: 6000000 INFO @ Tue, 14 Jul 2020 07:36:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.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, 14 Jul 2020 07:36:04: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:36:04: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:36:08: 7000000 INFO @ Tue, 14 Jul 2020 07:36:09: 1000000 INFO @ Tue, 14 Jul 2020 07:36:13: 8000000 INFO @ Tue, 14 Jul 2020 07:36:15: 2000000 INFO @ Tue, 14 Jul 2020 07:36:16: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:36:16: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:36:16: #1 total tags in treatment: 8558971 INFO @ Tue, 14 Jul 2020 07:36:16: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:36:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:36:16: #1 tags after filtering in treatment: 8558971 INFO @ Tue, 14 Jul 2020 07:36:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:36:16: #1 finished! INFO @ Tue, 14 Jul 2020 07:36:16: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:36:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:36:17: #2 number of paired peaks: 1001 INFO @ Tue, 14 Jul 2020 07:36:17: start model_add_line... INFO @ Tue, 14 Jul 2020 07:36:17: start X-correlation... INFO @ Tue, 14 Jul 2020 07:36:17: end of X-cor INFO @ Tue, 14 Jul 2020 07:36:17: #2 finished! INFO @ Tue, 14 Jul 2020 07:36:17: #2 predicted fragment length is 196 bps INFO @ Tue, 14 Jul 2020 07:36:17: #2 alternative fragment length(s) may be 196 bps INFO @ Tue, 14 Jul 2020 07:36:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.05_model.r INFO @ Tue, 14 Jul 2020 07:36:17: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:36:17: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:36:21: 3000000 INFO @ Tue, 14 Jul 2020 07:36:26: 4000000 INFO @ Tue, 14 Jul 2020 07:36:31: 5000000 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 @ Tue, 14 Jul 2020 07:36:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.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, 14 Jul 2020 07:36:34: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:36:34: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:36:34: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:36:37: 6000000 INFO @ Tue, 14 Jul 2020 07:36:39: 1000000 INFO @ Tue, 14 Jul 2020 07:36:42: 7000000 INFO @ Tue, 14 Jul 2020 07:36:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:36:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:36:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.05_summits.bed INFO @ Tue, 14 Jul 2020 07:36:43: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (4440 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:36:45: 2000000 INFO @ Tue, 14 Jul 2020 07:36:48: 8000000 INFO @ Tue, 14 Jul 2020 07:36:50: 3000000 INFO @ Tue, 14 Jul 2020 07:36:51: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:36:51: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:36:51: #1 total tags in treatment: 8558971 INFO @ Tue, 14 Jul 2020 07:36:51: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:36:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:36:51: #1 tags after filtering in treatment: 8558971 INFO @ Tue, 14 Jul 2020 07:36:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:36:51: #1 finished! INFO @ Tue, 14 Jul 2020 07:36:51: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:36:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:36:52: #2 number of paired peaks: 1001 INFO @ Tue, 14 Jul 2020 07:36:52: start model_add_line... INFO @ Tue, 14 Jul 2020 07:36:52: start X-correlation... INFO @ Tue, 14 Jul 2020 07:36:52: end of X-cor INFO @ Tue, 14 Jul 2020 07:36:52: #2 finished! INFO @ Tue, 14 Jul 2020 07:36:52: #2 predicted fragment length is 196 bps INFO @ Tue, 14 Jul 2020 07:36:52: #2 alternative fragment length(s) may be 196 bps INFO @ Tue, 14 Jul 2020 07:36:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.10_model.r INFO @ Tue, 14 Jul 2020 07:36:52: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:36:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:36:55: 4000000 INFO @ Tue, 14 Jul 2020 07:37:00: 5000000 INFO @ Tue, 14 Jul 2020 07:37:04: 6000000 INFO @ Tue, 14 Jul 2020 07:37:09: 7000000 INFO @ Tue, 14 Jul 2020 07:37:10: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:37:14: 8000000 INFO @ Tue, 14 Jul 2020 07:37:17: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:37:17: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:37:17: #1 total tags in treatment: 8558971 INFO @ Tue, 14 Jul 2020 07:37:17: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:37:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:37:17: #1 tags after filtering in treatment: 8558971 INFO @ Tue, 14 Jul 2020 07:37:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:37:17: #1 finished! INFO @ Tue, 14 Jul 2020 07:37:17: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:37:17: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:37:18: #2 number of paired peaks: 1001 INFO @ Tue, 14 Jul 2020 07:37:18: start model_add_line... INFO @ Tue, 14 Jul 2020 07:37:18: start X-correlation... INFO @ Tue, 14 Jul 2020 07:37:18: end of X-cor INFO @ Tue, 14 Jul 2020 07:37:18: #2 finished! INFO @ Tue, 14 Jul 2020 07:37:18: #2 predicted fragment length is 196 bps INFO @ Tue, 14 Jul 2020 07:37:18: #2 alternative fragment length(s) may be 196 bps INFO @ Tue, 14 Jul 2020 07:37:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.20_model.r INFO @ Tue, 14 Jul 2020 07:37:18: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:37:18: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:37:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:37:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:37:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.10_summits.bed INFO @ Tue, 14 Jul 2020 07:37:19: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (3044 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:37:35: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:37:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:37:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:37:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813086/SRX6813086.20_summits.bed INFO @ Tue, 14 Jul 2020 07:37:45: Done! pass1 - making usageList (11 chroms): 0 millis pass2 - checking and writing primary data (2037 records, 4 fields): 18 millis CompletedMACS2peakCalling