Job ID = 6626531 SRX = SRX6813070 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 14523695 spots for SRR10080072/SRR10080072.sra Written 14523695 spots for SRR10080072/SRR10080072.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626655 ("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: 00:03:20 14523695 reads; of these: 14523695 (100.00%) were unpaired; of these: 2837605 (19.54%) aligned 0 times 10210832 (70.30%) aligned exactly 1 time 1475258 (10.16%) aligned >1 times 80.46% overall alignment rate Time searching: 00:03:20 Overall time: 00:03:20 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 8 files... [bam_rmdupse_core] 3165612 / 11686090 = 0.2709 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 07:27:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.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 07:27:34: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:27:34: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:27:41: 1000000 INFO @ Tue, 14 Jul 2020 07:27:47: 2000000 INFO @ Tue, 14 Jul 2020 07:27:54: 3000000 INFO @ Tue, 14 Jul 2020 07:28:00: 4000000 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 07:28:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.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 07:28:04: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:28:04: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:28:07: 5000000 INFO @ Tue, 14 Jul 2020 07:28:14: 1000000 INFO @ Tue, 14 Jul 2020 07:28:15: 6000000 INFO @ Tue, 14 Jul 2020 07:28:22: 7000000 INFO @ Tue, 14 Jul 2020 07:28:25: 2000000 INFO @ Tue, 14 Jul 2020 07:28:30: 8000000 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 07:28:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.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 07:28:34: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:28:34: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:28:34: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:28:34: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:28:34: #1 total tags in treatment: 8520478 INFO @ Tue, 14 Jul 2020 07:28:34: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:28:34: #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 07:28:34: #1 tags after filtering in treatment: 8520478 INFO @ Tue, 14 Jul 2020 07:28:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:28:34: #1 finished! INFO @ Tue, 14 Jul 2020 07:28:34: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:28:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:28:35: #2 number of paired peaks: 3833 INFO @ Tue, 14 Jul 2020 07:28:35: start model_add_line... INFO @ Tue, 14 Jul 2020 07:28:35: start X-correlation... INFO @ Tue, 14 Jul 2020 07:28:35: end of X-cor INFO @ Tue, 14 Jul 2020 07:28:35: #2 finished! INFO @ Tue, 14 Jul 2020 07:28:35: #2 predicted fragment length is 220 bps INFO @ Tue, 14 Jul 2020 07:28:35: #2 alternative fragment length(s) may be 220 bps INFO @ Tue, 14 Jul 2020 07:28:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.05_model.r INFO @ Tue, 14 Jul 2020 07:28:35: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:28:35: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:28:35: 3000000 INFO @ Tue, 14 Jul 2020 07:28:41: 1000000 INFO @ Tue, 14 Jul 2020 07:28:46: 4000000 INFO @ Tue, 14 Jul 2020 07:28:49: 2000000 INFO @ Tue, 14 Jul 2020 07:28:55: 5000000 INFO @ Tue, 14 Jul 2020 07:28:56: 3000000 INFO @ Tue, 14 Jul 2020 07:28:57: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:29:04: 4000000 INFO @ Tue, 14 Jul 2020 07:29:06: 6000000 INFO @ Tue, 14 Jul 2020 07:29:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:29:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:29:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.05_summits.bed INFO @ Tue, 14 Jul 2020 07:29:08: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (8063 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:29:11: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:29:16: 7000000 INFO @ Tue, 14 Jul 2020 07:29:19: 6000000 INFO @ Tue, 14 Jul 2020 07:29:26: 7000000 INFO @ Tue, 14 Jul 2020 07:29:27: 8000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:29:32: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:29:32: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:29:32: #1 total tags in treatment: 8520478 INFO @ Tue, 14 Jul 2020 07:29:32: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:29:32: #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 07:29:32: #1 tags after filtering in treatment: 8520478 INFO @ Tue, 14 Jul 2020 07:29:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:29:32: #1 finished! INFO @ Tue, 14 Jul 2020 07:29:32: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:29:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:29:33: #2 number of paired peaks: 3833 INFO @ Tue, 14 Jul 2020 07:29:33: start model_add_line... INFO @ Tue, 14 Jul 2020 07:29:33: start X-correlation... INFO @ Tue, 14 Jul 2020 07:29:33: end of X-cor INFO @ Tue, 14 Jul 2020 07:29:33: #2 finished! INFO @ Tue, 14 Jul 2020 07:29:33: #2 predicted fragment length is 220 bps INFO @ Tue, 14 Jul 2020 07:29:33: #2 alternative fragment length(s) may be 220 bps INFO @ Tue, 14 Jul 2020 07:29:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.10_model.r INFO @ Tue, 14 Jul 2020 07:29:33: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:29:33: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:29:33: 8000000 INFO @ Tue, 14 Jul 2020 07:29:37: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:29:37: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:29:37: #1 total tags in treatment: 8520478 INFO @ Tue, 14 Jul 2020 07:29:37: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:29:37: #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 07:29:37: #1 tags after filtering in treatment: 8520478 INFO @ Tue, 14 Jul 2020 07:29:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:29:37: #1 finished! INFO @ Tue, 14 Jul 2020 07:29:37: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:29:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:29:38: #2 number of paired peaks: 3833 INFO @ Tue, 14 Jul 2020 07:29:38: start model_add_line... INFO @ Tue, 14 Jul 2020 07:29:38: start X-correlation... INFO @ Tue, 14 Jul 2020 07:29:38: end of X-cor INFO @ Tue, 14 Jul 2020 07:29:38: #2 finished! INFO @ Tue, 14 Jul 2020 07:29:38: #2 predicted fragment length is 220 bps INFO @ Tue, 14 Jul 2020 07:29:38: #2 alternative fragment length(s) may be 220 bps INFO @ Tue, 14 Jul 2020 07:29:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.20_model.r INFO @ Tue, 14 Jul 2020 07:29:38: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:29:38: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:29:57: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:29:59: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:30:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:30:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:30:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.10_summits.bed INFO @ Tue, 14 Jul 2020 07:30:09: Done! INFO @ Tue, 14 Jul 2020 07:30:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.20_peaks.xls pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (6353 records, 4 fields): 20 millis INFO @ Tue, 14 Jul 2020 07:30:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.20_peaks.narrowPeak CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:30:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813070/SRX6813070.20_summits.bed INFO @ Tue, 14 Jul 2020 07:30:10: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (4830 records, 4 fields): 34 millis CompletedMACS2peakCalling