Job ID = 14167126 SRX = SRX4712948 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 29045287 spots for SRR7874078/SRR7874078.sra Written 29045287 spots for SRR7874078/SRR7874078.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167584 ("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: 00:07:41 29045287 reads; of these: 29045287 (100.00%) were unpaired; of these: 2809436 (9.67%) aligned 0 times 20580993 (70.86%) aligned exactly 1 time 5654858 (19.47%) aligned >1 times 90.33% overall alignment rate Time searching: 00:07:41 Overall time: 00:07:41 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] 17809413 / 26235851 = 0.6788 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 10:29:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.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 10:29:20: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:29:20: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:29:25: 1000000 INFO @ Fri, 10 Dec 2021 10:29:30: 2000000 INFO @ Fri, 10 Dec 2021 10:29:35: 3000000 INFO @ Fri, 10 Dec 2021 10:29:39: 4000000 INFO @ Fri, 10 Dec 2021 10:29:44: 5000000 INFO @ Fri, 10 Dec 2021 10:29:49: 6000000 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 10:29:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.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 10:29:50: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:29:50: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:29:53: 7000000 INFO @ Fri, 10 Dec 2021 10:29:55: 1000000 INFO @ Fri, 10 Dec 2021 10:29:58: 8000000 INFO @ Fri, 10 Dec 2021 10:30:00: 2000000 INFO @ Fri, 10 Dec 2021 10:30:00: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:30:00: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:30:00: #1 total tags in treatment: 8426438 INFO @ Fri, 10 Dec 2021 10:30:00: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:30:00: #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 10:30:01: #1 tags after filtering in treatment: 8426438 INFO @ Fri, 10 Dec 2021 10:30:01: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:30:01: #1 finished! INFO @ Fri, 10 Dec 2021 10:30:01: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:30:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:30:01: #2 number of paired peaks: 1068 INFO @ Fri, 10 Dec 2021 10:30:01: start model_add_line... INFO @ Fri, 10 Dec 2021 10:30:01: start X-correlation... INFO @ Fri, 10 Dec 2021 10:30:01: end of X-cor INFO @ Fri, 10 Dec 2021 10:30:01: #2 finished! INFO @ Fri, 10 Dec 2021 10:30:01: #2 predicted fragment length is 147 bps INFO @ Fri, 10 Dec 2021 10:30:01: #2 alternative fragment length(s) may be 147 bps INFO @ Fri, 10 Dec 2021 10:30:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.05_model.r INFO @ Fri, 10 Dec 2021 10:30:01: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:30:01: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:30:05: 3000000 INFO @ Fri, 10 Dec 2021 10:30:10: 4000000 INFO @ Fri, 10 Dec 2021 10:30:14: 5000000 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 10:30:19: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:30:19: 6000000 INFO @ Fri, 10 Dec 2021 10:30:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.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 10:30:20: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:30:20: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:30:24: 7000000 INFO @ Fri, 10 Dec 2021 10:30:26: 1000000 INFO @ Fri, 10 Dec 2021 10:30:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.05_peaks.xls INFO @ Fri, 10 Dec 2021 10:30:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:30:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.05_summits.bed INFO @ Fri, 10 Dec 2021 10:30:28: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5993 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 10:30:29: 8000000 INFO @ Fri, 10 Dec 2021 10:30:31: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:30:31: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:30:31: #1 total tags in treatment: 8426438 INFO @ Fri, 10 Dec 2021 10:30:31: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:30:31: #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 10:30:31: #1 tags after filtering in treatment: 8426438 INFO @ Fri, 10 Dec 2021 10:30:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:30:31: #1 finished! INFO @ Fri, 10 Dec 2021 10:30:31: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:30:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:30:32: 2000000 INFO @ Fri, 10 Dec 2021 10:30:32: #2 number of paired peaks: 1068 INFO @ Fri, 10 Dec 2021 10:30:32: start model_add_line... INFO @ Fri, 10 Dec 2021 10:30:32: start X-correlation... INFO @ Fri, 10 Dec 2021 10:30:32: end of X-cor INFO @ Fri, 10 Dec 2021 10:30:32: #2 finished! INFO @ Fri, 10 Dec 2021 10:30:32: #2 predicted fragment length is 147 bps INFO @ Fri, 10 Dec 2021 10:30:32: #2 alternative fragment length(s) may be 147 bps INFO @ Fri, 10 Dec 2021 10:30:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.10_model.r INFO @ Fri, 10 Dec 2021 10:30:32: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:30:32: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:30:37: 3000000 INFO @ Fri, 10 Dec 2021 10:30:43: 4000000 INFO @ Fri, 10 Dec 2021 10:30:49: 5000000 INFO @ Fri, 10 Dec 2021 10:30:50: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:30:54: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 10:30:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.10_peaks.xls INFO @ Fri, 10 Dec 2021 10:30:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:30:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.10_summits.bed INFO @ Fri, 10 Dec 2021 10:30:58: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4151 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 10:31:00: 7000000 INFO @ Fri, 10 Dec 2021 10:31:05: 8000000 INFO @ Fri, 10 Dec 2021 10:31:07: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:31:07: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:31:07: #1 total tags in treatment: 8426438 INFO @ Fri, 10 Dec 2021 10:31:07: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:31:07: #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 10:31:08: #1 tags after filtering in treatment: 8426438 INFO @ Fri, 10 Dec 2021 10:31:08: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:31:08: #1 finished! INFO @ Fri, 10 Dec 2021 10:31:08: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:31:08: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:31:08: #2 number of paired peaks: 1068 INFO @ Fri, 10 Dec 2021 10:31:08: start model_add_line... INFO @ Fri, 10 Dec 2021 10:31:08: start X-correlation... INFO @ Fri, 10 Dec 2021 10:31:08: end of X-cor INFO @ Fri, 10 Dec 2021 10:31:08: #2 finished! INFO @ Fri, 10 Dec 2021 10:31:08: #2 predicted fragment length is 147 bps INFO @ Fri, 10 Dec 2021 10:31:08: #2 alternative fragment length(s) may be 147 bps INFO @ Fri, 10 Dec 2021 10:31:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.20_model.r INFO @ Fri, 10 Dec 2021 10:31:08: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:31:08: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 10:31:26: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:31:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.20_peaks.xls INFO @ Fri, 10 Dec 2021 10:31:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:31:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712948/SRX4712948.20_summits.bed INFO @ Fri, 10 Dec 2021 10:31:36: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2658 records, 4 fields): 4 millis CompletedMACS2peakCalling