Job ID = 12265274 SRX = SRX5010734 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 27866139 spots for SRR8191159/SRR8191159.sra Written 27866139 spots for SRR8191159/SRR8191159.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265421 ("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: 00:08:30 27866139 reads; of these: 27866139 (100.00%) were unpaired; of these: 928397 (3.33%) aligned 0 times 16522505 (59.29%) aligned exactly 1 time 10415237 (37.38%) aligned >1 times 96.67% 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 12 files... [bam_rmdupse_core] 15455081 / 26937742 = 0.5737 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:37:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.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 @ Sat, 03 Apr 2021 06:37:41: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:37:41: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:37:51: 1000000 INFO @ Sat, 03 Apr 2021 06:38:00: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:38:09: 3000000 INFO @ Sat, 03 Apr 2021 06:38:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.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 @ Sat, 03 Apr 2021 06:38:12: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:38:12: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:38:19: 4000000 INFO @ Sat, 03 Apr 2021 06:38:23: 1000000 INFO @ Sat, 03 Apr 2021 06:38:29: 5000000 INFO @ Sat, 03 Apr 2021 06:38:33: 2000000 INFO @ Sat, 03 Apr 2021 06:38:39: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:38:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.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 @ Sat, 03 Apr 2021 06:38:42: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:38:42: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:38:43: 3000000 INFO @ Sat, 03 Apr 2021 06:38:49: 7000000 INFO @ Sat, 03 Apr 2021 06:38:52: 1000000 INFO @ Sat, 03 Apr 2021 06:38:54: 4000000 INFO @ Sat, 03 Apr 2021 06:39:00: 8000000 INFO @ Sat, 03 Apr 2021 06:39:03: 2000000 INFO @ Sat, 03 Apr 2021 06:39:05: 5000000 INFO @ Sat, 03 Apr 2021 06:39:11: 9000000 INFO @ Sat, 03 Apr 2021 06:39:15: 3000000 INFO @ Sat, 03 Apr 2021 06:39:18: 6000000 INFO @ Sat, 03 Apr 2021 06:39:24: 10000000 INFO @ Sat, 03 Apr 2021 06:39:27: 4000000 INFO @ Sat, 03 Apr 2021 06:39:30: 7000000 INFO @ Sat, 03 Apr 2021 06:39:36: 11000000 INFO @ Sat, 03 Apr 2021 06:39:39: 5000000 INFO @ Sat, 03 Apr 2021 06:39:41: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:39:41: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:39:41: #1 total tags in treatment: 11482661 INFO @ Sat, 03 Apr 2021 06:39:41: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:39:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:39:41: #1 tags after filtering in treatment: 11482661 INFO @ Sat, 03 Apr 2021 06:39:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:39:41: #1 finished! INFO @ Sat, 03 Apr 2021 06:39:41: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:39:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:39:42: 8000000 INFO @ Sat, 03 Apr 2021 06:39:43: #2 number of paired peaks: 2057 INFO @ Sat, 03 Apr 2021 06:39:43: start model_add_line... INFO @ Sat, 03 Apr 2021 06:39:43: start X-correlation... INFO @ Sat, 03 Apr 2021 06:39:43: end of X-cor INFO @ Sat, 03 Apr 2021 06:39:43: #2 finished! INFO @ Sat, 03 Apr 2021 06:39:43: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:39:43: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:39:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.05_model.r WARNING @ Sat, 03 Apr 2021 06:39:43: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:39:43: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:39:43: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:39:43: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:39:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:39:50: 6000000 INFO @ Sat, 03 Apr 2021 06:39:53: 9000000 INFO @ Sat, 03 Apr 2021 06:40:00: 7000000 INFO @ Sat, 03 Apr 2021 06:40:03: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:40:11: 8000000 INFO @ Sat, 03 Apr 2021 06:40:14: 11000000 INFO @ Sat, 03 Apr 2021 06:40:19: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:40:19: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:40:19: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:40:19: #1 total tags in treatment: 11482661 INFO @ Sat, 03 Apr 2021 06:40:19: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:40:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:40:19: #1 tags after filtering in treatment: 11482661 INFO @ Sat, 03 Apr 2021 06:40:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:40:19: #1 finished! INFO @ Sat, 03 Apr 2021 06:40:19: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:40:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:40:20: #2 number of paired peaks: 2057 INFO @ Sat, 03 Apr 2021 06:40:20: start model_add_line... INFO @ Sat, 03 Apr 2021 06:40:21: start X-correlation... INFO @ Sat, 03 Apr 2021 06:40:21: end of X-cor INFO @ Sat, 03 Apr 2021 06:40:21: #2 finished! INFO @ Sat, 03 Apr 2021 06:40:21: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:40:21: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:40:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.10_model.r WARNING @ Sat, 03 Apr 2021 06:40:21: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:40:21: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:40:21: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:40:21: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:40:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:40:21: 9000000 INFO @ Sat, 03 Apr 2021 06:40:30: 10000000 INFO @ Sat, 03 Apr 2021 06:40:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:40:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:40:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.05_summits.bed INFO @ Sat, 03 Apr 2021 06:40:39: Done! pass1 - making usageList (15 chroms): 7 millis pass2 - checking and writing primary data (13558 records, 4 fields): 19 millis INFO @ Sat, 03 Apr 2021 06:40:39: 11000000 CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:40:44: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:40:44: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:40:44: #1 total tags in treatment: 11482661 INFO @ Sat, 03 Apr 2021 06:40:44: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:40:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:40:44: #1 tags after filtering in treatment: 11482661 INFO @ Sat, 03 Apr 2021 06:40:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:40:44: #1 finished! INFO @ Sat, 03 Apr 2021 06:40:44: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:40:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:40:45: #2 number of paired peaks: 2057 INFO @ Sat, 03 Apr 2021 06:40:45: start model_add_line... INFO @ Sat, 03 Apr 2021 06:40:45: start X-correlation... INFO @ Sat, 03 Apr 2021 06:40:45: end of X-cor INFO @ Sat, 03 Apr 2021 06:40:45: #2 finished! INFO @ Sat, 03 Apr 2021 06:40:45: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:40:45: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:40:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.20_model.r WARNING @ Sat, 03 Apr 2021 06:40:45: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:40:45: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:40:45: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:40:45: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:40:45: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:40:55: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:41:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:41:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:41:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.10_summits.bed INFO @ Sat, 03 Apr 2021 06:41:14: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (7713 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:41:19: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:41:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:41:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:41:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010734/SRX5010734.20_summits.bed INFO @ Sat, 03 Apr 2021 06:41:39: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (3127 records, 4 fields): 10 millis CompletedMACS2peakCalling