Job ID = 12265687 SRX = SRX7281010 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 10575365 spots for SRR10601385/SRR10601385.sra Written 10575365 spots for SRR10601385/SRR10601385.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265813 ("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: 00:03:35 10575365 reads; of these: 10575365 (100.00%) were unpaired; of these: 5876053 (55.56%) aligned 0 times 3905147 (36.93%) aligned exactly 1 time 794165 (7.51%) aligned >1 times 44.44% overall alignment rate Time searching: 00:03:35 Overall time: 00:03:35 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] 1295990 / 4699312 = 0.2758 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 08:15:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.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 08:15:16: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:15:16: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:15:24: 1000000 INFO @ Sat, 03 Apr 2021 08:15:32: 2000000 INFO @ Sat, 03 Apr 2021 08:15:39: 3000000 INFO @ Sat, 03 Apr 2021 08:15:42: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:15:42: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:15:42: #1 total tags in treatment: 3403322 INFO @ Sat, 03 Apr 2021 08:15:42: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:15:42: #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 08:15:42: #1 tags after filtering in treatment: 3403322 INFO @ Sat, 03 Apr 2021 08:15:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:15:42: #1 finished! INFO @ Sat, 03 Apr 2021 08:15:42: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:15:42: #2 looking for paired plus/minus strand peaks... 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 08:15:43: #2 number of paired peaks: 5040 INFO @ Sat, 03 Apr 2021 08:15:43: start model_add_line... INFO @ Sat, 03 Apr 2021 08:15:43: start X-correlation... INFO @ Sat, 03 Apr 2021 08:15:43: end of X-cor INFO @ Sat, 03 Apr 2021 08:15:43: #2 finished! INFO @ Sat, 03 Apr 2021 08:15:43: #2 predicted fragment length is 91 bps INFO @ Sat, 03 Apr 2021 08:15:43: #2 alternative fragment length(s) may be 91 bps INFO @ Sat, 03 Apr 2021 08:15:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.05_model.r WARNING @ Sat, 03 Apr 2021 08:15:43: #2 Since the d (91) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:15:43: #2 You may need to consider one of the other alternative d(s): 91 WARNING @ Sat, 03 Apr 2021 08:15:43: #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 08:15:43: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:15:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:15:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.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 08:15:45: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:15:45: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:15:51: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:15:54: 1000000 INFO @ Sat, 03 Apr 2021 08:15:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.05_peaks.xls INFO @ Sat, 03 Apr 2021 08:15:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:15:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.05_summits.bed INFO @ Sat, 03 Apr 2021 08:15:55: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (13156 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:16:02: 2000000 INFO @ Sat, 03 Apr 2021 08:16:10: 3000000 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 08:16:13: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:16:13: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:16:13: #1 total tags in treatment: 3403322 INFO @ Sat, 03 Apr 2021 08:16:13: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:16:13: #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 08:16:14: #1 tags after filtering in treatment: 3403322 INFO @ Sat, 03 Apr 2021 08:16:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:16:14: #1 finished! INFO @ Sat, 03 Apr 2021 08:16:14: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:16:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:16:14: #2 number of paired peaks: 5040 INFO @ Sat, 03 Apr 2021 08:16:14: start model_add_line... INFO @ Sat, 03 Apr 2021 08:16:14: start X-correlation... INFO @ Sat, 03 Apr 2021 08:16:14: end of X-cor INFO @ Sat, 03 Apr 2021 08:16:14: #2 finished! INFO @ Sat, 03 Apr 2021 08:16:14: #2 predicted fragment length is 91 bps INFO @ Sat, 03 Apr 2021 08:16:14: #2 alternative fragment length(s) may be 91 bps INFO @ Sat, 03 Apr 2021 08:16:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.10_model.r WARNING @ Sat, 03 Apr 2021 08:16:14: #2 Since the d (91) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:16:14: #2 You may need to consider one of the other alternative d(s): 91 WARNING @ Sat, 03 Apr 2021 08:16:14: #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 08:16:14: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:16:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:16:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.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 08:16:15: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:16:15: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:16:22: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:16:23: 1000000 INFO @ Sat, 03 Apr 2021 08:16:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.10_peaks.xls INFO @ Sat, 03 Apr 2021 08:16:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:16:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.10_summits.bed INFO @ Sat, 03 Apr 2021 08:16:26: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (7634 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:16:31: 2000000 INFO @ Sat, 03 Apr 2021 08:16:38: 3000000 INFO @ Sat, 03 Apr 2021 08:16:41: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:16:41: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:16:41: #1 total tags in treatment: 3403322 INFO @ Sat, 03 Apr 2021 08:16:41: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:16:41: #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 08:16:41: #1 tags after filtering in treatment: 3403322 INFO @ Sat, 03 Apr 2021 08:16:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:16:41: #1 finished! INFO @ Sat, 03 Apr 2021 08:16:41: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:16:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:16:42: #2 number of paired peaks: 5040 INFO @ Sat, 03 Apr 2021 08:16:42: start model_add_line... INFO @ Sat, 03 Apr 2021 08:16:42: start X-correlation... INFO @ Sat, 03 Apr 2021 08:16:42: end of X-cor INFO @ Sat, 03 Apr 2021 08:16:42: #2 finished! INFO @ Sat, 03 Apr 2021 08:16:42: #2 predicted fragment length is 91 bps INFO @ Sat, 03 Apr 2021 08:16:42: #2 alternative fragment length(s) may be 91 bps INFO @ Sat, 03 Apr 2021 08:16:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.20_model.r WARNING @ Sat, 03 Apr 2021 08:16:42: #2 Since the d (91) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:16:42: #2 You may need to consider one of the other alternative d(s): 91 WARNING @ Sat, 03 Apr 2021 08:16:42: #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 08:16:42: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:16:42: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 08:16:49: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 08:16:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.20_peaks.xls INFO @ Sat, 03 Apr 2021 08:16:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:16:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281010/SRX7281010.20_summits.bed INFO @ Sat, 03 Apr 2021 08:16:53: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (2658 records, 4 fields): 6 millis CompletedMACS2peakCalling