Job ID = 12265071 SRX = SRX3032278 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:08 19679751 reads; of these: 19679751 (100.00%) were unpaired; of these: 3663358 (18.61%) aligned 0 times 14615428 (74.27%) aligned exactly 1 time 1400965 (7.12%) aligned >1 times 81.39% overall alignment rate Time searching: 00:04:08 Overall time: 00:04:08 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 7203993 / 16016393 = 0.4498 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 06:14:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.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 06:14:35: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:14:35: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:14:41: 1000000 INFO @ Sat, 03 Apr 2021 06:14:47: 2000000 INFO @ Sat, 03 Apr 2021 06:14:52: 3000000 INFO @ Sat, 03 Apr 2021 06:14:58: 4000000 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 06:15:03: 5000000 INFO @ Sat, 03 Apr 2021 06:15:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.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 06:15:05: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:15:05: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:15:09: 6000000 INFO @ Sat, 03 Apr 2021 06:15:12: 1000000 INFO @ Sat, 03 Apr 2021 06:15:15: 7000000 INFO @ Sat, 03 Apr 2021 06:15:18: 2000000 INFO @ Sat, 03 Apr 2021 06:15:22: 8000000 INFO @ Sat, 03 Apr 2021 06:15:24: 3000000 INFO @ Sat, 03 Apr 2021 06:15:27: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:15:27: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:15:27: #1 total tags in treatment: 8812400 INFO @ Sat, 03 Apr 2021 06:15:27: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:15:27: #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 06:15:28: #1 tags after filtering in treatment: 8812362 INFO @ Sat, 03 Apr 2021 06:15:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:15:28: #1 finished! INFO @ Sat, 03 Apr 2021 06:15:28: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:15:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:15:28: #2 number of paired peaks: 3920 INFO @ Sat, 03 Apr 2021 06:15:28: start model_add_line... INFO @ Sat, 03 Apr 2021 06:15:29: start X-correlation... INFO @ Sat, 03 Apr 2021 06:15:29: end of X-cor INFO @ Sat, 03 Apr 2021 06:15:29: #2 finished! INFO @ Sat, 03 Apr 2021 06:15:29: #2 predicted fragment length is 84 bps INFO @ Sat, 03 Apr 2021 06:15:29: #2 alternative fragment length(s) may be 84 bps INFO @ Sat, 03 Apr 2021 06:15:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.05_model.r WARNING @ Sat, 03 Apr 2021 06:15:29: #2 Since the d (84) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:15:29: #2 You may need to consider one of the other alternative d(s): 84 WARNING @ Sat, 03 Apr 2021 06:15:29: #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 06:15:29: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:15:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:15:30: 4000000 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 06:15:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.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 06:15:35: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:15:35: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:15:36: 5000000 INFO @ Sat, 03 Apr 2021 06:15:42: 1000000 INFO @ Sat, 03 Apr 2021 06:15:42: 6000000 INFO @ Sat, 03 Apr 2021 06:15:47: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:15:48: 2000000 INFO @ Sat, 03 Apr 2021 06:15:48: 7000000 INFO @ Sat, 03 Apr 2021 06:15:54: 3000000 INFO @ Sat, 03 Apr 2021 06:15:55: 8000000 INFO @ Sat, 03 Apr 2021 06:15:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:15:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:15:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.05_summits.bed INFO @ Sat, 03 Apr 2021 06:15:57: Done! pass1 - making usageList (159 chroms): 4 millis pass2 - checking and writing primary data (18452 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:16:00: 4000000 INFO @ Sat, 03 Apr 2021 06:16:00: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:16:00: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:16:00: #1 total tags in treatment: 8812400 INFO @ Sat, 03 Apr 2021 06:16:00: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:16:00: #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 06:16:01: #1 tags after filtering in treatment: 8812362 INFO @ Sat, 03 Apr 2021 06:16:01: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:16:01: #1 finished! INFO @ Sat, 03 Apr 2021 06:16:01: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:16:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:16:02: #2 number of paired peaks: 3920 INFO @ Sat, 03 Apr 2021 06:16:02: start model_add_line... INFO @ Sat, 03 Apr 2021 06:16:02: start X-correlation... INFO @ Sat, 03 Apr 2021 06:16:02: end of X-cor INFO @ Sat, 03 Apr 2021 06:16:02: #2 finished! INFO @ Sat, 03 Apr 2021 06:16:02: #2 predicted fragment length is 84 bps INFO @ Sat, 03 Apr 2021 06:16:02: #2 alternative fragment length(s) may be 84 bps INFO @ Sat, 03 Apr 2021 06:16:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.10_model.r WARNING @ Sat, 03 Apr 2021 06:16:02: #2 Since the d (84) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:16:02: #2 You may need to consider one of the other alternative d(s): 84 WARNING @ Sat, 03 Apr 2021 06:16:02: #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 06:16:02: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:16:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:16:05: 5000000 INFO @ Sat, 03 Apr 2021 06:16:11: 6000000 INFO @ Sat, 03 Apr 2021 06:16:17: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:16:21: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:16:23: 8000000 INFO @ Sat, 03 Apr 2021 06:16:28: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:16:28: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:16:28: #1 total tags in treatment: 8812400 INFO @ Sat, 03 Apr 2021 06:16:28: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:16:28: #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 06:16:29: #1 tags after filtering in treatment: 8812362 INFO @ Sat, 03 Apr 2021 06:16:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:16:29: #1 finished! INFO @ Sat, 03 Apr 2021 06:16:29: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:16:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:16:30: #2 number of paired peaks: 3920 INFO @ Sat, 03 Apr 2021 06:16:30: start model_add_line... INFO @ Sat, 03 Apr 2021 06:16:30: start X-correlation... INFO @ Sat, 03 Apr 2021 06:16:30: end of X-cor INFO @ Sat, 03 Apr 2021 06:16:30: #2 finished! INFO @ Sat, 03 Apr 2021 06:16:30: #2 predicted fragment length is 84 bps INFO @ Sat, 03 Apr 2021 06:16:30: #2 alternative fragment length(s) may be 84 bps INFO @ Sat, 03 Apr 2021 06:16:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.20_model.r WARNING @ Sat, 03 Apr 2021 06:16:30: #2 Since the d (84) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:16:30: #2 You may need to consider one of the other alternative d(s): 84 WARNING @ Sat, 03 Apr 2021 06:16:30: #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 06:16:30: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:16:30: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:16:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:16:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:16:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.10_summits.bed INFO @ Sat, 03 Apr 2021 06:16:32: Done! pass1 - making usageList (108 chroms): 3 millis pass2 - checking and writing primary data (11479 records, 4 fields): 20 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:16:48: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:16:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:16:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:16:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032278/SRX3032278.20_summits.bed INFO @ Sat, 03 Apr 2021 06:16:58: Done! pass1 - making usageList (60 chroms): 2 millis pass2 - checking and writing primary data (4746 records, 4 fields): 10 millis CompletedMACS2peakCalling