Job ID = 16439158 SRX = SRX15206432 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: 00:11:41 15482579 reads; of these: 15482579 (100.00%) were unpaired; of these: 554625 (3.58%) aligned 0 times 5420168 (35.01%) aligned exactly 1 time 9507786 (61.41%) aligned >1 times 96.42% overall alignment rate Time searching: 00:11:41 Overall time: 00:11:41 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3688294 / 14927954 = 0.2471 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:58:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.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, 02 Aug 2022 14:58:22: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:58:22: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:58:32: 1000000 INFO @ Tue, 02 Aug 2022 14:58:41: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:58:49: 3000000 INFO @ Tue, 02 Aug 2022 14:58:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.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, 02 Aug 2022 14:58:51: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:58:51: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:58:58: 4000000 INFO @ Tue, 02 Aug 2022 14:59:03: 1000000 INFO @ Tue, 02 Aug 2022 14:59:07: 5000000 INFO @ Tue, 02 Aug 2022 14:59:15: 2000000 INFO @ Tue, 02 Aug 2022 14:59:17: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:59:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.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, 02 Aug 2022 14:59:21: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:59:21: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:59:26: 7000000 INFO @ Tue, 02 Aug 2022 14:59:27: 3000000 INFO @ Tue, 02 Aug 2022 14:59:33: 1000000 INFO @ Tue, 02 Aug 2022 14:59:35: 8000000 INFO @ Tue, 02 Aug 2022 14:59:39: 4000000 INFO @ Tue, 02 Aug 2022 14:59:44: 9000000 INFO @ Tue, 02 Aug 2022 14:59:45: 2000000 INFO @ Tue, 02 Aug 2022 14:59:51: 5000000 INFO @ Tue, 02 Aug 2022 14:59:54: 10000000 INFO @ Tue, 02 Aug 2022 14:59:57: 3000000 INFO @ Tue, 02 Aug 2022 15:00:04: 11000000 INFO @ Tue, 02 Aug 2022 15:00:04: 6000000 INFO @ Tue, 02 Aug 2022 15:00:06: #1 tag size is determined as 100 bps INFO @ Tue, 02 Aug 2022 15:00:06: #1 tag size = 100 INFO @ Tue, 02 Aug 2022 15:00:06: #1 total tags in treatment: 11239660 INFO @ Tue, 02 Aug 2022 15:00:06: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:00:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:00:07: #1 tags after filtering in treatment: 11239569 INFO @ Tue, 02 Aug 2022 15:00:07: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:00:07: #1 finished! INFO @ Tue, 02 Aug 2022 15:00:07: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:00:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:00:08: 4000000 INFO @ Tue, 02 Aug 2022 15:00:08: #2 number of paired peaks: 6810 INFO @ Tue, 02 Aug 2022 15:00:08: start model_add_line... INFO @ Tue, 02 Aug 2022 15:00:09: start X-correlation... INFO @ Tue, 02 Aug 2022 15:00:09: end of X-cor INFO @ Tue, 02 Aug 2022 15:00:09: #2 finished! INFO @ Tue, 02 Aug 2022 15:00:09: #2 predicted fragment length is 136 bps INFO @ Tue, 02 Aug 2022 15:00:09: #2 alternative fragment length(s) may be 4,136 bps INFO @ Tue, 02 Aug 2022 15:00:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.05_model.r WARNING @ Tue, 02 Aug 2022 15:00:09: #2 Since the d (136) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 15:00:09: #2 You may need to consider one of the other alternative d(s): 4,136 WARNING @ Tue, 02 Aug 2022 15:00:09: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 15:00:09: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:00:09: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:00:17: 7000000 INFO @ Tue, 02 Aug 2022 15:00:20: 5000000 INFO @ Tue, 02 Aug 2022 15:00:29: 8000000 INFO @ Tue, 02 Aug 2022 15:00:33: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 15:00:42: 9000000 INFO @ Tue, 02 Aug 2022 15:00:45: 7000000 INFO @ Tue, 02 Aug 2022 15:00:45: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:00:53: 10000000 INFO @ Tue, 02 Aug 2022 15:00:56: 8000000 INFO @ Tue, 02 Aug 2022 15:01:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.05_peaks.xls INFO @ Tue, 02 Aug 2022 15:01:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:01:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.05_summits.bed INFO @ Tue, 02 Aug 2022 15:01:02: Done! pass1 - making usageList (1035 chroms): 8 millis pass2 - checking and writing primary data (6794 records, 4 fields): 62 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:01:05: 11000000 INFO @ Tue, 02 Aug 2022 15:01:08: #1 tag size is determined as 100 bps INFO @ Tue, 02 Aug 2022 15:01:08: #1 tag size = 100 INFO @ Tue, 02 Aug 2022 15:01:08: #1 total tags in treatment: 11239660 INFO @ Tue, 02 Aug 2022 15:01:08: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:01:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:01:08: #1 tags after filtering in treatment: 11239569 INFO @ Tue, 02 Aug 2022 15:01:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:01:08: #1 finished! INFO @ Tue, 02 Aug 2022 15:01:08: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:01:08: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 15:01:09: 9000000 INFO @ Tue, 02 Aug 2022 15:01:10: #2 number of paired peaks: 6810 INFO @ Tue, 02 Aug 2022 15:01:10: start model_add_line... INFO @ Tue, 02 Aug 2022 15:01:10: start X-correlation... INFO @ Tue, 02 Aug 2022 15:01:10: end of X-cor INFO @ Tue, 02 Aug 2022 15:01:10: #2 finished! INFO @ Tue, 02 Aug 2022 15:01:10: #2 predicted fragment length is 136 bps INFO @ Tue, 02 Aug 2022 15:01:10: #2 alternative fragment length(s) may be 4,136 bps INFO @ Tue, 02 Aug 2022 15:01:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.10_model.r WARNING @ Tue, 02 Aug 2022 15:01:10: #2 Since the d (136) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 15:01:10: #2 You may need to consider one of the other alternative d(s): 4,136 WARNING @ Tue, 02 Aug 2022 15:01:10: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 15:01:10: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:01:10: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:01:20: 10000000 INFO @ Tue, 02 Aug 2022 15:01:31: 11000000 INFO @ Tue, 02 Aug 2022 15:01:34: #1 tag size is determined as 100 bps INFO @ Tue, 02 Aug 2022 15:01:34: #1 tag size = 100 INFO @ Tue, 02 Aug 2022 15:01:34: #1 total tags in treatment: 11239660 INFO @ Tue, 02 Aug 2022 15:01:34: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:01:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:01:34: #1 tags after filtering in treatment: 11239569 INFO @ Tue, 02 Aug 2022 15:01:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:01:34: #1 finished! INFO @ Tue, 02 Aug 2022 15:01:34: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:01:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:01:36: #2 number of paired peaks: 6810 INFO @ Tue, 02 Aug 2022 15:01:36: start model_add_line... INFO @ Tue, 02 Aug 2022 15:01:36: start X-correlation... INFO @ Tue, 02 Aug 2022 15:01:36: end of X-cor INFO @ Tue, 02 Aug 2022 15:01:36: #2 finished! INFO @ Tue, 02 Aug 2022 15:01:36: #2 predicted fragment length is 136 bps INFO @ Tue, 02 Aug 2022 15:01:36: #2 alternative fragment length(s) may be 4,136 bps INFO @ Tue, 02 Aug 2022 15:01:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.20_model.r WARNING @ Tue, 02 Aug 2022 15:01:36: #2 Since the d (136) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 15:01:36: #2 You may need to consider one of the other alternative d(s): 4,136 WARNING @ Tue, 02 Aug 2022 15:01:36: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 15:01:36: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:01:36: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:01:48: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:02:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.10_peaks.xls INFO @ Tue, 02 Aug 2022 15:02:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:02:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.10_summits.bed INFO @ Tue, 02 Aug 2022 15:02:05: Done! pass1 - making usageList (905 chroms): 4 millis pass2 - checking and writing primary data (3676 records, 4 fields): 92 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:02:12: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:02:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.20_peaks.xls INFO @ Tue, 02 Aug 2022 15:02:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:02:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206432/SRX15206432.20_summits.bed INFO @ Tue, 02 Aug 2022 15:02:27: Done! pass1 - making usageList (698 chroms): 3 millis pass2 - checking and writing primary data (1765 records, 4 fields): 64 millis CompletedMACS2peakCalling