Job ID = 14171003 SRX = SRX9720899 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: 00:06:33 22693016 reads; of these: 22693016 (100.00%) were unpaired; of these: 882145 (3.89%) aligned 0 times 14831743 (65.36%) aligned exactly 1 time 6979128 (30.75%) aligned >1 times 96.11% overall alignment rate Time searching: 00:06:33 Overall time: 00:06:33 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 12 files... [bam_rmdupse_core] 4390716 / 21810871 = 0.2013 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 @ Sat, 11 Dec 2021 09:20:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.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, 11 Dec 2021 09:20:28: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:20:28: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:20:35: 1000000 INFO @ Sat, 11 Dec 2021 09:20:42: 2000000 INFO @ Sat, 11 Dec 2021 09:20:48: 3000000 INFO @ Sat, 11 Dec 2021 09:20:55: 4000000 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 @ Sat, 11 Dec 2021 09:20:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.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, 11 Dec 2021 09:20:58: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:20:58: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:21:02: 5000000 INFO @ Sat, 11 Dec 2021 09:21:05: 1000000 INFO @ Sat, 11 Dec 2021 09:21:09: 6000000 INFO @ Sat, 11 Dec 2021 09:21:12: 2000000 INFO @ Sat, 11 Dec 2021 09:21:17: 7000000 INFO @ Sat, 11 Dec 2021 09:21:18: 3000000 INFO @ Sat, 11 Dec 2021 09:21:24: 8000000 INFO @ Sat, 11 Dec 2021 09:21:25: 4000000 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 @ Sat, 11 Dec 2021 09:21:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.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, 11 Dec 2021 09:21:28: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:21:28: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:21:31: 9000000 INFO @ Sat, 11 Dec 2021 09:21:32: 5000000 INFO @ Sat, 11 Dec 2021 09:21:35: 1000000 INFO @ Sat, 11 Dec 2021 09:21:39: 10000000 INFO @ Sat, 11 Dec 2021 09:21:39: 6000000 INFO @ Sat, 11 Dec 2021 09:21:42: 2000000 INFO @ Sat, 11 Dec 2021 09:21:46: 7000000 INFO @ Sat, 11 Dec 2021 09:21:46: 11000000 INFO @ Sat, 11 Dec 2021 09:21:49: 3000000 INFO @ Sat, 11 Dec 2021 09:21:53: 8000000 INFO @ Sat, 11 Dec 2021 09:21:54: 12000000 INFO @ Sat, 11 Dec 2021 09:21:56: 4000000 INFO @ Sat, 11 Dec 2021 09:22:00: 9000000 INFO @ Sat, 11 Dec 2021 09:22:01: 13000000 INFO @ Sat, 11 Dec 2021 09:22:03: 5000000 INFO @ Sat, 11 Dec 2021 09:22:07: 10000000 INFO @ Sat, 11 Dec 2021 09:22:08: 14000000 INFO @ Sat, 11 Dec 2021 09:22:10: 6000000 INFO @ Sat, 11 Dec 2021 09:22:14: 11000000 INFO @ Sat, 11 Dec 2021 09:22:16: 15000000 INFO @ Sat, 11 Dec 2021 09:22:17: 7000000 INFO @ Sat, 11 Dec 2021 09:22:20: 12000000 INFO @ Sat, 11 Dec 2021 09:22:23: 16000000 INFO @ Sat, 11 Dec 2021 09:22:24: 8000000 INFO @ Sat, 11 Dec 2021 09:22:27: 13000000 INFO @ Sat, 11 Dec 2021 09:22:31: 9000000 INFO @ Sat, 11 Dec 2021 09:22:31: 17000000 INFO @ Sat, 11 Dec 2021 09:22:34: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:22:34: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:22:34: #1 total tags in treatment: 17420155 INFO @ Sat, 11 Dec 2021 09:22:34: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:22:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:22:34: 14000000 INFO @ Sat, 11 Dec 2021 09:22:35: #1 tags after filtering in treatment: 17420088 INFO @ Sat, 11 Dec 2021 09:22:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:22:35: #1 finished! INFO @ Sat, 11 Dec 2021 09:22:35: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:22:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:22:36: #2 number of paired peaks: 1140 INFO @ Sat, 11 Dec 2021 09:22:36: start model_add_line... INFO @ Sat, 11 Dec 2021 09:22:36: start X-correlation... INFO @ Sat, 11 Dec 2021 09:22:36: end of X-cor INFO @ Sat, 11 Dec 2021 09:22:36: #2 finished! INFO @ Sat, 11 Dec 2021 09:22:36: #2 predicted fragment length is 46 bps INFO @ Sat, 11 Dec 2021 09:22:36: #2 alternative fragment length(s) may be 2,46,589 bps INFO @ Sat, 11 Dec 2021 09:22:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.05_model.r WARNING @ Sat, 11 Dec 2021 09:22:36: #2 Since the d (46) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 09:22:36: #2 You may need to consider one of the other alternative d(s): 2,46,589 WARNING @ Sat, 11 Dec 2021 09:22:36: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 09:22:36: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:22:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:22:37: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 09:22:41: 15000000 INFO @ Sat, 11 Dec 2021 09:22:44: 11000000 INFO @ Sat, 11 Dec 2021 09:22:48: 16000000 INFO @ Sat, 11 Dec 2021 09:22:51: 12000000 INFO @ Sat, 11 Dec 2021 09:22:54: 17000000 INFO @ Sat, 11 Dec 2021 09:22:57: 13000000 INFO @ Sat, 11 Dec 2021 09:22:57: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:22:57: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:22:57: #1 total tags in treatment: 17420155 INFO @ Sat, 11 Dec 2021 09:22:57: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:22:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:22:58: #1 tags after filtering in treatment: 17420088 INFO @ Sat, 11 Dec 2021 09:22:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:22:58: #1 finished! INFO @ Sat, 11 Dec 2021 09:22:58: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:22:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:22:59: #2 number of paired peaks: 1140 INFO @ Sat, 11 Dec 2021 09:22:59: start model_add_line... INFO @ Sat, 11 Dec 2021 09:22:59: start X-correlation... INFO @ Sat, 11 Dec 2021 09:22:59: end of X-cor INFO @ Sat, 11 Dec 2021 09:22:59: #2 finished! INFO @ Sat, 11 Dec 2021 09:22:59: #2 predicted fragment length is 46 bps INFO @ Sat, 11 Dec 2021 09:22:59: #2 alternative fragment length(s) may be 2,46,589 bps INFO @ Sat, 11 Dec 2021 09:22:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.10_model.r WARNING @ Sat, 11 Dec 2021 09:22:59: #2 Since the d (46) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 09:22:59: #2 You may need to consider one of the other alternative d(s): 2,46,589 WARNING @ Sat, 11 Dec 2021 09:22:59: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 09:22:59: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:22:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:23:03: 14000000 INFO @ Sat, 11 Dec 2021 09:23:07: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:23:09: 15000000 INFO @ Sat, 11 Dec 2021 09:23:15: 16000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 09:23:21: 17000000 INFO @ Sat, 11 Dec 2021 09:23:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:23:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:23:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.05_summits.bed INFO @ Sat, 11 Dec 2021 09:23:22: Done! pass1 - making usageList (605 chroms): 1 millis pass2 - checking and writing primary data (2898 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:23:23: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:23:23: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:23:23: #1 total tags in treatment: 17420155 INFO @ Sat, 11 Dec 2021 09:23:23: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:23:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:23:23: #1 tags after filtering in treatment: 17420088 INFO @ Sat, 11 Dec 2021 09:23:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:23:23: #1 finished! INFO @ Sat, 11 Dec 2021 09:23:23: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:23:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:23:25: #2 number of paired peaks: 1140 INFO @ Sat, 11 Dec 2021 09:23:25: start model_add_line... INFO @ Sat, 11 Dec 2021 09:23:25: start X-correlation... INFO @ Sat, 11 Dec 2021 09:23:25: end of X-cor INFO @ Sat, 11 Dec 2021 09:23:25: #2 finished! INFO @ Sat, 11 Dec 2021 09:23:25: #2 predicted fragment length is 46 bps INFO @ Sat, 11 Dec 2021 09:23:25: #2 alternative fragment length(s) may be 2,46,589 bps INFO @ Sat, 11 Dec 2021 09:23:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.20_model.r WARNING @ Sat, 11 Dec 2021 09:23:25: #2 Since the d (46) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 09:23:25: #2 You may need to consider one of the other alternative d(s): 2,46,589 WARNING @ Sat, 11 Dec 2021 09:23:25: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 09:23:25: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:23:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:23:30: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:23:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.10_peaks.xls INFO @ Sat, 11 Dec 2021 09:23:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:23:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.10_summits.bed INFO @ Sat, 11 Dec 2021 09:23:45: Done! pass1 - making usageList (521 chroms): 1 millis pass2 - checking and writing primary data (2126 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:23:56: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:24:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.20_peaks.xls INFO @ Sat, 11 Dec 2021 09:24:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:24:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720899/SRX9720899.20_summits.bed INFO @ Sat, 11 Dec 2021 09:24:11: Done! pass1 - making usageList (362 chroms): 1 millis pass2 - checking and writing primary data (930 records, 4 fields): 11 millis CompletedMACS2peakCalling