Job ID = 6627024 SRX = SRX7262572 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: 00:28:52 144021964 reads; of these: 144021964 (100.00%) were unpaired; of these: 92569144 (64.27%) aligned 0 times 39794158 (27.63%) aligned exactly 1 time 11658662 (8.10%) aligned >1 times 35.73% overall alignment rate Time searching: 00:28:52 Overall time: 00:28:52 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 24 files... [bam_rmdupse_core] 26807120 / 51452820 = 0.5210 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 10:09:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.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, 14 Jul 2020 10:09:18: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:09:18: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:09:23: 1000000 INFO @ Tue, 14 Jul 2020 10:09:28: 2000000 INFO @ Tue, 14 Jul 2020 10:09:33: 3000000 INFO @ Tue, 14 Jul 2020 10:09:39: 4000000 INFO @ Tue, 14 Jul 2020 10:09:44: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 10:09:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.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, 14 Jul 2020 10:09:48: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:09:48: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:09:49: 6000000 INFO @ Tue, 14 Jul 2020 10:09:54: 1000000 INFO @ Tue, 14 Jul 2020 10:09:54: 7000000 INFO @ Tue, 14 Jul 2020 10:09:59: 8000000 INFO @ Tue, 14 Jul 2020 10:10:00: 2000000 INFO @ Tue, 14 Jul 2020 10:10:04: 9000000 INFO @ Tue, 14 Jul 2020 10:10:06: 3000000 INFO @ Tue, 14 Jul 2020 10:10:10: 10000000 INFO @ Tue, 14 Jul 2020 10:10:13: 4000000 INFO @ Tue, 14 Jul 2020 10:10:15: 11000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 10:10:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.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, 14 Jul 2020 10:10:18: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:10:18: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:10:19: 5000000 INFO @ Tue, 14 Jul 2020 10:10:20: 12000000 INFO @ Tue, 14 Jul 2020 10:10:23: 1000000 INFO @ Tue, 14 Jul 2020 10:10:25: 6000000 INFO @ Tue, 14 Jul 2020 10:10:25: 13000000 INFO @ Tue, 14 Jul 2020 10:10:28: 2000000 INFO @ Tue, 14 Jul 2020 10:10:30: 14000000 INFO @ Tue, 14 Jul 2020 10:10:31: 7000000 INFO @ Tue, 14 Jul 2020 10:10:34: 3000000 INFO @ Tue, 14 Jul 2020 10:10:35: 15000000 INFO @ Tue, 14 Jul 2020 10:10:36: 8000000 INFO @ Tue, 14 Jul 2020 10:10:39: 4000000 INFO @ Tue, 14 Jul 2020 10:10:40: 16000000 INFO @ Tue, 14 Jul 2020 10:10:42: 9000000 INFO @ Tue, 14 Jul 2020 10:10:44: 5000000 INFO @ Tue, 14 Jul 2020 10:10:45: 17000000 INFO @ Tue, 14 Jul 2020 10:10:48: 10000000 INFO @ Tue, 14 Jul 2020 10:10:50: 6000000 INFO @ Tue, 14 Jul 2020 10:10:51: 18000000 INFO @ Tue, 14 Jul 2020 10:10:54: 11000000 INFO @ Tue, 14 Jul 2020 10:10:55: 7000000 INFO @ Tue, 14 Jul 2020 10:10:56: 19000000 INFO @ Tue, 14 Jul 2020 10:11:00: 8000000 INFO @ Tue, 14 Jul 2020 10:11:00: 12000000 INFO @ Tue, 14 Jul 2020 10:11:01: 20000000 INFO @ Tue, 14 Jul 2020 10:11:05: 9000000 INFO @ Tue, 14 Jul 2020 10:11:06: 21000000 INFO @ Tue, 14 Jul 2020 10:11:06: 13000000 INFO @ Tue, 14 Jul 2020 10:11:10: 10000000 INFO @ Tue, 14 Jul 2020 10:11:11: 22000000 INFO @ Tue, 14 Jul 2020 10:11:12: 14000000 INFO @ Tue, 14 Jul 2020 10:11:16: 11000000 INFO @ Tue, 14 Jul 2020 10:11:16: 23000000 INFO @ Tue, 14 Jul 2020 10:11:18: 15000000 INFO @ Tue, 14 Jul 2020 10:11:21: 12000000 INFO @ Tue, 14 Jul 2020 10:11:21: 24000000 INFO @ Tue, 14 Jul 2020 10:11:24: 16000000 INFO @ Tue, 14 Jul 2020 10:11:25: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 10:11:25: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 10:11:25: #1 total tags in treatment: 24645700 INFO @ Tue, 14 Jul 2020 10:11:25: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:11:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 10:11:26: #1 tags after filtering in treatment: 24645597 INFO @ Tue, 14 Jul 2020 10:11:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 10:11:26: #1 finished! INFO @ Tue, 14 Jul 2020 10:11:26: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:11:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:11:26: 13000000 INFO @ Tue, 14 Jul 2020 10:11:28: #2 number of paired peaks: 8442 INFO @ Tue, 14 Jul 2020 10:11:28: start model_add_line... INFO @ Tue, 14 Jul 2020 10:11:28: start X-correlation... INFO @ Tue, 14 Jul 2020 10:11:28: end of X-cor INFO @ Tue, 14 Jul 2020 10:11:28: #2 finished! INFO @ Tue, 14 Jul 2020 10:11:28: #2 predicted fragment length is 116 bps INFO @ Tue, 14 Jul 2020 10:11:28: #2 alternative fragment length(s) may be 4,116 bps INFO @ Tue, 14 Jul 2020 10:11:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.05_model.r WARNING @ Tue, 14 Jul 2020 10:11:28: #2 Since the d (116) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 10:11:28: #2 You may need to consider one of the other alternative d(s): 4,116 WARNING @ Tue, 14 Jul 2020 10:11:28: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 10:11:28: #3 Call peaks... INFO @ Tue, 14 Jul 2020 10:11:28: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 10:11:30: 17000000 INFO @ Tue, 14 Jul 2020 10:11:31: 14000000 INFO @ Tue, 14 Jul 2020 10:11:36: 18000000 INFO @ Tue, 14 Jul 2020 10:11:36: 15000000 INFO @ Tue, 14 Jul 2020 10:11:41: 16000000 INFO @ Tue, 14 Jul 2020 10:11:42: 19000000 INFO @ Tue, 14 Jul 2020 10:11:47: 17000000 INFO @ Tue, 14 Jul 2020 10:11:47: 20000000 INFO @ Tue, 14 Jul 2020 10:11:52: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 10:11:54: 21000000 INFO @ Tue, 14 Jul 2020 10:11:57: 19000000 INFO @ Tue, 14 Jul 2020 10:12:00: 22000000 INFO @ Tue, 14 Jul 2020 10:12:02: 20000000 INFO @ Tue, 14 Jul 2020 10:12:05: 23000000 INFO @ Tue, 14 Jul 2020 10:12:07: 21000000 INFO @ Tue, 14 Jul 2020 10:12:11: 24000000 INFO @ Tue, 14 Jul 2020 10:12:12: 22000000 INFO @ Tue, 14 Jul 2020 10:12:15: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 10:12:15: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 10:12:15: #1 total tags in treatment: 24645700 INFO @ Tue, 14 Jul 2020 10:12:15: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:12:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 10:12:16: #1 tags after filtering in treatment: 24645597 INFO @ Tue, 14 Jul 2020 10:12:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 10:12:16: #1 finished! INFO @ Tue, 14 Jul 2020 10:12:16: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:12:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:12:17: 23000000 INFO @ Tue, 14 Jul 2020 10:12:18: #2 number of paired peaks: 8442 INFO @ Tue, 14 Jul 2020 10:12:18: start model_add_line... INFO @ Tue, 14 Jul 2020 10:12:18: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 10:12:19: start X-correlation... INFO @ Tue, 14 Jul 2020 10:12:19: end of X-cor INFO @ Tue, 14 Jul 2020 10:12:19: #2 finished! INFO @ Tue, 14 Jul 2020 10:12:19: #2 predicted fragment length is 116 bps INFO @ Tue, 14 Jul 2020 10:12:19: #2 alternative fragment length(s) may be 4,116 bps INFO @ Tue, 14 Jul 2020 10:12:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.10_model.r WARNING @ Tue, 14 Jul 2020 10:12:19: #2 Since the d (116) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 10:12:19: #2 You may need to consider one of the other alternative d(s): 4,116 WARNING @ Tue, 14 Jul 2020 10:12:19: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 10:12:19: #3 Call peaks... INFO @ Tue, 14 Jul 2020 10:12:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 10:12:22: 24000000 INFO @ Tue, 14 Jul 2020 10:12:26: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 10:12:26: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 10:12:26: #1 total tags in treatment: 24645700 INFO @ Tue, 14 Jul 2020 10:12:26: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:12:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 10:12:27: #1 tags after filtering in treatment: 24645597 INFO @ Tue, 14 Jul 2020 10:12:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 10:12:27: #1 finished! INFO @ Tue, 14 Jul 2020 10:12:27: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:12:27: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 10:12:29: #2 number of paired peaks: 8442 INFO @ Tue, 14 Jul 2020 10:12:29: start model_add_line... INFO @ Tue, 14 Jul 2020 10:12:29: start X-correlation... INFO @ Tue, 14 Jul 2020 10:12:29: end of X-cor INFO @ Tue, 14 Jul 2020 10:12:29: #2 finished! INFO @ Tue, 14 Jul 2020 10:12:29: #2 predicted fragment length is 116 bps INFO @ Tue, 14 Jul 2020 10:12:29: #2 alternative fragment length(s) may be 4,116 bps INFO @ Tue, 14 Jul 2020 10:12:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.20_model.r WARNING @ Tue, 14 Jul 2020 10:12:29: #2 Since the d (116) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 10:12:29: #2 You may need to consider one of the other alternative d(s): 4,116 WARNING @ Tue, 14 Jul 2020 10:12:29: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 10:12:29: #3 Call peaks... INFO @ Tue, 14 Jul 2020 10:12:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 10:12:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.05_peaks.xls INFO @ Tue, 14 Jul 2020 10:12:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 10:12:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.05_summits.bed INFO @ Tue, 14 Jul 2020 10:12:42: Done! pass1 - making usageList (286 chroms): 2 millis pass2 - checking and writing primary data (11385 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 10:13:12: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 10:13:22: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 10:13:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.10_peaks.xls INFO @ Tue, 14 Jul 2020 10:13:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 10:13:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.10_summits.bed INFO @ Tue, 14 Jul 2020 10:13:36: Done! pass1 - making usageList (216 chroms): 1 millis pass2 - checking and writing primary data (8559 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 10:13:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.20_peaks.xls INFO @ Tue, 14 Jul 2020 10:13:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 10:13:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262572/SRX7262572.20_summits.bed INFO @ Tue, 14 Jul 2020 10:13:46: Done! pass1 - making usageList (171 chroms): 1 millis pass2 - checking and writing primary data (5233 records, 4 fields): 10 millis CompletedMACS2peakCalling