Job ID = 6529973 SRX = SRX5661490 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: 00:12:50 38887199 reads; of these: 38887199 (100.00%) were unpaired; of these: 1320455 (3.40%) aligned 0 times 16076330 (41.34%) aligned exactly 1 time 21490414 (55.26%) aligned >1 times 96.60% overall alignment rate Time searching: 00:12:50 Overall time: 00:12:50 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 16 files... [bam_rmdupse_core] 14446167 / 37566744 = 0.3845 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, 30 Jun 2020 03:13:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.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, 30 Jun 2020 03:13:53: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:13:53: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:14:00: 1000000 INFO @ Tue, 30 Jun 2020 03:14:06: 2000000 INFO @ Tue, 30 Jun 2020 03:14:13: 3000000 INFO @ Tue, 30 Jun 2020 03:14:20: 4000000 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, 30 Jun 2020 03:14:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.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, 30 Jun 2020 03:14:23: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:14:23: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:14:27: 5000000 INFO @ Tue, 30 Jun 2020 03:14:30: 1000000 INFO @ Tue, 30 Jun 2020 03:14:34: 6000000 INFO @ Tue, 30 Jun 2020 03:14:36: 2000000 INFO @ Tue, 30 Jun 2020 03:14:41: 7000000 INFO @ Tue, 30 Jun 2020 03:14:43: 3000000 INFO @ Tue, 30 Jun 2020 03:14:48: 8000000 INFO @ Tue, 30 Jun 2020 03:14:49: 4000000 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, 30 Jun 2020 03:14:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.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, 30 Jun 2020 03:14:53: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:14:53: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:14:55: 9000000 INFO @ Tue, 30 Jun 2020 03:14:56: 5000000 INFO @ Tue, 30 Jun 2020 03:15:00: 1000000 INFO @ Tue, 30 Jun 2020 03:15:02: 6000000 INFO @ Tue, 30 Jun 2020 03:15:03: 10000000 INFO @ Tue, 30 Jun 2020 03:15:08: 2000000 INFO @ Tue, 30 Jun 2020 03:15:09: 7000000 INFO @ Tue, 30 Jun 2020 03:15:10: 11000000 INFO @ Tue, 30 Jun 2020 03:15:15: 3000000 INFO @ Tue, 30 Jun 2020 03:15:15: 8000000 INFO @ Tue, 30 Jun 2020 03:15:18: 12000000 INFO @ Tue, 30 Jun 2020 03:15:22: 9000000 INFO @ Tue, 30 Jun 2020 03:15:22: 4000000 INFO @ Tue, 30 Jun 2020 03:15:25: 13000000 INFO @ Tue, 30 Jun 2020 03:15:29: 10000000 INFO @ Tue, 30 Jun 2020 03:15:30: 5000000 INFO @ Tue, 30 Jun 2020 03:15:32: 14000000 INFO @ Tue, 30 Jun 2020 03:15:35: 11000000 INFO @ Tue, 30 Jun 2020 03:15:37: 6000000 INFO @ Tue, 30 Jun 2020 03:15:39: 15000000 INFO @ Tue, 30 Jun 2020 03:15:42: 12000000 INFO @ Tue, 30 Jun 2020 03:15:44: 7000000 INFO @ Tue, 30 Jun 2020 03:15:47: 16000000 INFO @ Tue, 30 Jun 2020 03:15:49: 13000000 INFO @ Tue, 30 Jun 2020 03:15:51: 8000000 INFO @ Tue, 30 Jun 2020 03:15:54: 17000000 INFO @ Tue, 30 Jun 2020 03:15:55: 14000000 INFO @ Tue, 30 Jun 2020 03:15:59: 9000000 INFO @ Tue, 30 Jun 2020 03:16:01: 18000000 INFO @ Tue, 30 Jun 2020 03:16:02: 15000000 INFO @ Tue, 30 Jun 2020 03:16:06: 10000000 INFO @ Tue, 30 Jun 2020 03:16:08: 16000000 INFO @ Tue, 30 Jun 2020 03:16:08: 19000000 INFO @ Tue, 30 Jun 2020 03:16:14: 11000000 INFO @ Tue, 30 Jun 2020 03:16:15: 17000000 INFO @ Tue, 30 Jun 2020 03:16:15: 20000000 INFO @ Tue, 30 Jun 2020 03:16:21: 12000000 INFO @ Tue, 30 Jun 2020 03:16:22: 18000000 INFO @ Tue, 30 Jun 2020 03:16:22: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:16:28: 19000000 INFO @ Tue, 30 Jun 2020 03:16:28: 13000000 INFO @ Tue, 30 Jun 2020 03:16:29: 22000000 INFO @ Tue, 30 Jun 2020 03:16:35: 20000000 INFO @ Tue, 30 Jun 2020 03:16:36: 14000000 INFO @ Tue, 30 Jun 2020 03:16:36: 23000000 INFO @ Tue, 30 Jun 2020 03:16:37: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:16:37: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:16:37: #1 total tags in treatment: 23120577 INFO @ Tue, 30 Jun 2020 03:16:37: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:16:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:16:38: #1 tags after filtering in treatment: 23120535 INFO @ Tue, 30 Jun 2020 03:16:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:16:38: #1 finished! INFO @ Tue, 30 Jun 2020 03:16:38: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:16:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:16:40: #2 number of paired peaks: 3019 INFO @ Tue, 30 Jun 2020 03:16:40: start model_add_line... INFO @ Tue, 30 Jun 2020 03:16:40: start X-correlation... INFO @ Tue, 30 Jun 2020 03:16:40: end of X-cor INFO @ Tue, 30 Jun 2020 03:16:40: #2 finished! INFO @ Tue, 30 Jun 2020 03:16:40: #2 predicted fragment length is 48 bps INFO @ Tue, 30 Jun 2020 03:16:40: #2 alternative fragment length(s) may be 2,48 bps INFO @ Tue, 30 Jun 2020 03:16:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.05_model.r WARNING @ Tue, 30 Jun 2020 03:16:40: #2 Since the d (48) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:16:40: #2 You may need to consider one of the other alternative d(s): 2,48 WARNING @ Tue, 30 Jun 2020 03:16:40: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:16:40: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:16:40: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:16:41: 21000000 INFO @ Tue, 30 Jun 2020 03:16:43: 15000000 INFO @ Tue, 30 Jun 2020 03:16:47: 22000000 INFO @ Tue, 30 Jun 2020 03:16:50: 16000000 INFO @ Tue, 30 Jun 2020 03:16:54: 23000000 INFO @ Tue, 30 Jun 2020 03:16:55: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:16:55: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:16:55: #1 total tags in treatment: 23120577 INFO @ Tue, 30 Jun 2020 03:16:55: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:16:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:16:55: #1 tags after filtering in treatment: 23120535 INFO @ Tue, 30 Jun 2020 03:16:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:16:55: #1 finished! INFO @ Tue, 30 Jun 2020 03:16:55: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:16:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:16:57: #2 number of paired peaks: 3019 INFO @ Tue, 30 Jun 2020 03:16:57: start model_add_line... INFO @ Tue, 30 Jun 2020 03:16:57: 17000000 INFO @ Tue, 30 Jun 2020 03:16:57: start X-correlation... INFO @ Tue, 30 Jun 2020 03:16:57: end of X-cor INFO @ Tue, 30 Jun 2020 03:16:57: #2 finished! INFO @ Tue, 30 Jun 2020 03:16:57: #2 predicted fragment length is 48 bps INFO @ Tue, 30 Jun 2020 03:16:57: #2 alternative fragment length(s) may be 2,48 bps INFO @ Tue, 30 Jun 2020 03:16:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.10_model.r WARNING @ Tue, 30 Jun 2020 03:16:57: #2 Since the d (48) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:16:57: #2 You may need to consider one of the other alternative d(s): 2,48 WARNING @ Tue, 30 Jun 2020 03:16:57: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:16:57: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:16:57: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 03:17:04: 18000000 INFO @ Tue, 30 Jun 2020 03:17:11: 19000000 INFO @ Tue, 30 Jun 2020 03:17:17: 20000000 INFO @ Tue, 30 Jun 2020 03:17:20: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:17:24: 21000000 INFO @ Tue, 30 Jun 2020 03:17:30: 22000000 INFO @ Tue, 30 Jun 2020 03:17:37: 23000000 INFO @ Tue, 30 Jun 2020 03:17:38: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:17:38: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:17:38: #1 total tags in treatment: 23120577 INFO @ Tue, 30 Jun 2020 03:17:38: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:17:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:17:38: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:17:38: #1 tags after filtering in treatment: 23120535 INFO @ Tue, 30 Jun 2020 03:17:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:17:38: #1 finished! INFO @ Tue, 30 Jun 2020 03:17:38: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:17:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:17:40: #2 number of paired peaks: 3019 INFO @ Tue, 30 Jun 2020 03:17:40: start model_add_line... INFO @ Tue, 30 Jun 2020 03:17:40: start X-correlation... INFO @ Tue, 30 Jun 2020 03:17:40: end of X-cor INFO @ Tue, 30 Jun 2020 03:17:40: #2 finished! INFO @ Tue, 30 Jun 2020 03:17:40: #2 predicted fragment length is 48 bps INFO @ Tue, 30 Jun 2020 03:17:40: #2 alternative fragment length(s) may be 2,48 bps INFO @ Tue, 30 Jun 2020 03:17:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.20_model.r WARNING @ Tue, 30 Jun 2020 03:17:40: #2 Since the d (48) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:17:40: #2 You may need to consider one of the other alternative d(s): 2,48 WARNING @ Tue, 30 Jun 2020 03:17:40: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:17:40: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:17:40: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:17:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:17:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:17:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.05_summits.bed INFO @ Tue, 30 Jun 2020 03:17:40: Done! pass1 - making usageList (1084 chroms): 2 millis pass2 - checking and writing primary data (8237 records, 4 fields): 34 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:17:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:17:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:17:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.10_summits.bed INFO @ Tue, 30 Jun 2020 03:17:58: Done! pass1 - making usageList (901 chroms): 1 millis pass2 - checking and writing primary data (3902 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:18:20: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:18:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:18:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:18:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5661490/SRX5661490.20_summits.bed INFO @ Tue, 30 Jun 2020 03:18:39: Done! pass1 - making usageList (685 chroms): 1 millis pass2 - checking and writing primary data (2485 records, 4 fields): 20 millis CompletedMACS2peakCalling