Job ID = 16439502 SRX = SRX15206447 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: 00:40:48 53337086 reads; of these: 53337086 (100.00%) were unpaired; of these: 1818384 (3.41%) aligned 0 times 14462297 (27.11%) aligned exactly 1 time 37056405 (69.48%) aligned >1 times 96.59% overall alignment rate Time searching: 00:40:48 Overall time: 00:40:48 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 32 files... [bam_rmdupse_core] 28997718 / 51518702 = 0.5629 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 16:19:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.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 16:19:59: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:19:59: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:20:05: 1000000 INFO @ Tue, 02 Aug 2022 16:20:11: 2000000 INFO @ Tue, 02 Aug 2022 16:20:18: 3000000 INFO @ Tue, 02 Aug 2022 16:20:24: 4000000 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 16:20:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.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 16:20:29: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:20:29: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:20:30: 5000000 INFO @ Tue, 02 Aug 2022 16:20:36: 1000000 INFO @ Tue, 02 Aug 2022 16:20:37: 6000000 INFO @ Tue, 02 Aug 2022 16:20:43: 2000000 INFO @ Tue, 02 Aug 2022 16:20:45: 7000000 INFO @ Tue, 02 Aug 2022 16:20:50: 3000000 INFO @ Tue, 02 Aug 2022 16:20:52: 8000000 INFO @ Tue, 02 Aug 2022 16:20:57: 4000000 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 16:20:58: 9000000 INFO @ Tue, 02 Aug 2022 16:20:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.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 16:20:59: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:20:59: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:21:04: 5000000 INFO @ Tue, 02 Aug 2022 16:21:06: 10000000 INFO @ Tue, 02 Aug 2022 16:21:06: 1000000 INFO @ Tue, 02 Aug 2022 16:21:11: 6000000 INFO @ Tue, 02 Aug 2022 16:21:13: 11000000 INFO @ Tue, 02 Aug 2022 16:21:13: 2000000 INFO @ Tue, 02 Aug 2022 16:21:18: 7000000 INFO @ Tue, 02 Aug 2022 16:21:19: 12000000 INFO @ Tue, 02 Aug 2022 16:21:20: 3000000 INFO @ Tue, 02 Aug 2022 16:21:25: 8000000 INFO @ Tue, 02 Aug 2022 16:21:26: 13000000 INFO @ Tue, 02 Aug 2022 16:21:27: 4000000 INFO @ Tue, 02 Aug 2022 16:21:32: 9000000 INFO @ Tue, 02 Aug 2022 16:21:33: 14000000 INFO @ Tue, 02 Aug 2022 16:21:34: 5000000 INFO @ Tue, 02 Aug 2022 16:21:39: 10000000 INFO @ Tue, 02 Aug 2022 16:21:40: 15000000 INFO @ Tue, 02 Aug 2022 16:21:41: 6000000 INFO @ Tue, 02 Aug 2022 16:21:46: 11000000 INFO @ Tue, 02 Aug 2022 16:21:47: 16000000 INFO @ Tue, 02 Aug 2022 16:21:48: 7000000 INFO @ Tue, 02 Aug 2022 16:21:53: 12000000 INFO @ Tue, 02 Aug 2022 16:21:55: 17000000 INFO @ Tue, 02 Aug 2022 16:21:55: 8000000 INFO @ Tue, 02 Aug 2022 16:22:00: 13000000 INFO @ Tue, 02 Aug 2022 16:22:02: 9000000 INFO @ Tue, 02 Aug 2022 16:22:02: 18000000 INFO @ Tue, 02 Aug 2022 16:22:07: 14000000 INFO @ Tue, 02 Aug 2022 16:22:09: 10000000 INFO @ Tue, 02 Aug 2022 16:22:09: 19000000 INFO @ Tue, 02 Aug 2022 16:22:14: 15000000 INFO @ Tue, 02 Aug 2022 16:22:17: 20000000 INFO @ Tue, 02 Aug 2022 16:22:17: 11000000 INFO @ Tue, 02 Aug 2022 16:22:22: 16000000 INFO @ Tue, 02 Aug 2022 16:22:24: 12000000 INFO @ Tue, 02 Aug 2022 16:22:24: 21000000 INFO @ Tue, 02 Aug 2022 16:22:29: 17000000 INFO @ Tue, 02 Aug 2022 16:22:31: 13000000 INFO @ Tue, 02 Aug 2022 16:22:32: 22000000 INFO @ Tue, 02 Aug 2022 16:22:36: #1 tag size is determined as 112 bps INFO @ Tue, 02 Aug 2022 16:22:36: #1 tag size = 112 INFO @ Tue, 02 Aug 2022 16:22:36: #1 total tags in treatment: 22520984 INFO @ Tue, 02 Aug 2022 16:22:36: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:22:36: #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 16:22:37: #1 tags after filtering in treatment: 22520950 INFO @ Tue, 02 Aug 2022 16:22:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:22:37: #1 finished! INFO @ Tue, 02 Aug 2022 16:22:37: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:22:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:22:37: 18000000 INFO @ Tue, 02 Aug 2022 16:22:39: 14000000 INFO @ Tue, 02 Aug 2022 16:22:39: #2 number of paired peaks: 9973 INFO @ Tue, 02 Aug 2022 16:22:39: start model_add_line... INFO @ Tue, 02 Aug 2022 16:22:39: start X-correlation... INFO @ Tue, 02 Aug 2022 16:22:39: end of X-cor INFO @ Tue, 02 Aug 2022 16:22:39: #2 finished! INFO @ Tue, 02 Aug 2022 16:22:39: #2 predicted fragment length is 163 bps INFO @ Tue, 02 Aug 2022 16:22:39: #2 alternative fragment length(s) may be 2,163 bps INFO @ Tue, 02 Aug 2022 16:22:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.05_model.r WARNING @ Tue, 02 Aug 2022 16:22:39: #2 Since the d (163) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 16:22:39: #2 You may need to consider one of the other alternative d(s): 2,163 WARNING @ Tue, 02 Aug 2022 16:22:39: #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 16:22:39: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:22:39: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:22:44: 19000000 INFO @ Tue, 02 Aug 2022 16:22:46: 15000000 INFO @ Tue, 02 Aug 2022 16:22:52: 20000000 INFO @ Tue, 02 Aug 2022 16:22:53: 16000000 INFO @ Tue, 02 Aug 2022 16:22:59: 21000000 INFO @ Tue, 02 Aug 2022 16:23:00: 17000000 INFO @ Tue, 02 Aug 2022 16:23:07: 22000000 INFO @ Tue, 02 Aug 2022 16:23:08: 18000000 INFO @ Tue, 02 Aug 2022 16:23:11: #1 tag size is determined as 112 bps INFO @ Tue, 02 Aug 2022 16:23:11: #1 tag size = 112 INFO @ Tue, 02 Aug 2022 16:23:11: #1 total tags in treatment: 22520984 INFO @ Tue, 02 Aug 2022 16:23:11: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:23:11: #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 16:23:12: #1 tags after filtering in treatment: 22520950 INFO @ Tue, 02 Aug 2022 16:23:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:23:12: #1 finished! INFO @ Tue, 02 Aug 2022 16:23:12: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:23:12: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:23:14: #2 number of paired peaks: 9973 INFO @ Tue, 02 Aug 2022 16:23:14: start model_add_line... INFO @ Tue, 02 Aug 2022 16:23:14: start X-correlation... INFO @ Tue, 02 Aug 2022 16:23:14: end of X-cor INFO @ Tue, 02 Aug 2022 16:23:14: #2 finished! INFO @ Tue, 02 Aug 2022 16:23:14: #2 predicted fragment length is 163 bps INFO @ Tue, 02 Aug 2022 16:23:14: #2 alternative fragment length(s) may be 2,163 bps INFO @ Tue, 02 Aug 2022 16:23:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.10_model.r WARNING @ Tue, 02 Aug 2022 16:23:15: #2 Since the d (163) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 16:23:15: #2 You may need to consider one of the other alternative d(s): 2,163 WARNING @ Tue, 02 Aug 2022 16:23:15: #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 16:23:15: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:23:15: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:23:15: 19000000 INFO @ Tue, 02 Aug 2022 16:23:21: 20000000 INFO @ Tue, 02 Aug 2022 16:23:28: 21000000 INFO @ Tue, 02 Aug 2022 16:23:29: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:23:35: 22000000 INFO @ Tue, 02 Aug 2022 16:23:39: #1 tag size is determined as 112 bps INFO @ Tue, 02 Aug 2022 16:23:39: #1 tag size = 112 INFO @ Tue, 02 Aug 2022 16:23:39: #1 total tags in treatment: 22520984 INFO @ Tue, 02 Aug 2022 16:23:39: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:23:39: #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 16:23:40: #1 tags after filtering in treatment: 22520950 INFO @ Tue, 02 Aug 2022 16:23:40: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:23:40: #1 finished! INFO @ Tue, 02 Aug 2022 16:23:40: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:23:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:23:42: #2 number of paired peaks: 9973 INFO @ Tue, 02 Aug 2022 16:23:42: start model_add_line... INFO @ Tue, 02 Aug 2022 16:23:42: start X-correlation... INFO @ Tue, 02 Aug 2022 16:23:42: end of X-cor INFO @ Tue, 02 Aug 2022 16:23:42: #2 finished! INFO @ Tue, 02 Aug 2022 16:23:42: #2 predicted fragment length is 163 bps INFO @ Tue, 02 Aug 2022 16:23:42: #2 alternative fragment length(s) may be 2,163 bps INFO @ Tue, 02 Aug 2022 16:23:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.20_model.r WARNING @ Tue, 02 Aug 2022 16:23:43: #2 Since the d (163) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 16:23:43: #2 You may need to consider one of the other alternative d(s): 2,163 WARNING @ Tue, 02 Aug 2022 16:23:43: #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 16:23:43: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:23:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:23:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:23:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:23:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.05_summits.bed INFO @ Tue, 02 Aug 2022 16:23:48: Done! pass1 - making usageList (1241 chroms): 2 millis pass2 - checking and writing primary data (9061 records, 4 fields): 55 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:24:06: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:24:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:24:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:24:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.10_summits.bed INFO @ Tue, 02 Aug 2022 16:24:25: Done! pass1 - making usageList (1169 chroms): 1 millis pass2 - checking and writing primary data (5736 records, 4 fields): 47 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:24:33: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:24:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:24:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:24:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206447/SRX15206447.20_summits.bed INFO @ Tue, 02 Aug 2022 16:24:51: Done! pass1 - making usageList (1052 chroms): 2 millis pass2 - checking and writing primary data (3312 records, 4 fields): 46 millis CompletedMACS2peakCalling