Job ID = 12265051 SRX = SRX3032283 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: 00:03:43 10862082 reads; of these: 10862082 (100.00%) were unpaired; of these: 3224749 (29.69%) aligned 0 times 7055039 (64.95%) aligned exactly 1 time 582294 (5.36%) aligned >1 times 70.31% overall alignment rate Time searching: 00:03:43 Overall time: 00:03:43 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_rmdupse_core] 2518264 / 7637333 = 0.3297 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:12:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.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, 03 Apr 2021 06:12:13: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:12:13: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:12:22: 1000000 INFO @ Sat, 03 Apr 2021 06:12:31: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:12:40: 3000000 INFO @ Sat, 03 Apr 2021 06:12:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.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, 03 Apr 2021 06:12:43: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:12:43: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:12:50: 4000000 INFO @ Sat, 03 Apr 2021 06:12:53: 1000000 INFO @ Sat, 03 Apr 2021 06:13:00: 5000000 INFO @ Sat, 03 Apr 2021 06:13:02: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 06:13:02: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 06:13:02: #1 total tags in treatment: 5119069 INFO @ Sat, 03 Apr 2021 06:13:02: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:13:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:13:02: #1 tags after filtering in treatment: 5118830 INFO @ Sat, 03 Apr 2021 06:13:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:13:02: #1 finished! INFO @ Sat, 03 Apr 2021 06:13:02: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:13:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:13:02: 2000000 INFO @ Sat, 03 Apr 2021 06:13:03: #2 number of paired peaks: 5074 INFO @ Sat, 03 Apr 2021 06:13:03: start model_add_line... INFO @ Sat, 03 Apr 2021 06:13:03: start X-correlation... INFO @ Sat, 03 Apr 2021 06:13:03: end of X-cor INFO @ Sat, 03 Apr 2021 06:13:03: #2 finished! INFO @ Sat, 03 Apr 2021 06:13:03: #2 predicted fragment length is 107 bps INFO @ Sat, 03 Apr 2021 06:13:03: #2 alternative fragment length(s) may be 107 bps INFO @ Sat, 03 Apr 2021 06:13:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.05_model.r WARNING @ Sat, 03 Apr 2021 06:13:03: #2 Since the d (107) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:13:03: #2 You may need to consider one of the other alternative d(s): 107 WARNING @ Sat, 03 Apr 2021 06:13:03: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:13:03: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:13:03: #3 Pre-compute pvalue-qvalue table... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:13:11: 3000000 INFO @ Sat, 03 Apr 2021 06:13:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.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, 03 Apr 2021 06:13:13: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:13:13: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:13:20: 4000000 INFO @ Sat, 03 Apr 2021 06:13:22: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:13:22: 1000000 INFO @ Sat, 03 Apr 2021 06:13:30: 5000000 INFO @ Sat, 03 Apr 2021 06:13:31: 2000000 INFO @ Sat, 03 Apr 2021 06:13:32: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 06:13:32: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 06:13:32: #1 total tags in treatment: 5119069 INFO @ Sat, 03 Apr 2021 06:13:32: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:13:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:13:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:13:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:13:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.05_summits.bed INFO @ Sat, 03 Apr 2021 06:13:32: #1 tags after filtering in treatment: 5118830 INFO @ Sat, 03 Apr 2021 06:13:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:13:32: #1 finished! INFO @ Sat, 03 Apr 2021 06:13:32: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:13:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:13:32: Done! pass1 - making usageList (87 chroms): 6 millis pass2 - checking and writing primary data (15279 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:13:33: #2 number of paired peaks: 5074 INFO @ Sat, 03 Apr 2021 06:13:33: start model_add_line... INFO @ Sat, 03 Apr 2021 06:13:33: start X-correlation... INFO @ Sat, 03 Apr 2021 06:13:33: end of X-cor INFO @ Sat, 03 Apr 2021 06:13:33: #2 finished! INFO @ Sat, 03 Apr 2021 06:13:33: #2 predicted fragment length is 107 bps INFO @ Sat, 03 Apr 2021 06:13:33: #2 alternative fragment length(s) may be 107 bps INFO @ Sat, 03 Apr 2021 06:13:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.10_model.r WARNING @ Sat, 03 Apr 2021 06:13:33: #2 Since the d (107) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:13:33: #2 You may need to consider one of the other alternative d(s): 107 WARNING @ Sat, 03 Apr 2021 06:13:33: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:13:33: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:13:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:13:40: 3000000 INFO @ Sat, 03 Apr 2021 06:13:48: 4000000 INFO @ Sat, 03 Apr 2021 06:13:53: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:13:58: 5000000 INFO @ Sat, 03 Apr 2021 06:13:59: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 06:13:59: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 06:13:59: #1 total tags in treatment: 5119069 INFO @ Sat, 03 Apr 2021 06:13:59: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:13:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:14:00: #1 tags after filtering in treatment: 5118830 INFO @ Sat, 03 Apr 2021 06:14:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:14:00: #1 finished! INFO @ Sat, 03 Apr 2021 06:14:00: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:14:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:14:01: #2 number of paired peaks: 5074 INFO @ Sat, 03 Apr 2021 06:14:01: start model_add_line... INFO @ Sat, 03 Apr 2021 06:14:01: start X-correlation... INFO @ Sat, 03 Apr 2021 06:14:01: end of X-cor INFO @ Sat, 03 Apr 2021 06:14:01: #2 finished! INFO @ Sat, 03 Apr 2021 06:14:01: #2 predicted fragment length is 107 bps INFO @ Sat, 03 Apr 2021 06:14:01: #2 alternative fragment length(s) may be 107 bps INFO @ Sat, 03 Apr 2021 06:14:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.20_model.r WARNING @ Sat, 03 Apr 2021 06:14:01: #2 Since the d (107) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:14:01: #2 You may need to consider one of the other alternative d(s): 107 WARNING @ Sat, 03 Apr 2021 06:14:01: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:14:01: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:14:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:14:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:14:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:14:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.10_summits.bed INFO @ Sat, 03 Apr 2021 06:14:03: Done! pass1 - making usageList (67 chroms): 6 millis pass2 - checking and writing primary data (9477 records, 4 fields): 30 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:14:18: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:14:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:14:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:14:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032283/SRX3032283.20_summits.bed INFO @ Sat, 03 Apr 2021 06:14:27: Done! pass1 - making usageList (37 chroms): 3 millis pass2 - checking and writing primary data (3939 records, 4 fields): 20 millis CompletedMACS2peakCalling