Job ID = 12265112 SRX = SRX3032263 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: 00:05:25 16300043 reads; of these: 16300043 (100.00%) were unpaired; of these: 5782660 (35.48%) aligned 0 times 9421094 (57.80%) aligned exactly 1 time 1096289 (6.73%) aligned >1 times 64.52% overall alignment rate Time searching: 00:05:25 Overall time: 00:05:25 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 8 files... [bam_rmdupse_core] 3441462 / 10517383 = 0.3272 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 06:17:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.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 06:17:12: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:17:12: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:17:18: 1000000 INFO @ Sat, 03 Apr 2021 06:17:24: 2000000 INFO @ Sat, 03 Apr 2021 06:17:29: 3000000 INFO @ Sat, 03 Apr 2021 06:17:35: 4000000 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 06:17:41: 5000000 INFO @ Sat, 03 Apr 2021 06:17:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.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 06:17:42: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:17:42: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:17:47: 6000000 INFO @ Sat, 03 Apr 2021 06:17:48: 1000000 INFO @ Sat, 03 Apr 2021 06:17:53: 7000000 INFO @ Sat, 03 Apr 2021 06:17:54: #1 tag size is determined as 75 bps INFO @ Sat, 03 Apr 2021 06:17:54: #1 tag size = 75 INFO @ Sat, 03 Apr 2021 06:17:54: #1 total tags in treatment: 7075921 INFO @ Sat, 03 Apr 2021 06:17:54: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:17:54: #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 06:17:54: 2000000 INFO @ Sat, 03 Apr 2021 06:17:54: #1 tags after filtering in treatment: 7075713 INFO @ Sat, 03 Apr 2021 06:17:54: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:17:54: #1 finished! INFO @ Sat, 03 Apr 2021 06:17:54: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:17:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:17:55: #2 number of paired peaks: 3138 INFO @ Sat, 03 Apr 2021 06:17:55: start model_add_line... INFO @ Sat, 03 Apr 2021 06:17:55: start X-correlation... INFO @ Sat, 03 Apr 2021 06:17:55: end of X-cor INFO @ Sat, 03 Apr 2021 06:17:55: #2 finished! INFO @ Sat, 03 Apr 2021 06:17:55: #2 predicted fragment length is 101 bps INFO @ Sat, 03 Apr 2021 06:17:55: #2 alternative fragment length(s) may be 101 bps INFO @ Sat, 03 Apr 2021 06:17:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.05_model.r WARNING @ Sat, 03 Apr 2021 06:17:55: #2 Since the d (101) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:17:55: #2 You may need to consider one of the other alternative d(s): 101 WARNING @ Sat, 03 Apr 2021 06:17:55: #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 06:17:55: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:17:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:18:00: 3000000 INFO @ Sat, 03 Apr 2021 06:18:06: 4000000 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 06:18:12: 5000000 INFO @ Sat, 03 Apr 2021 06:18:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.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 06:18:12: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:18:12: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:18:13: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:18:18: 6000000 INFO @ Sat, 03 Apr 2021 06:18:18: 1000000 INFO @ Sat, 03 Apr 2021 06:18:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:18:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:18:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.05_summits.bed INFO @ Sat, 03 Apr 2021 06:18:23: Done! pass1 - making usageList (198 chroms): 3 millis pass2 - checking and writing primary data (13801 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:18:24: 7000000 INFO @ Sat, 03 Apr 2021 06:18:24: 2000000 INFO @ Sat, 03 Apr 2021 06:18:25: #1 tag size is determined as 75 bps INFO @ Sat, 03 Apr 2021 06:18:25: #1 tag size = 75 INFO @ Sat, 03 Apr 2021 06:18:25: #1 total tags in treatment: 7075921 INFO @ Sat, 03 Apr 2021 06:18:25: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:18:25: #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 06:18:25: #1 tags after filtering in treatment: 7075713 INFO @ Sat, 03 Apr 2021 06:18:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:18:25: #1 finished! INFO @ Sat, 03 Apr 2021 06:18:25: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:18:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:18:26: #2 number of paired peaks: 3138 INFO @ Sat, 03 Apr 2021 06:18:26: start model_add_line... INFO @ Sat, 03 Apr 2021 06:18:26: start X-correlation... INFO @ Sat, 03 Apr 2021 06:18:26: end of X-cor INFO @ Sat, 03 Apr 2021 06:18:26: #2 finished! INFO @ Sat, 03 Apr 2021 06:18:26: #2 predicted fragment length is 101 bps INFO @ Sat, 03 Apr 2021 06:18:26: #2 alternative fragment length(s) may be 101 bps INFO @ Sat, 03 Apr 2021 06:18:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.10_model.r WARNING @ Sat, 03 Apr 2021 06:18:26: #2 Since the d (101) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:18:26: #2 You may need to consider one of the other alternative d(s): 101 WARNING @ Sat, 03 Apr 2021 06:18:26: #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 06:18:26: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:18:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:18:30: 3000000 INFO @ Sat, 03 Apr 2021 06:18:36: 4000000 INFO @ Sat, 03 Apr 2021 06:18:42: 5000000 INFO @ Sat, 03 Apr 2021 06:18:45: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:18:48: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:18:54: 7000000 INFO @ Sat, 03 Apr 2021 06:18:55: #1 tag size is determined as 75 bps INFO @ Sat, 03 Apr 2021 06:18:55: #1 tag size = 75 INFO @ Sat, 03 Apr 2021 06:18:55: #1 total tags in treatment: 7075921 INFO @ Sat, 03 Apr 2021 06:18:55: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:18:55: #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 06:18:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:18:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:18:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.10_summits.bed INFO @ Sat, 03 Apr 2021 06:18:55: Done! INFO @ Sat, 03 Apr 2021 06:18:55: #1 tags after filtering in treatment: 7075713 INFO @ Sat, 03 Apr 2021 06:18:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:18:55: #1 finished! INFO @ Sat, 03 Apr 2021 06:18:55: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:18:55: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (97 chroms): 3 millis pass2 - checking and writing primary data (8307 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:18:56: #2 number of paired peaks: 3138 INFO @ Sat, 03 Apr 2021 06:18:56: start model_add_line... INFO @ Sat, 03 Apr 2021 06:18:56: start X-correlation... INFO @ Sat, 03 Apr 2021 06:18:56: end of X-cor INFO @ Sat, 03 Apr 2021 06:18:56: #2 finished! INFO @ Sat, 03 Apr 2021 06:18:56: #2 predicted fragment length is 101 bps INFO @ Sat, 03 Apr 2021 06:18:56: #2 alternative fragment length(s) may be 101 bps INFO @ Sat, 03 Apr 2021 06:18:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.20_model.r WARNING @ Sat, 03 Apr 2021 06:18:56: #2 Since the d (101) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:18:56: #2 You may need to consider one of the other alternative d(s): 101 WARNING @ Sat, 03 Apr 2021 06:18:56: #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 06:18:56: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:18:56: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:19:14: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:19:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:19:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:19:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032263/SRX3032263.20_summits.bed INFO @ Sat, 03 Apr 2021 06:19:23: Done! pass1 - making usageList (52 chroms): 2 millis pass2 - checking and writing primary data (3270 records, 4 fields): 7 millis CompletedMACS2peakCalling