Job ID = 12265041 SRX = SRX3032265 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: 00:02:42 11445717 reads; of these: 11445717 (100.00%) were unpaired; of these: 1500566 (13.11%) aligned 0 times 9185242 (80.25%) aligned exactly 1 time 759909 (6.64%) aligned >1 times 86.89% overall alignment rate Time searching: 00:02:42 Overall time: 00:02:42 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] 3896958 / 9945151 = 0.3918 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 06:10:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.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 06:10:33: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:10:33: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:10:41: 1000000 INFO @ Sat, 03 Apr 2021 06:10:49: 2000000 INFO @ Sat, 03 Apr 2021 06:10:56: 3000000 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 06:11:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.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 06:11:04: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:11:04: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:11:04: 4000000 INFO @ Sat, 03 Apr 2021 06:11:11: 1000000 INFO @ Sat, 03 Apr 2021 06:11:12: 5000000 INFO @ Sat, 03 Apr 2021 06:11:19: 2000000 INFO @ Sat, 03 Apr 2021 06:11:20: 6000000 INFO @ Sat, 03 Apr 2021 06:11:21: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:11:21: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:11:21: #1 total tags in treatment: 6048193 INFO @ Sat, 03 Apr 2021 06:11:21: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:11:21: #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 06:11:21: #1 tags after filtering in treatment: 6047994 INFO @ Sat, 03 Apr 2021 06:11:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:11:21: #1 finished! INFO @ Sat, 03 Apr 2021 06:11:21: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:11:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:11:22: #2 number of paired peaks: 5845 INFO @ Sat, 03 Apr 2021 06:11:22: start model_add_line... INFO @ Sat, 03 Apr 2021 06:11:22: start X-correlation... INFO @ Sat, 03 Apr 2021 06:11:22: end of X-cor INFO @ Sat, 03 Apr 2021 06:11:22: #2 finished! INFO @ Sat, 03 Apr 2021 06:11:22: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 06:11:22: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 06:11:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.05_model.r WARNING @ Sat, 03 Apr 2021 06:11:22: #2 Since the d (96) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:11:22: #2 You may need to consider one of the other alternative d(s): 96 WARNING @ Sat, 03 Apr 2021 06:11:22: #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 06:11:22: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:11:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:11:26: 3000000 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 06:11:33: 4000000 INFO @ Sat, 03 Apr 2021 06:11:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.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 06:11:33: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:11:33: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:11:36: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:11:40: 1000000 INFO @ Sat, 03 Apr 2021 06:11:41: 5000000 INFO @ Sat, 03 Apr 2021 06:11:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:11:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:11:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.05_summits.bed INFO @ Sat, 03 Apr 2021 06:11:45: Done! pass1 - making usageList (129 chroms): 4 millis pass2 - checking and writing primary data (18473 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:11:47: 2000000 INFO @ Sat, 03 Apr 2021 06:11:48: 6000000 INFO @ Sat, 03 Apr 2021 06:11:48: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:11:48: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:11:48: #1 total tags in treatment: 6048193 INFO @ Sat, 03 Apr 2021 06:11:48: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:11:48: #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 06:11:49: #1 tags after filtering in treatment: 6047994 INFO @ Sat, 03 Apr 2021 06:11:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:11:49: #1 finished! INFO @ Sat, 03 Apr 2021 06:11:49: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:11:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:11:49: #2 number of paired peaks: 5845 INFO @ Sat, 03 Apr 2021 06:11:49: start model_add_line... INFO @ Sat, 03 Apr 2021 06:11:49: start X-correlation... INFO @ Sat, 03 Apr 2021 06:11:50: end of X-cor INFO @ Sat, 03 Apr 2021 06:11:50: #2 finished! INFO @ Sat, 03 Apr 2021 06:11:50: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 06:11:50: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 06:11:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.10_model.r WARNING @ Sat, 03 Apr 2021 06:11:50: #2 Since the d (96) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:11:50: #2 You may need to consider one of the other alternative d(s): 96 WARNING @ Sat, 03 Apr 2021 06:11:50: #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 06:11:50: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:11:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:11:53: 3000000 INFO @ Sat, 03 Apr 2021 06:11:59: 4000000 INFO @ Sat, 03 Apr 2021 06:12:03: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:12:07: 5000000 INFO @ Sat, 03 Apr 2021 06:12:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:12:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:12:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.10_summits.bed INFO @ Sat, 03 Apr 2021 06:12:11: Done! pass1 - making usageList (81 chroms): 3 millis pass2 - checking and writing primary data (11684 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:12:13: 6000000 INFO @ Sat, 03 Apr 2021 06:12:14: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:12:14: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:12:14: #1 total tags in treatment: 6048193 INFO @ Sat, 03 Apr 2021 06:12:14: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:12:14: #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 06:12:14: #1 tags after filtering in treatment: 6047994 INFO @ Sat, 03 Apr 2021 06:12:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:12:14: #1 finished! INFO @ Sat, 03 Apr 2021 06:12:14: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:12:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:12:15: #2 number of paired peaks: 5845 INFO @ Sat, 03 Apr 2021 06:12:15: start model_add_line... INFO @ Sat, 03 Apr 2021 06:12:15: start X-correlation... INFO @ Sat, 03 Apr 2021 06:12:15: end of X-cor INFO @ Sat, 03 Apr 2021 06:12:15: #2 finished! INFO @ Sat, 03 Apr 2021 06:12:15: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 06:12:15: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 06:12:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.20_model.r WARNING @ Sat, 03 Apr 2021 06:12:15: #2 Since the d (96) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:12:15: #2 You may need to consider one of the other alternative d(s): 96 WARNING @ Sat, 03 Apr 2021 06:12:15: #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 06:12:15: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:12:15: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:12:28: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:12:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:12:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:12:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032265/SRX3032265.20_summits.bed INFO @ Sat, 03 Apr 2021 06:12:36: Done! pass1 - making usageList (40 chroms): 2 millis pass2 - checking and writing primary data (5313 records, 4 fields): 9 millis CompletedMACS2peakCalling