Job ID = 10166657 SRX = SRX7723711 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: 00:13:48 35759716 reads; of these: 35759716 (100.00%) were unpaired; of these: 2825242 (7.90%) aligned 0 times 26582934 (74.34%) aligned exactly 1 time 6351540 (17.76%) aligned >1 times 92.10% overall alignment rate Time searching: 00:13:48 Overall time: 00:13:48 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 16 files... [bam_rmdupse_core] 12360568 / 32934474 = 0.3753 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 @ Thu, 08 Oct 2020 22:24:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.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 @ Thu, 08 Oct 2020 22:24:58: #1 read tag files... INFO @ Thu, 08 Oct 2020 22:24:58: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 22:25:06: 1000000 INFO @ Thu, 08 Oct 2020 22:25:12: 2000000 INFO @ Thu, 08 Oct 2020 22:25:17: 3000000 INFO @ Thu, 08 Oct 2020 22:25:23: 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 @ Thu, 08 Oct 2020 22:25:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.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 @ Thu, 08 Oct 2020 22:25:28: #1 read tag files... INFO @ Thu, 08 Oct 2020 22:25:28: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 22:25:31: 5000000 INFO @ Thu, 08 Oct 2020 22:25:34: 1000000 INFO @ Thu, 08 Oct 2020 22:25:38: 6000000 INFO @ Thu, 08 Oct 2020 22:25:39: 2000000 INFO @ Thu, 08 Oct 2020 22:25:44: 3000000 INFO @ Thu, 08 Oct 2020 22:25:46: 7000000 INFO @ Thu, 08 Oct 2020 22:25:50: 4000000 INFO @ Thu, 08 Oct 2020 22:25:54: 8000000 INFO @ Thu, 08 Oct 2020 22:25:55: 5000000 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 @ Thu, 08 Oct 2020 22:25:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.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 @ Thu, 08 Oct 2020 22:25:58: #1 read tag files... INFO @ Thu, 08 Oct 2020 22:25:58: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 22:26:01: 9000000 INFO @ Thu, 08 Oct 2020 22:26:01: 6000000 INFO @ Thu, 08 Oct 2020 22:26:04: 1000000 INFO @ Thu, 08 Oct 2020 22:26:06: 7000000 INFO @ Thu, 08 Oct 2020 22:26:06: 10000000 INFO @ Thu, 08 Oct 2020 22:26:10: 2000000 INFO @ Thu, 08 Oct 2020 22:26:12: 8000000 INFO @ Thu, 08 Oct 2020 22:26:12: 11000000 INFO @ Thu, 08 Oct 2020 22:26:16: 3000000 INFO @ Thu, 08 Oct 2020 22:26:17: 9000000 INFO @ Thu, 08 Oct 2020 22:26:18: 12000000 INFO @ Thu, 08 Oct 2020 22:26:21: 4000000 INFO @ Thu, 08 Oct 2020 22:26:23: 13000000 INFO @ Thu, 08 Oct 2020 22:26:23: 10000000 INFO @ Thu, 08 Oct 2020 22:26:27: 5000000 INFO @ Thu, 08 Oct 2020 22:26:29: 14000000 INFO @ Thu, 08 Oct 2020 22:26:29: 11000000 INFO @ Thu, 08 Oct 2020 22:26:33: 6000000 INFO @ Thu, 08 Oct 2020 22:26:34: 15000000 INFO @ Thu, 08 Oct 2020 22:26:34: 12000000 INFO @ Thu, 08 Oct 2020 22:26:38: 7000000 INFO @ Thu, 08 Oct 2020 22:26:40: 13000000 INFO @ Thu, 08 Oct 2020 22:26:40: 16000000 INFO @ Thu, 08 Oct 2020 22:26:44: 8000000 INFO @ Thu, 08 Oct 2020 22:26:45: 14000000 INFO @ Thu, 08 Oct 2020 22:26:45: 17000000 INFO @ Thu, 08 Oct 2020 22:26:49: 9000000 INFO @ Thu, 08 Oct 2020 22:26:51: 15000000 INFO @ Thu, 08 Oct 2020 22:26:51: 18000000 INFO @ Thu, 08 Oct 2020 22:26:55: 10000000 INFO @ Thu, 08 Oct 2020 22:26:56: 19000000 INFO @ Thu, 08 Oct 2020 22:26:57: 16000000 INFO @ Thu, 08 Oct 2020 22:27:00: 11000000 INFO @ Thu, 08 Oct 2020 22:27:02: 20000000 INFO @ Thu, 08 Oct 2020 22:27:02: 17000000 INFO @ Thu, 08 Oct 2020 22:27:05: #1 tag size is determined as 75 bps INFO @ Thu, 08 Oct 2020 22:27:05: #1 tag size = 75 INFO @ Thu, 08 Oct 2020 22:27:05: #1 total tags in treatment: 20573906 INFO @ Thu, 08 Oct 2020 22:27:05: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 22:27:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 22:27:06: 12000000 INFO @ Thu, 08 Oct 2020 22:27:06: #1 tags after filtering in treatment: 20573716 INFO @ Thu, 08 Oct 2020 22:27:06: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 22:27:06: #1 finished! INFO @ Thu, 08 Oct 2020 22:27:06: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 22:27:06: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 22:27:07: 18000000 INFO @ Thu, 08 Oct 2020 22:27:07: #2 number of paired peaks: 2093 INFO @ Thu, 08 Oct 2020 22:27:07: start model_add_line... INFO @ Thu, 08 Oct 2020 22:27:08: start X-correlation... INFO @ Thu, 08 Oct 2020 22:27:08: end of X-cor INFO @ Thu, 08 Oct 2020 22:27:08: #2 finished! INFO @ Thu, 08 Oct 2020 22:27:08: #2 predicted fragment length is 103 bps INFO @ Thu, 08 Oct 2020 22:27:08: #2 alternative fragment length(s) may be 103 bps INFO @ Thu, 08 Oct 2020 22:27:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05_model.r WARNING @ Thu, 08 Oct 2020 22:27:08: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 08 Oct 2020 22:27:08: #2 You may need to consider one of the other alternative d(s): 103 WARNING @ Thu, 08 Oct 2020 22:27:08: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 08 Oct 2020 22:27:08: #3 Call peaks... INFO @ Thu, 08 Oct 2020 22:27:08: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 22:27:11: 13000000 INFO @ Thu, 08 Oct 2020 22:27:13: 19000000 INFO @ Thu, 08 Oct 2020 22:27:17: 14000000 INFO @ Thu, 08 Oct 2020 22:27:18: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 22:27:22: 15000000 INFO @ Thu, 08 Oct 2020 22:27:22: #1 tag size is determined as 75 bps INFO @ Thu, 08 Oct 2020 22:27:22: #1 tag size = 75 INFO @ Thu, 08 Oct 2020 22:27:22: #1 total tags in treatment: 20573906 INFO @ Thu, 08 Oct 2020 22:27:22: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 22:27:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 22:27:23: #1 tags after filtering in treatment: 20573716 INFO @ Thu, 08 Oct 2020 22:27:23: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 22:27:23: #1 finished! INFO @ Thu, 08 Oct 2020 22:27:23: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 22:27:23: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 22:27:24: #2 number of paired peaks: 2093 INFO @ Thu, 08 Oct 2020 22:27:24: start model_add_line... INFO @ Thu, 08 Oct 2020 22:27:24: start X-correlation... INFO @ Thu, 08 Oct 2020 22:27:24: end of X-cor INFO @ Thu, 08 Oct 2020 22:27:24: #2 finished! INFO @ Thu, 08 Oct 2020 22:27:24: #2 predicted fragment length is 103 bps INFO @ Thu, 08 Oct 2020 22:27:24: #2 alternative fragment length(s) may be 103 bps INFO @ Thu, 08 Oct 2020 22:27:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10_model.r WARNING @ Thu, 08 Oct 2020 22:27:24: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 08 Oct 2020 22:27:24: #2 You may need to consider one of the other alternative d(s): 103 WARNING @ Thu, 08 Oct 2020 22:27:24: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 08 Oct 2020 22:27:24: #3 Call peaks... INFO @ Thu, 08 Oct 2020 22:27:24: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 22:27:28: 16000000 INFO @ Thu, 08 Oct 2020 22:27:33: 17000000 INFO @ Thu, 08 Oct 2020 22:27:38: 18000000 INFO @ Thu, 08 Oct 2020 22:27:43: 19000000 INFO @ Thu, 08 Oct 2020 22:27:48: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 22:27:48: 20000000 INFO @ Thu, 08 Oct 2020 22:27:52: #1 tag size is determined as 75 bps INFO @ Thu, 08 Oct 2020 22:27:52: #1 tag size = 75 INFO @ Thu, 08 Oct 2020 22:27:52: #1 total tags in treatment: 20573906 INFO @ Thu, 08 Oct 2020 22:27:52: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 22:27:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 22:27:52: #1 tags after filtering in treatment: 20573716 INFO @ Thu, 08 Oct 2020 22:27:52: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 22:27:52: #1 finished! INFO @ Thu, 08 Oct 2020 22:27:52: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 22:27:52: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 22:27:54: #2 number of paired peaks: 2093 INFO @ Thu, 08 Oct 2020 22:27:54: start model_add_line... INFO @ Thu, 08 Oct 2020 22:27:54: start X-correlation... INFO @ Thu, 08 Oct 2020 22:27:54: end of X-cor INFO @ Thu, 08 Oct 2020 22:27:54: #2 finished! INFO @ Thu, 08 Oct 2020 22:27:54: #2 predicted fragment length is 103 bps INFO @ Thu, 08 Oct 2020 22:27:54: #2 alternative fragment length(s) may be 103 bps INFO @ Thu, 08 Oct 2020 22:27:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20_model.r WARNING @ Thu, 08 Oct 2020 22:27:54: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 08 Oct 2020 22:27:54: #2 You may need to consider one of the other alternative d(s): 103 WARNING @ Thu, 08 Oct 2020 22:27:54: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 08 Oct 2020 22:27:54: #3 Call peaks... INFO @ Thu, 08 Oct 2020 22:27:54: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 22:28:03: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 22:28:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05_peaks.xls INFO @ Thu, 08 Oct 2020 22:28:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 22:28:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05_summits.bed INFO @ Thu, 08 Oct 2020 22:28:10: Done! pass1 - making usageList (598 chroms): 7 millis pass2 - checking and writing primary data (44551 records, 4 fields): 52 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 22:28:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10_peaks.xls INFO @ Thu, 08 Oct 2020 22:28:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 22:28:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10_summits.bed INFO @ Thu, 08 Oct 2020 22:28:24: Done! pass1 - making usageList (444 chroms): 5 millis pass2 - checking and writing primary data (30812 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 22:28:34: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 22:28:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20_peaks.xls INFO @ Thu, 08 Oct 2020 22:28:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 22:28:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20_summits.bed INFO @ Thu, 08 Oct 2020 22:28:54: Done! pass1 - making usageList (348 chroms): 3 millis pass2 - checking and writing primary data (16353 records, 4 fields): 24 millis CompletedMACS2peakCalling