Job ID = 14168849 SRX = SRX8688979 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: 00:05:33 16567165 reads; of these: 16567165 (100.00%) were unpaired; of these: 786928 (4.75%) aligned 0 times 10503987 (63.40%) aligned exactly 1 time 5276250 (31.85%) aligned >1 times 95.25% overall alignment rate Time searching: 00:05:33 Overall time: 00:05:33 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] 3017474 / 15780237 = 0.1912 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 21:11:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.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 @ Fri, 10 Dec 2021 21:11:09: #1 read tag files... INFO @ Fri, 10 Dec 2021 21:11:09: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 21:11:15: 1000000 INFO @ Fri, 10 Dec 2021 21:11:20: 2000000 INFO @ Fri, 10 Dec 2021 21:11:26: 3000000 INFO @ Fri, 10 Dec 2021 21:11:32: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 21:11:38: 5000000 INFO @ Fri, 10 Dec 2021 21:11:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.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 @ Fri, 10 Dec 2021 21:11:39: #1 read tag files... INFO @ Fri, 10 Dec 2021 21:11:39: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 21:11:44: 6000000 INFO @ Fri, 10 Dec 2021 21:11:45: 1000000 INFO @ Fri, 10 Dec 2021 21:11:50: 7000000 INFO @ Fri, 10 Dec 2021 21:11:52: 2000000 INFO @ Fri, 10 Dec 2021 21:11:57: 8000000 INFO @ Fri, 10 Dec 2021 21:11:58: 3000000 INFO @ Fri, 10 Dec 2021 21:12:03: 9000000 INFO @ Fri, 10 Dec 2021 21:12:04: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 21:12:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.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 @ Fri, 10 Dec 2021 21:12:09: #1 read tag files... INFO @ Fri, 10 Dec 2021 21:12:09: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 21:12:09: 10000000 INFO @ Fri, 10 Dec 2021 21:12:11: 5000000 INFO @ Fri, 10 Dec 2021 21:12:15: 1000000 INFO @ Fri, 10 Dec 2021 21:12:17: 11000000 INFO @ Fri, 10 Dec 2021 21:12:17: 6000000 INFO @ Fri, 10 Dec 2021 21:12:21: 2000000 INFO @ Fri, 10 Dec 2021 21:12:24: 12000000 INFO @ Fri, 10 Dec 2021 21:12:24: 7000000 INFO @ Fri, 10 Dec 2021 21:12:27: 3000000 INFO @ Fri, 10 Dec 2021 21:12:29: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 21:12:29: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 21:12:29: #1 total tags in treatment: 12762763 INFO @ Fri, 10 Dec 2021 21:12:29: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 21:12:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 21:12:30: #1 tags after filtering in treatment: 12762746 INFO @ Fri, 10 Dec 2021 21:12:30: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 21:12:30: #1 finished! INFO @ Fri, 10 Dec 2021 21:12:30: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 21:12:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 21:12:30: 8000000 INFO @ Fri, 10 Dec 2021 21:12:31: #2 number of paired peaks: 1592 INFO @ Fri, 10 Dec 2021 21:12:31: start model_add_line... INFO @ Fri, 10 Dec 2021 21:12:31: start X-correlation... INFO @ Fri, 10 Dec 2021 21:12:31: end of X-cor INFO @ Fri, 10 Dec 2021 21:12:31: #2 finished! INFO @ Fri, 10 Dec 2021 21:12:31: #2 predicted fragment length is 88 bps INFO @ Fri, 10 Dec 2021 21:12:31: #2 alternative fragment length(s) may be 88 bps INFO @ Fri, 10 Dec 2021 21:12:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.05_model.r WARNING @ Fri, 10 Dec 2021 21:12:31: #2 Since the d (88) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 21:12:31: #2 You may need to consider one of the other alternative d(s): 88 WARNING @ Fri, 10 Dec 2021 21:12:31: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 21:12:31: #3 Call peaks... INFO @ Fri, 10 Dec 2021 21:12:31: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 21:12:33: 4000000 INFO @ Fri, 10 Dec 2021 21:12:36: 9000000 INFO @ Fri, 10 Dec 2021 21:12:39: 5000000 INFO @ Fri, 10 Dec 2021 21:12:42: 10000000 INFO @ Fri, 10 Dec 2021 21:12:45: 6000000 INFO @ Fri, 10 Dec 2021 21:12:49: 11000000 INFO @ Fri, 10 Dec 2021 21:12:51: 7000000 INFO @ Fri, 10 Dec 2021 21:12:55: 12000000 INFO @ Fri, 10 Dec 2021 21:12:57: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 21:12:57: 8000000 INFO @ Fri, 10 Dec 2021 21:13:00: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 21:13:00: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 21:13:00: #1 total tags in treatment: 12762763 INFO @ Fri, 10 Dec 2021 21:13:00: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 21:13:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 21:13:01: #1 tags after filtering in treatment: 12762746 INFO @ Fri, 10 Dec 2021 21:13:01: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 21:13:01: #1 finished! INFO @ Fri, 10 Dec 2021 21:13:01: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 21:13:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 21:13:02: #2 number of paired peaks: 1592 INFO @ Fri, 10 Dec 2021 21:13:02: start model_add_line... INFO @ Fri, 10 Dec 2021 21:13:02: start X-correlation... INFO @ Fri, 10 Dec 2021 21:13:02: end of X-cor INFO @ Fri, 10 Dec 2021 21:13:02: #2 finished! INFO @ Fri, 10 Dec 2021 21:13:02: #2 predicted fragment length is 88 bps INFO @ Fri, 10 Dec 2021 21:13:02: #2 alternative fragment length(s) may be 88 bps INFO @ Fri, 10 Dec 2021 21:13:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.10_model.r WARNING @ Fri, 10 Dec 2021 21:13:02: #2 Since the d (88) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 21:13:02: #2 You may need to consider one of the other alternative d(s): 88 WARNING @ Fri, 10 Dec 2021 21:13:02: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 21:13:02: #3 Call peaks... INFO @ Fri, 10 Dec 2021 21:13:02: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 21:13:03: 9000000 INFO @ Fri, 10 Dec 2021 21:13:09: 10000000 INFO @ Fri, 10 Dec 2021 21:13:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.05_peaks.xls INFO @ Fri, 10 Dec 2021 21:13:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 21:13:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.05_summits.bed INFO @ Fri, 10 Dec 2021 21:13:11: Done! pass1 - making usageList (760 chroms): 5 millis pass2 - checking and writing primary data (20454 records, 4 fields): 70 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 21:13:16: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 21:13:22: 12000000 INFO @ Fri, 10 Dec 2021 21:13:27: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 21:13:27: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 21:13:27: #1 total tags in treatment: 12762763 INFO @ Fri, 10 Dec 2021 21:13:27: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 21:13:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 21:13:27: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 21:13:28: #1 tags after filtering in treatment: 12762746 INFO @ Fri, 10 Dec 2021 21:13:28: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 21:13:28: #1 finished! INFO @ Fri, 10 Dec 2021 21:13:28: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 21:13:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 21:13:29: #2 number of paired peaks: 1592 INFO @ Fri, 10 Dec 2021 21:13:29: start model_add_line... INFO @ Fri, 10 Dec 2021 21:13:29: start X-correlation... INFO @ Fri, 10 Dec 2021 21:13:29: end of X-cor INFO @ Fri, 10 Dec 2021 21:13:29: #2 finished! INFO @ Fri, 10 Dec 2021 21:13:29: #2 predicted fragment length is 88 bps INFO @ Fri, 10 Dec 2021 21:13:29: #2 alternative fragment length(s) may be 88 bps INFO @ Fri, 10 Dec 2021 21:13:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.20_model.r WARNING @ Fri, 10 Dec 2021 21:13:29: #2 Since the d (88) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 21:13:29: #2 You may need to consider one of the other alternative d(s): 88 WARNING @ Fri, 10 Dec 2021 21:13:29: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 21:13:29: #3 Call peaks... INFO @ Fri, 10 Dec 2021 21:13:29: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 21:13:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.10_peaks.xls INFO @ Fri, 10 Dec 2021 21:13:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 21:13:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.10_summits.bed INFO @ Fri, 10 Dec 2021 21:13:40: Done! pass1 - making usageList (612 chroms): 2 millis pass2 - checking and writing primary data (7022 records, 4 fields): 46 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 21:13:54: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 21:14:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.20_peaks.xls INFO @ Fri, 10 Dec 2021 21:14:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 21:14:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8688979/SRX8688979.20_summits.bed INFO @ Fri, 10 Dec 2021 21:14:07: Done! pass1 - making usageList (445 chroms): 1 millis pass2 - checking and writing primary data (1795 records, 4 fields): 30 millis CompletedMACS2peakCalling