Job ID = 14170980 SRX = SRX8174951 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: 00:13:26 47837786 reads; of these: 47837786 (100.00%) were unpaired; of these: 7637321 (15.97%) aligned 0 times 35320982 (73.83%) aligned exactly 1 time 4879483 (10.20%) aligned >1 times 84.03% overall alignment rate Time searching: 00:13:26 Overall time: 00:13:26 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 20 files... [bam_rmdupse_core] 15359686 / 40200465 = 0.3821 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 @ Sat, 11 Dec 2021 09:30:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.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, 11 Dec 2021 09:30:54: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:30:54: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:31:01: 1000000 INFO @ Sat, 11 Dec 2021 09:31:08: 2000000 INFO @ Sat, 11 Dec 2021 09:31:15: 3000000 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 @ Sat, 11 Dec 2021 09:31:22: 4000000 INFO @ Sat, 11 Dec 2021 09:31:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.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, 11 Dec 2021 09:31:24: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:31:24: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:31:30: 5000000 INFO @ Sat, 11 Dec 2021 09:31:31: 1000000 INFO @ Sat, 11 Dec 2021 09:31:37: 2000000 INFO @ Sat, 11 Dec 2021 09:31:38: 6000000 INFO @ Sat, 11 Dec 2021 09:31:44: 3000000 INFO @ Sat, 11 Dec 2021 09:31:45: 7000000 INFO @ Sat, 11 Dec 2021 09:31:51: 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 @ Sat, 11 Dec 2021 09:31:53: 8000000 INFO @ Sat, 11 Dec 2021 09:31:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.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, 11 Dec 2021 09:31:54: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:31:54: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:31:58: 5000000 INFO @ Sat, 11 Dec 2021 09:32:00: 9000000 INFO @ Sat, 11 Dec 2021 09:32:01: 1000000 INFO @ Sat, 11 Dec 2021 09:32:04: 6000000 INFO @ Sat, 11 Dec 2021 09:32:07: 2000000 INFO @ Sat, 11 Dec 2021 09:32:08: 10000000 INFO @ Sat, 11 Dec 2021 09:32:11: 7000000 INFO @ Sat, 11 Dec 2021 09:32:14: 3000000 INFO @ Sat, 11 Dec 2021 09:32:15: 11000000 INFO @ Sat, 11 Dec 2021 09:32:18: 8000000 INFO @ Sat, 11 Dec 2021 09:32:21: 4000000 INFO @ Sat, 11 Dec 2021 09:32:23: 12000000 INFO @ Sat, 11 Dec 2021 09:32:25: 9000000 INFO @ Sat, 11 Dec 2021 09:32:27: 5000000 INFO @ Sat, 11 Dec 2021 09:32:30: 13000000 INFO @ Sat, 11 Dec 2021 09:32:32: 10000000 INFO @ Sat, 11 Dec 2021 09:32:34: 6000000 INFO @ Sat, 11 Dec 2021 09:32:38: 14000000 INFO @ Sat, 11 Dec 2021 09:32:39: 11000000 INFO @ Sat, 11 Dec 2021 09:32:41: 7000000 INFO @ Sat, 11 Dec 2021 09:32:45: 15000000 INFO @ Sat, 11 Dec 2021 09:32:45: 12000000 INFO @ Sat, 11 Dec 2021 09:32:48: 8000000 INFO @ Sat, 11 Dec 2021 09:32:52: 13000000 INFO @ Sat, 11 Dec 2021 09:32:53: 16000000 INFO @ Sat, 11 Dec 2021 09:32:54: 9000000 INFO @ Sat, 11 Dec 2021 09:32:59: 14000000 INFO @ Sat, 11 Dec 2021 09:33:00: 17000000 INFO @ Sat, 11 Dec 2021 09:33:01: 10000000 INFO @ Sat, 11 Dec 2021 09:33:06: 15000000 INFO @ Sat, 11 Dec 2021 09:33:08: 18000000 INFO @ Sat, 11 Dec 2021 09:33:08: 11000000 INFO @ Sat, 11 Dec 2021 09:33:12: 16000000 INFO @ Sat, 11 Dec 2021 09:33:15: 12000000 INFO @ Sat, 11 Dec 2021 09:33:15: 19000000 INFO @ Sat, 11 Dec 2021 09:33:19: 17000000 INFO @ Sat, 11 Dec 2021 09:33:21: 13000000 INFO @ Sat, 11 Dec 2021 09:33:22: 20000000 INFO @ Sat, 11 Dec 2021 09:33:26: 18000000 INFO @ Sat, 11 Dec 2021 09:33:28: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 09:33:30: 21000000 INFO @ Sat, 11 Dec 2021 09:33:33: 19000000 INFO @ Sat, 11 Dec 2021 09:33:35: 15000000 INFO @ Sat, 11 Dec 2021 09:33:38: 22000000 INFO @ Sat, 11 Dec 2021 09:33:39: 20000000 INFO @ Sat, 11 Dec 2021 09:33:42: 16000000 INFO @ Sat, 11 Dec 2021 09:33:45: 23000000 INFO @ Sat, 11 Dec 2021 09:33:47: 21000000 INFO @ Sat, 11 Dec 2021 09:33:48: 17000000 INFO @ Sat, 11 Dec 2021 09:33:53: 24000000 INFO @ Sat, 11 Dec 2021 09:33:53: 22000000 INFO @ Sat, 11 Dec 2021 09:33:55: 18000000 INFO @ Sat, 11 Dec 2021 09:33:59: #1 tag size is determined as 75 bps INFO @ Sat, 11 Dec 2021 09:33:59: #1 tag size = 75 INFO @ Sat, 11 Dec 2021 09:33:59: #1 total tags in treatment: 24840779 INFO @ Sat, 11 Dec 2021 09:33:59: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:33:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:34:00: #1 tags after filtering in treatment: 24840655 INFO @ Sat, 11 Dec 2021 09:34:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:34:00: #1 finished! INFO @ Sat, 11 Dec 2021 09:34:00: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:34:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:34:00: 23000000 INFO @ Sat, 11 Dec 2021 09:34:02: #2 number of paired peaks: 1003 INFO @ Sat, 11 Dec 2021 09:34:02: start model_add_line... INFO @ Sat, 11 Dec 2021 09:34:02: 19000000 INFO @ Sat, 11 Dec 2021 09:34:02: start X-correlation... INFO @ Sat, 11 Dec 2021 09:34:02: end of X-cor INFO @ Sat, 11 Dec 2021 09:34:02: #2 finished! INFO @ Sat, 11 Dec 2021 09:34:02: #2 predicted fragment length is 148 bps INFO @ Sat, 11 Dec 2021 09:34:02: #2 alternative fragment length(s) may be 148 bps INFO @ Sat, 11 Dec 2021 09:34:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.05_model.r WARNING @ Sat, 11 Dec 2021 09:34:02: #2 Since the d (148) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 09:34:02: #2 You may need to consider one of the other alternative d(s): 148 WARNING @ Sat, 11 Dec 2021 09:34:02: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 09:34:02: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:34:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:34:07: 24000000 INFO @ Sat, 11 Dec 2021 09:34:08: 20000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 09:34:13: #1 tag size is determined as 75 bps INFO @ Sat, 11 Dec 2021 09:34:13: #1 tag size = 75 INFO @ Sat, 11 Dec 2021 09:34:13: #1 total tags in treatment: 24840779 INFO @ Sat, 11 Dec 2021 09:34:13: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:34:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:34:14: #1 tags after filtering in treatment: 24840655 INFO @ Sat, 11 Dec 2021 09:34:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:34:14: #1 finished! INFO @ Sat, 11 Dec 2021 09:34:14: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:34:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:34:15: 21000000 INFO @ Sat, 11 Dec 2021 09:34:15: #2 number of paired peaks: 1003 INFO @ Sat, 11 Dec 2021 09:34:15: start model_add_line... INFO @ Sat, 11 Dec 2021 09:34:15: start X-correlation... INFO @ Sat, 11 Dec 2021 09:34:15: end of X-cor INFO @ Sat, 11 Dec 2021 09:34:15: #2 finished! INFO @ Sat, 11 Dec 2021 09:34:15: #2 predicted fragment length is 148 bps INFO @ Sat, 11 Dec 2021 09:34:15: #2 alternative fragment length(s) may be 148 bps INFO @ Sat, 11 Dec 2021 09:34:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.10_model.r WARNING @ Sat, 11 Dec 2021 09:34:15: #2 Since the d (148) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 09:34:15: #2 You may need to consider one of the other alternative d(s): 148 WARNING @ Sat, 11 Dec 2021 09:34:15: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 09:34:15: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:34:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:34:21: 22000000 INFO @ Sat, 11 Dec 2021 09:34:27: 23000000 INFO @ Sat, 11 Dec 2021 09:34:33: 24000000 INFO @ Sat, 11 Dec 2021 09:34:38: #1 tag size is determined as 75 bps INFO @ Sat, 11 Dec 2021 09:34:38: #1 tag size = 75 INFO @ Sat, 11 Dec 2021 09:34:38: #1 total tags in treatment: 24840779 INFO @ Sat, 11 Dec 2021 09:34:38: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:34:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:34:39: #1 tags after filtering in treatment: 24840655 INFO @ Sat, 11 Dec 2021 09:34:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:34:39: #1 finished! INFO @ Sat, 11 Dec 2021 09:34:39: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:34:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:34:40: #2 number of paired peaks: 1003 INFO @ Sat, 11 Dec 2021 09:34:40: start model_add_line... INFO @ Sat, 11 Dec 2021 09:34:41: start X-correlation... INFO @ Sat, 11 Dec 2021 09:34:41: end of X-cor INFO @ Sat, 11 Dec 2021 09:34:41: #2 finished! INFO @ Sat, 11 Dec 2021 09:34:41: #2 predicted fragment length is 148 bps INFO @ Sat, 11 Dec 2021 09:34:41: #2 alternative fragment length(s) may be 148 bps INFO @ Sat, 11 Dec 2021 09:34:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.20_model.r WARNING @ Sat, 11 Dec 2021 09:34:41: #2 Since the d (148) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 09:34:41: #2 You may need to consider one of the other alternative d(s): 148 WARNING @ Sat, 11 Dec 2021 09:34:41: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 09:34:41: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:34:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:34:52: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:35:04: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:35:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:35:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:35:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.05_summits.bed INFO @ Sat, 11 Dec 2021 09:35:19: Done! pass1 - making usageList (589 chroms): 7 millis pass2 - checking and writing primary data (51632 records, 4 fields): 59 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:35:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.10_peaks.xls INFO @ Sat, 11 Dec 2021 09:35:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:35:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.10_summits.bed INFO @ Sat, 11 Dec 2021 09:35:28: Done! pass1 - making usageList (452 chroms): 5 millis pass2 - checking and writing primary data (38023 records, 4 fields): 46 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:35:29: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:35:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.20_peaks.xls INFO @ Sat, 11 Dec 2021 09:35:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:35:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8174951/SRX8174951.20_summits.bed INFO @ Sat, 11 Dec 2021 09:35:53: Done! pass1 - making usageList (302 chroms): 4 millis pass2 - checking and writing primary data (20666 records, 4 fields): 26 millis CompletedMACS2peakCalling