Job ID = 14167329 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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:45 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: 00:14:46 Overall time: 00:14:46 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 12:11:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05 -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 @ Fri, 10 Dec 2021 12:11:28: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:11:28: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:11:34: 1000000 INFO @ Fri, 10 Dec 2021 12:11:40: 2000000 INFO @ Fri, 10 Dec 2021 12:11:46: 3000000 INFO @ Fri, 10 Dec 2021 12:11:52: 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 12:11:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10 -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 @ Fri, 10 Dec 2021 12:11:58: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:11:58: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:11:59: 5000000 INFO @ Fri, 10 Dec 2021 12:12:04: 1000000 INFO @ Fri, 10 Dec 2021 12:12:05: 6000000 INFO @ Fri, 10 Dec 2021 12:12:10: 2000000 INFO @ Fri, 10 Dec 2021 12:12:12: 7000000 INFO @ Fri, 10 Dec 2021 12:12:17: 3000000 INFO @ Fri, 10 Dec 2021 12:12:18: 8000000 INFO @ Fri, 10 Dec 2021 12:12:23: 4000000 INFO @ Fri, 10 Dec 2021 12:12:25: 9000000 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 12:12:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20 -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 @ Fri, 10 Dec 2021 12:12:28: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:12:28: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:12:29: 5000000 INFO @ Fri, 10 Dec 2021 12:12:31: 10000000 INFO @ Fri, 10 Dec 2021 12:12:35: 1000000 INFO @ Fri, 10 Dec 2021 12:12:35: 6000000 INFO @ Fri, 10 Dec 2021 12:12:38: 11000000 INFO @ Fri, 10 Dec 2021 12:12:41: 2000000 INFO @ Fri, 10 Dec 2021 12:12:42: 7000000 INFO @ Fri, 10 Dec 2021 12:12:44: 12000000 INFO @ Fri, 10 Dec 2021 12:12:48: 8000000 INFO @ Fri, 10 Dec 2021 12:12:48: 3000000 INFO @ Fri, 10 Dec 2021 12:12:51: 13000000 INFO @ Fri, 10 Dec 2021 12:12:54: 9000000 INFO @ Fri, 10 Dec 2021 12:12:55: 4000000 INFO @ Fri, 10 Dec 2021 12:12:57: 14000000 INFO @ Fri, 10 Dec 2021 12:13:00: 10000000 INFO @ Fri, 10 Dec 2021 12:13:02: 5000000 INFO @ Fri, 10 Dec 2021 12:13:04: 15000000 INFO @ Fri, 10 Dec 2021 12:13:07: 11000000 INFO @ Fri, 10 Dec 2021 12:13:09: 6000000 INFO @ Fri, 10 Dec 2021 12:13:11: 16000000 INFO @ Fri, 10 Dec 2021 12:13:13: 12000000 INFO @ Fri, 10 Dec 2021 12:13:16: 7000000 INFO @ Fri, 10 Dec 2021 12:13:18: 17000000 INFO @ Fri, 10 Dec 2021 12:13:20: 13000000 INFO @ Fri, 10 Dec 2021 12:13:23: 8000000 INFO @ Fri, 10 Dec 2021 12:13:25: 18000000 INFO @ Fri, 10 Dec 2021 12:13:26: 14000000 INFO @ Fri, 10 Dec 2021 12:13:29: 9000000 INFO @ Fri, 10 Dec 2021 12:13:31: 19000000 INFO @ Fri, 10 Dec 2021 12:13:32: 15000000 INFO @ Fri, 10 Dec 2021 12:13:36: 10000000 INFO @ Fri, 10 Dec 2021 12:13:38: 20000000 INFO @ Fri, 10 Dec 2021 12:13:39: 16000000 INFO @ Fri, 10 Dec 2021 12:13:42: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:13:42: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:13:42: #1 total tags in treatment: 20573906 INFO @ Fri, 10 Dec 2021 12:13:42: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:13:42: #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 12:13:43: #1 tags after filtering in treatment: 20573716 INFO @ Fri, 10 Dec 2021 12:13:43: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:13:43: #1 finished! INFO @ Fri, 10 Dec 2021 12:13:43: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:13:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:13:43: 11000000 INFO @ Fri, 10 Dec 2021 12:13:45: #2 number of paired peaks: 2093 INFO @ Fri, 10 Dec 2021 12:13:45: start model_add_line... INFO @ Fri, 10 Dec 2021 12:13:45: start X-correlation... INFO @ Fri, 10 Dec 2021 12:13:45: end of X-cor INFO @ Fri, 10 Dec 2021 12:13:45: #2 finished! INFO @ Fri, 10 Dec 2021 12:13:45: #2 predicted fragment length is 103 bps INFO @ Fri, 10 Dec 2021 12:13:45: #2 alternative fragment length(s) may be 103 bps INFO @ Fri, 10 Dec 2021 12:13:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05_model.r WARNING @ Fri, 10 Dec 2021 12:13:45: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:13:45: #2 You may need to consider one of the other alternative d(s): 103 WARNING @ Fri, 10 Dec 2021 12:13:45: #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 12:13:45: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:13:45: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:13:45: 17000000 INFO @ Fri, 10 Dec 2021 12:13:50: 12000000 INFO @ Fri, 10 Dec 2021 12:13:52: 18000000 INFO @ Fri, 10 Dec 2021 12:13:56: 13000000 INFO @ Fri, 10 Dec 2021 12:13:58: 19000000 INFO @ Fri, 10 Dec 2021 12:14:03: 14000000 INFO @ Fri, 10 Dec 2021 12:14:04: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:14:08: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:14:08: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:14:08: #1 total tags in treatment: 20573906 INFO @ Fri, 10 Dec 2021 12:14:08: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:14:08: #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 12:14:09: #1 tags after filtering in treatment: 20573716 INFO @ Fri, 10 Dec 2021 12:14:09: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:14:09: #1 finished! INFO @ Fri, 10 Dec 2021 12:14:09: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:14:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:14:10: 15000000 INFO @ Fri, 10 Dec 2021 12:14:11: #2 number of paired peaks: 2093 INFO @ Fri, 10 Dec 2021 12:14:11: start model_add_line... INFO @ Fri, 10 Dec 2021 12:14:11: start X-correlation... INFO @ Fri, 10 Dec 2021 12:14:11: end of X-cor INFO @ Fri, 10 Dec 2021 12:14:11: #2 finished! INFO @ Fri, 10 Dec 2021 12:14:11: #2 predicted fragment length is 103 bps INFO @ Fri, 10 Dec 2021 12:14:11: #2 alternative fragment length(s) may be 103 bps INFO @ Fri, 10 Dec 2021 12:14:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10_model.r WARNING @ Fri, 10 Dec 2021 12:14:11: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:14:11: #2 You may need to consider one of the other alternative d(s): 103 WARNING @ Fri, 10 Dec 2021 12:14:11: #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 12:14:11: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:14:11: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:14:17: 16000000 INFO @ Fri, 10 Dec 2021 12:14:24: 17000000 INFO @ Fri, 10 Dec 2021 12:14:31: 18000000 INFO @ Fri, 10 Dec 2021 12:14:33: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:14:38: 19000000 INFO @ Fri, 10 Dec 2021 12:14:44: 20000000 INFO @ Fri, 10 Dec 2021 12:14:48: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:14:48: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:14:48: #1 total tags in treatment: 20573906 INFO @ Fri, 10 Dec 2021 12:14:48: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:14:48: #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 12:14:49: #1 tags after filtering in treatment: 20573716 INFO @ Fri, 10 Dec 2021 12:14:49: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:14:49: #1 finished! INFO @ Fri, 10 Dec 2021 12:14:49: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:14:49: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:14:50: #2 number of paired peaks: 2093 INFO @ Fri, 10 Dec 2021 12:14:50: start model_add_line... INFO @ Fri, 10 Dec 2021 12:14:51: start X-correlation... INFO @ Fri, 10 Dec 2021 12:14:51: end of X-cor INFO @ Fri, 10 Dec 2021 12:14:51: #2 finished! INFO @ Fri, 10 Dec 2021 12:14:51: #2 predicted fragment length is 103 bps INFO @ Fri, 10 Dec 2021 12:14:51: #2 alternative fragment length(s) may be 103 bps INFO @ Fri, 10 Dec 2021 12:14:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20_model.r WARNING @ Fri, 10 Dec 2021 12:14:51: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:14:51: #2 You may need to consider one of the other alternative d(s): 103 WARNING @ Fri, 10 Dec 2021 12:14:51: #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 12:14:51: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:14:51: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:14:55: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:14:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:14:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:14:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.05_summits.bed INFO @ Fri, 10 Dec 2021 12:14:59: Done! pass1 - making usageList (598 chroms): 7 millis pass2 - checking and writing primary data (44551 records, 4 fields): 61 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:15:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:15:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:15:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.10_summits.bed INFO @ Fri, 10 Dec 2021 12:15:20: Done! pass1 - making usageList (444 chroms): 5 millis pass2 - checking and writing primary data (30812 records, 4 fields): 44 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:15:37: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:16:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:16:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:16:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723711/SRX7723711.20_summits.bed INFO @ Fri, 10 Dec 2021 12:16:00: Done! pass1 - making usageList (348 chroms): 3 millis pass2 - checking and writing primary data (16353 records, 4 fields): 27 millis CompletedMACS2peakCalling