Job ID = 6529436 SRX = SRX2692975 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: 00:00:01 Multiseed full-index search: 00:35:45 77581967 reads; of these: 77581967 (100.00%) were unpaired; of these: 11433071 (14.74%) aligned 0 times 35611875 (45.90%) aligned exactly 1 time 30537021 (39.36%) aligned >1 times 85.26% overall alignment rate Time searching: 00:35:46 Overall time: 00:35:46 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 28 files... [bam_rmdupse_core] 32296408 / 66148896 = 0.4882 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 @ Tue, 30 Jun 2020 02:46:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.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 @ Tue, 30 Jun 2020 02:46:51: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:46:51: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:46:56: 1000000 INFO @ Tue, 30 Jun 2020 02:47:01: 2000000 INFO @ Tue, 30 Jun 2020 02:47:07: 3000000 INFO @ Tue, 30 Jun 2020 02:47:12: 4000000 INFO @ Tue, 30 Jun 2020 02:47:17: 5000000 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 @ Tue, 30 Jun 2020 02:47:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.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 @ Tue, 30 Jun 2020 02:47:21: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:47:21: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:47:23: 6000000 INFO @ Tue, 30 Jun 2020 02:47:26: 1000000 INFO @ Tue, 30 Jun 2020 02:47:28: 7000000 INFO @ Tue, 30 Jun 2020 02:47:32: 2000000 INFO @ Tue, 30 Jun 2020 02:47:34: 8000000 INFO @ Tue, 30 Jun 2020 02:47:38: 3000000 INFO @ Tue, 30 Jun 2020 02:47:40: 9000000 INFO @ Tue, 30 Jun 2020 02:47:43: 4000000 INFO @ Tue, 30 Jun 2020 02:47:45: 10000000 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 @ Tue, 30 Jun 2020 02:47:49: 5000000 INFO @ Tue, 30 Jun 2020 02:47:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.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 @ Tue, 30 Jun 2020 02:47:51: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:47:51: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:47:51: 11000000 INFO @ Tue, 30 Jun 2020 02:47:55: 6000000 INFO @ Tue, 30 Jun 2020 02:47:57: 1000000 INFO @ Tue, 30 Jun 2020 02:47:57: 12000000 INFO @ Tue, 30 Jun 2020 02:48:00: 7000000 INFO @ Tue, 30 Jun 2020 02:48:02: 2000000 INFO @ Tue, 30 Jun 2020 02:48:02: 13000000 INFO @ Tue, 30 Jun 2020 02:48:06: 8000000 INFO @ Tue, 30 Jun 2020 02:48:08: 3000000 INFO @ Tue, 30 Jun 2020 02:48:08: 14000000 INFO @ Tue, 30 Jun 2020 02:48:12: 9000000 INFO @ Tue, 30 Jun 2020 02:48:14: 4000000 INFO @ Tue, 30 Jun 2020 02:48:14: 15000000 INFO @ Tue, 30 Jun 2020 02:48:18: 10000000 INFO @ Tue, 30 Jun 2020 02:48:19: 16000000 INFO @ Tue, 30 Jun 2020 02:48:19: 5000000 INFO @ Tue, 30 Jun 2020 02:48:23: 11000000 INFO @ Tue, 30 Jun 2020 02:48:25: 17000000 INFO @ Tue, 30 Jun 2020 02:48:25: 6000000 INFO @ Tue, 30 Jun 2020 02:48:29: 12000000 INFO @ Tue, 30 Jun 2020 02:48:31: 18000000 INFO @ Tue, 30 Jun 2020 02:48:31: 7000000 INFO @ Tue, 30 Jun 2020 02:48:35: 13000000 INFO @ Tue, 30 Jun 2020 02:48:36: 19000000 INFO @ Tue, 30 Jun 2020 02:48:37: 8000000 INFO @ Tue, 30 Jun 2020 02:48:40: 14000000 INFO @ Tue, 30 Jun 2020 02:48:42: 20000000 INFO @ Tue, 30 Jun 2020 02:48:42: 9000000 INFO @ Tue, 30 Jun 2020 02:48:46: 15000000 INFO @ Tue, 30 Jun 2020 02:48:47: 21000000 INFO @ Tue, 30 Jun 2020 02:48:48: 10000000 INFO @ Tue, 30 Jun 2020 02:48:52: 16000000 INFO @ Tue, 30 Jun 2020 02:48:53: 22000000 INFO @ Tue, 30 Jun 2020 02:48:54: 11000000 INFO @ Tue, 30 Jun 2020 02:48:57: 17000000 INFO @ Tue, 30 Jun 2020 02:48:58: 23000000 INFO @ Tue, 30 Jun 2020 02:48:59: 12000000 INFO @ Tue, 30 Jun 2020 02:49:03: 18000000 INFO @ Tue, 30 Jun 2020 02:49:04: 24000000 INFO @ Tue, 30 Jun 2020 02:49:05: 13000000 INFO @ Tue, 30 Jun 2020 02:49:08: 19000000 INFO @ Tue, 30 Jun 2020 02:49:10: 25000000 INFO @ Tue, 30 Jun 2020 02:49:11: 14000000 INFO @ Tue, 30 Jun 2020 02:49:14: 20000000 INFO @ Tue, 30 Jun 2020 02:49:15: 26000000 INFO @ Tue, 30 Jun 2020 02:49:16: 15000000 INFO @ Tue, 30 Jun 2020 02:49:20: 21000000 INFO @ Tue, 30 Jun 2020 02:49:21: 27000000 INFO @ Tue, 30 Jun 2020 02:49:22: 16000000 INFO @ Tue, 30 Jun 2020 02:49:25: 22000000 INFO @ Tue, 30 Jun 2020 02:49:27: 28000000 INFO @ Tue, 30 Jun 2020 02:49:27: 17000000 INFO @ Tue, 30 Jun 2020 02:49:31: 23000000 INFO @ Tue, 30 Jun 2020 02:49:32: 29000000 INFO @ Tue, 30 Jun 2020 02:49:33: 18000000 INFO @ Tue, 30 Jun 2020 02:49:36: 24000000 INFO @ Tue, 30 Jun 2020 02:49:38: 30000000 INFO @ Tue, 30 Jun 2020 02:49:39: 19000000 INFO @ Tue, 30 Jun 2020 02:49:42: 25000000 INFO @ Tue, 30 Jun 2020 02:49:44: 31000000 INFO @ Tue, 30 Jun 2020 02:49:44: 20000000 INFO @ Tue, 30 Jun 2020 02:49:48: 26000000 INFO @ Tue, 30 Jun 2020 02:49:49: 32000000 INFO @ Tue, 30 Jun 2020 02:49:50: 21000000 INFO @ Tue, 30 Jun 2020 02:49:54: 27000000 INFO @ Tue, 30 Jun 2020 02:49:55: 33000000 INFO @ Tue, 30 Jun 2020 02:49:56: 22000000 INFO @ Tue, 30 Jun 2020 02:49:59: 28000000 INFO @ Tue, 30 Jun 2020 02:50:00: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 02:50:00: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 02:50:00: #1 total tags in treatment: 33852488 INFO @ Tue, 30 Jun 2020 02:50:00: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:50:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:50:01: #1 tags after filtering in treatment: 33852479 INFO @ Tue, 30 Jun 2020 02:50:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:50:01: #1 finished! INFO @ Tue, 30 Jun 2020 02:50:01: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:50:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:50:01: 23000000 INFO @ Tue, 30 Jun 2020 02:50:03: #2 number of paired peaks: 1004 INFO @ Tue, 30 Jun 2020 02:50:03: start model_add_line... INFO @ Tue, 30 Jun 2020 02:50:03: start X-correlation... INFO @ Tue, 30 Jun 2020 02:50:03: end of X-cor INFO @ Tue, 30 Jun 2020 02:50:03: #2 finished! INFO @ Tue, 30 Jun 2020 02:50:03: #2 predicted fragment length is 66 bps INFO @ Tue, 30 Jun 2020 02:50:03: #2 alternative fragment length(s) may be 2,66 bps INFO @ Tue, 30 Jun 2020 02:50:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.05_model.r WARNING @ Tue, 30 Jun 2020 02:50:03: #2 Since the d (66) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:50:03: #2 You may need to consider one of the other alternative d(s): 2,66 WARNING @ Tue, 30 Jun 2020 02:50:03: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 02:50:03: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:50:03: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:50:05: 29000000 INFO @ Tue, 30 Jun 2020 02:50:07: 24000000 INFO @ Tue, 30 Jun 2020 02:50:10: 30000000 INFO @ Tue, 30 Jun 2020 02:50:12: 25000000 INFO @ Tue, 30 Jun 2020 02:50:16: 31000000 INFO @ Tue, 30 Jun 2020 02:50:18: 26000000 INFO @ Tue, 30 Jun 2020 02:50:22: 32000000 INFO @ Tue, 30 Jun 2020 02:50:24: 27000000 INFO @ Tue, 30 Jun 2020 02:50:27: 33000000 INFO @ Tue, 30 Jun 2020 02:50:29: 28000000 INFO @ Tue, 30 Jun 2020 02:50:32: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 02:50:32: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 02:50:32: #1 total tags in treatment: 33852488 INFO @ Tue, 30 Jun 2020 02:50:32: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:50:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:50:33: #1 tags after filtering in treatment: 33852479 INFO @ Tue, 30 Jun 2020 02:50:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:50:33: #1 finished! INFO @ Tue, 30 Jun 2020 02:50:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:50:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:50:35: 29000000 INFO @ Tue, 30 Jun 2020 02:50:35: #2 number of paired peaks: 1004 INFO @ Tue, 30 Jun 2020 02:50:35: start model_add_line... INFO @ Tue, 30 Jun 2020 02:50:35: start X-correlation... INFO @ Tue, 30 Jun 2020 02:50:35: end of X-cor INFO @ Tue, 30 Jun 2020 02:50:35: #2 finished! INFO @ Tue, 30 Jun 2020 02:50:35: #2 predicted fragment length is 66 bps INFO @ Tue, 30 Jun 2020 02:50:35: #2 alternative fragment length(s) may be 2,66 bps INFO @ Tue, 30 Jun 2020 02:50:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.10_model.r WARNING @ Tue, 30 Jun 2020 02:50:35: #2 Since the d (66) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:50:35: #2 You may need to consider one of the other alternative d(s): 2,66 WARNING @ Tue, 30 Jun 2020 02:50:35: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 02:50:35: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:50:35: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:50:40: 30000000 INFO @ Tue, 30 Jun 2020 02:50:46: 31000000 INFO @ Tue, 30 Jun 2020 02:50:51: 32000000 INFO @ Tue, 30 Jun 2020 02:50:56: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:50:57: 33000000 INFO @ Tue, 30 Jun 2020 02:51:02: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 02:51:02: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 02:51:02: #1 total tags in treatment: 33852488 INFO @ Tue, 30 Jun 2020 02:51:02: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:51:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:51:02: #1 tags after filtering in treatment: 33852479 INFO @ Tue, 30 Jun 2020 02:51:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:51:02: #1 finished! INFO @ Tue, 30 Jun 2020 02:51:02: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:51:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:51:05: #2 number of paired peaks: 1004 INFO @ Tue, 30 Jun 2020 02:51:05: start model_add_line... INFO @ Tue, 30 Jun 2020 02:51:05: start X-correlation... INFO @ Tue, 30 Jun 2020 02:51:05: end of X-cor INFO @ Tue, 30 Jun 2020 02:51:05: #2 finished! INFO @ Tue, 30 Jun 2020 02:51:05: #2 predicted fragment length is 66 bps INFO @ Tue, 30 Jun 2020 02:51:05: #2 alternative fragment length(s) may be 2,66 bps INFO @ Tue, 30 Jun 2020 02:51:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.20_model.r WARNING @ Tue, 30 Jun 2020 02:51:05: #2 Since the d (66) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:51:05: #2 You may need to consider one of the other alternative d(s): 2,66 WARNING @ Tue, 30 Jun 2020 02:51:05: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 02:51:05: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:51:05: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:51:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:51:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:51:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.05_summits.bed INFO @ Tue, 30 Jun 2020 02:51:22: Done! pass1 - making usageList (851 chroms): 3 millis pass2 - checking and writing primary data (12372 records, 4 fields): 32 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:51:27: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:51:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:51:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:51:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.10_summits.bed INFO @ Tue, 30 Jun 2020 02:51:53: Done! pass1 - making usageList (779 chroms): 2 millis pass2 - checking and writing primary data (4860 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:51:59: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:52:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:52:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:52:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2692975/SRX2692975.20_summits.bed INFO @ Tue, 30 Jun 2020 02:52:25: Done! pass1 - making usageList (684 chroms): 1 millis pass2 - checking and writing primary data (2288 records, 4 fields): 20 millis CompletedMACS2peakCalling