Job ID = 2590506 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 15,043,437 reads read : 30,086,874 reads written : 15,043,437 reads 0-length : 15,043,437 spots read : 15,214,005 reads read : 30,428,010 reads written : 15,214,005 reads 0-length : 15,214,005 spots read : 15,292,986 reads read : 30,585,972 reads written : 15,292,986 reads 0-length : 15,292,986 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: 00:15:29 45550428 reads; of these: 45550428 (100.00%) were unpaired; of these: 1207074 (2.65%) aligned 0 times 35183365 (77.24%) aligned exactly 1 time 9159989 (20.11%) aligned >1 times 97.35% overall alignment rate Time searching: 00:15:29 Overall time: 00:15:29 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 15831009 / 44343354 = 0.3570 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Mon, 12 Aug 2019 22:48:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.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 @ Mon, 12 Aug 2019 22:48:43: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:48:43: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:48:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.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 @ Mon, 12 Aug 2019 22:48:44: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:48:44: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:48:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.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 @ Mon, 12 Aug 2019 22:48:45: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:48:45: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:48:51: 1000000 INFO @ Mon, 12 Aug 2019 22:48:52: 1000000 INFO @ Mon, 12 Aug 2019 22:48:54: 1000000 INFO @ Mon, 12 Aug 2019 22:48:59: 2000000 INFO @ Mon, 12 Aug 2019 22:49:01: 2000000 INFO @ Mon, 12 Aug 2019 22:49:01: 2000000 INFO @ Mon, 12 Aug 2019 22:49:06: 3000000 INFO @ Mon, 12 Aug 2019 22:49:09: 3000000 INFO @ Mon, 12 Aug 2019 22:49:10: 3000000 INFO @ Mon, 12 Aug 2019 22:49:14: 4000000 INFO @ Mon, 12 Aug 2019 22:49:17: 4000000 INFO @ Mon, 12 Aug 2019 22:49:18: 4000000 INFO @ Mon, 12 Aug 2019 22:49:22: 5000000 INFO @ Mon, 12 Aug 2019 22:49:25: 5000000 INFO @ Mon, 12 Aug 2019 22:49:27: 5000000 INFO @ Mon, 12 Aug 2019 22:49:29: 6000000 INFO @ Mon, 12 Aug 2019 22:49:32: 6000000 INFO @ Mon, 12 Aug 2019 22:49:36: 6000000 INFO @ Mon, 12 Aug 2019 22:49:36: 7000000 INFO @ Mon, 12 Aug 2019 22:49:39: 7000000 INFO @ Mon, 12 Aug 2019 22:49:43: 8000000 INFO @ Mon, 12 Aug 2019 22:49:45: 7000000 INFO @ Mon, 12 Aug 2019 22:49:45: 8000000 INFO @ Mon, 12 Aug 2019 22:49:49: 9000000 INFO @ Mon, 12 Aug 2019 22:49:52: 9000000 INFO @ Mon, 12 Aug 2019 22:49:53: 8000000 INFO @ Mon, 12 Aug 2019 22:49:56: 10000000 INFO @ Mon, 12 Aug 2019 22:49:58: 10000000 INFO @ Mon, 12 Aug 2019 22:50:02: 9000000 INFO @ Mon, 12 Aug 2019 22:50:03: 11000000 INFO @ Mon, 12 Aug 2019 22:50:05: 11000000 INFO @ Mon, 12 Aug 2019 22:50:09: 12000000 INFO @ Mon, 12 Aug 2019 22:50:11: 10000000 INFO @ Mon, 12 Aug 2019 22:50:12: 12000000 INFO @ Mon, 12 Aug 2019 22:50:16: 13000000 INFO @ Mon, 12 Aug 2019 22:50:18: 13000000 INFO @ Mon, 12 Aug 2019 22:50:20: 11000000 INFO @ Mon, 12 Aug 2019 22:50:23: 14000000 INFO @ Mon, 12 Aug 2019 22:50:25: 14000000 INFO @ Mon, 12 Aug 2019 22:50:29: 12000000 INFO @ Mon, 12 Aug 2019 22:50:29: 15000000 INFO @ Mon, 12 Aug 2019 22:50:31: 15000000 INFO @ Mon, 12 Aug 2019 22:50:36: 16000000 INFO @ Mon, 12 Aug 2019 22:50:38: 13000000 INFO @ Mon, 12 Aug 2019 22:50:38: 16000000 INFO @ Mon, 12 Aug 2019 22:50:42: 17000000 INFO @ Mon, 12 Aug 2019 22:50:44: 17000000 INFO @ Mon, 12 Aug 2019 22:50:46: 14000000 INFO @ Mon, 12 Aug 2019 22:50:49: 18000000 INFO @ Mon, 12 Aug 2019 22:50:51: 18000000 INFO @ Mon, 12 Aug 2019 22:50:55: 15000000 INFO @ Mon, 12 Aug 2019 22:50:55: 19000000 INFO @ Mon, 12 Aug 2019 22:50:58: 19000000 INFO @ Mon, 12 Aug 2019 22:51:02: 20000000 INFO @ Mon, 12 Aug 2019 22:51:04: 16000000 INFO @ Mon, 12 Aug 2019 22:51:04: 20000000 INFO @ Mon, 12 Aug 2019 22:51:09: 21000000 INFO @ Mon, 12 Aug 2019 22:51:11: 21000000 INFO @ Mon, 12 Aug 2019 22:51:12: 17000000 INFO @ Mon, 12 Aug 2019 22:51:16: 22000000 INFO @ Mon, 12 Aug 2019 22:51:18: 22000000 INFO @ Mon, 12 Aug 2019 22:51:21: 18000000 INFO @ Mon, 12 Aug 2019 22:51:23: 23000000 INFO @ Mon, 12 Aug 2019 22:51:24: 23000000 INFO @ Mon, 12 Aug 2019 22:51:29: 19000000 INFO @ Mon, 12 Aug 2019 22:51:29: 24000000 INFO @ Mon, 12 Aug 2019 22:51:31: 24000000 INFO @ Mon, 12 Aug 2019 22:51:36: 25000000 INFO @ Mon, 12 Aug 2019 22:51:38: 20000000 INFO @ Mon, 12 Aug 2019 22:51:38: 25000000 INFO @ Mon, 12 Aug 2019 22:51:44: 26000000 INFO @ Mon, 12 Aug 2019 22:51:46: 26000000 INFO @ Mon, 12 Aug 2019 22:51:46: 21000000 INFO @ Mon, 12 Aug 2019 22:51:51: 27000000 INFO @ Mon, 12 Aug 2019 22:51:53: 27000000 INFO @ Mon, 12 Aug 2019 22:51:55: 22000000 INFO @ Mon, 12 Aug 2019 22:51:59: 28000000 INFO @ Mon, 12 Aug 2019 22:52:01: 28000000 INFO @ Mon, 12 Aug 2019 22:52:03: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:52:03: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:52:03: #1 total tags in treatment: 28512345 INFO @ Mon, 12 Aug 2019 22:52:03: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:52:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 22:52:04: #1 tags after filtering in treatment: 28512345 INFO @ Mon, 12 Aug 2019 22:52:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:52:04: #1 finished! INFO @ Mon, 12 Aug 2019 22:52:04: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:52:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:52:04: 23000000 INFO @ Mon, 12 Aug 2019 22:52:05: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:52:05: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:52:05: #1 total tags in treatment: 28512345 INFO @ Mon, 12 Aug 2019 22:52:05: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:52:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 22:52:06: #1 tags after filtering in treatment: 28512345 INFO @ Mon, 12 Aug 2019 22:52:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:52:06: #1 finished! INFO @ Mon, 12 Aug 2019 22:52:06: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:52:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:52:07: #2 number of paired peaks: 3096 INFO @ Mon, 12 Aug 2019 22:52:07: start model_add_line... INFO @ Mon, 12 Aug 2019 22:52:07: start X-correlation... INFO @ Mon, 12 Aug 2019 22:52:07: end of X-cor INFO @ Mon, 12 Aug 2019 22:52:07: #2 finished! INFO @ Mon, 12 Aug 2019 22:52:07: #2 predicted fragment length is 213 bps INFO @ Mon, 12 Aug 2019 22:52:07: #2 alternative fragment length(s) may be 4,213 bps INFO @ Mon, 12 Aug 2019 22:52:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.10_model.r INFO @ Mon, 12 Aug 2019 22:52:07: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:52:07: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:52:09: #2 number of paired peaks: 3096 INFO @ Mon, 12 Aug 2019 22:52:09: start model_add_line... INFO @ Mon, 12 Aug 2019 22:52:09: start X-correlation... INFO @ Mon, 12 Aug 2019 22:52:09: end of X-cor INFO @ Mon, 12 Aug 2019 22:52:09: #2 finished! INFO @ Mon, 12 Aug 2019 22:52:09: #2 predicted fragment length is 213 bps INFO @ Mon, 12 Aug 2019 22:52:09: #2 alternative fragment length(s) may be 4,213 bps INFO @ Mon, 12 Aug 2019 22:52:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.20_model.r INFO @ Mon, 12 Aug 2019 22:52:09: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:52:09: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:52:12: 24000000 INFO @ Mon, 12 Aug 2019 22:52:21: 25000000 INFO @ Mon, 12 Aug 2019 22:52:29: 26000000 INFO @ Mon, 12 Aug 2019 22:52:38: 27000000 INFO @ Mon, 12 Aug 2019 22:52:46: 28000000 INFO @ Mon, 12 Aug 2019 22:52:50: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:52:50: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:52:50: #1 total tags in treatment: 28512345 INFO @ Mon, 12 Aug 2019 22:52:50: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:52:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 22:52:51: #1 tags after filtering in treatment: 28512345 INFO @ Mon, 12 Aug 2019 22:52:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:52:51: #1 finished! INFO @ Mon, 12 Aug 2019 22:52:51: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:52:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:52:54: #2 number of paired peaks: 3096 INFO @ Mon, 12 Aug 2019 22:52:54: start model_add_line... INFO @ Mon, 12 Aug 2019 22:52:54: start X-correlation... INFO @ Mon, 12 Aug 2019 22:52:54: end of X-cor INFO @ Mon, 12 Aug 2019 22:52:54: #2 finished! INFO @ Mon, 12 Aug 2019 22:52:54: #2 predicted fragment length is 213 bps INFO @ Mon, 12 Aug 2019 22:52:54: #2 alternative fragment length(s) may be 4,213 bps INFO @ Mon, 12 Aug 2019 22:52:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.05_model.r INFO @ Mon, 12 Aug 2019 22:52:54: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:52:54: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:53:41: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:53:43: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:54:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.10_peaks.xls INFO @ Mon, 12 Aug 2019 22:54:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.10_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:54:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.10_summits.bed INFO @ Mon, 12 Aug 2019 22:54:12: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (8078 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 22:54:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.20_peaks.xls INFO @ Mon, 12 Aug 2019 22:54:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.20_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:54:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.20_summits.bed INFO @ Mon, 12 Aug 2019 22:54:14: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (5421 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 22:54:28: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:55:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.05_peaks.xls INFO @ Mon, 12 Aug 2019 22:55:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.05_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:55:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981733/SRX3981733.05_summits.bed INFO @ Mon, 12 Aug 2019 22:55:00: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (10458 records, 4 fields): 15 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。