Job ID = 2590505 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 13,347,473 reads read : 26,694,946 reads written : 13,347,473 reads 0-length : 13,347,473 spots read : 13,504,425 reads read : 27,008,850 reads written : 13,504,425 reads 0-length : 13,504,425 spots read : 13,526,523 reads read : 27,053,046 reads written : 13,526,523 reads 0-length : 13,526,523 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: 00:14:27 40378421 reads; of these: 40378421 (100.00%) were unpaired; of these: 1022492 (2.53%) aligned 0 times 31108213 (77.04%) aligned exactly 1 time 8247716 (20.43%) aligned >1 times 97.47% overall alignment rate Time searching: 00:14:27 Overall time: 00:14:27 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] 13164351 / 39355929 = 0.3345 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 22:42:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.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 22:42:27: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:42:27: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:42:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.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 22:42:28: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:42:28: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:42:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.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 22:42:29: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:42:29: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:42:36: 1000000 INFO @ Mon, 12 Aug 2019 22:42:37: 1000000 INFO @ Mon, 12 Aug 2019 22:42:37: 1000000 INFO @ Mon, 12 Aug 2019 22:42:43: 2000000 INFO @ Mon, 12 Aug 2019 22:42:45: 2000000 INFO @ Mon, 12 Aug 2019 22:42:46: 2000000 INFO @ Mon, 12 Aug 2019 22:42:50: 3000000 INFO @ Mon, 12 Aug 2019 22:42:53: 3000000 INFO @ Mon, 12 Aug 2019 22:42:54: 3000000 INFO @ Mon, 12 Aug 2019 22:42:56: 4000000 INFO @ Mon, 12 Aug 2019 22:43:02: 4000000 INFO @ Mon, 12 Aug 2019 22:43:03: 4000000 INFO @ Mon, 12 Aug 2019 22:43:03: 5000000 INFO @ Mon, 12 Aug 2019 22:43:09: 6000000 INFO @ Mon, 12 Aug 2019 22:43:10: 5000000 INFO @ Mon, 12 Aug 2019 22:43:11: 5000000 INFO @ Mon, 12 Aug 2019 22:43:16: 7000000 INFO @ Mon, 12 Aug 2019 22:43:18: 6000000 INFO @ Mon, 12 Aug 2019 22:43:19: 6000000 INFO @ Mon, 12 Aug 2019 22:43:22: 8000000 INFO @ Mon, 12 Aug 2019 22:43:26: 7000000 INFO @ Mon, 12 Aug 2019 22:43:27: 7000000 INFO @ Mon, 12 Aug 2019 22:43:29: 9000000 INFO @ Mon, 12 Aug 2019 22:43:34: 8000000 INFO @ Mon, 12 Aug 2019 22:43:35: 10000000 INFO @ Mon, 12 Aug 2019 22:43:35: 8000000 INFO @ Mon, 12 Aug 2019 22:43:42: 11000000 INFO @ Mon, 12 Aug 2019 22:43:43: 9000000 INFO @ Mon, 12 Aug 2019 22:43:44: 9000000 INFO @ Mon, 12 Aug 2019 22:43:48: 12000000 INFO @ Mon, 12 Aug 2019 22:43:51: 10000000 INFO @ Mon, 12 Aug 2019 22:43:52: 10000000 INFO @ Mon, 12 Aug 2019 22:43:54: 13000000 INFO @ Mon, 12 Aug 2019 22:43:59: 11000000 INFO @ Mon, 12 Aug 2019 22:44:00: 11000000 INFO @ Mon, 12 Aug 2019 22:44:01: 14000000 INFO @ Mon, 12 Aug 2019 22:44:07: 12000000 INFO @ Mon, 12 Aug 2019 22:44:07: 15000000 INFO @ Mon, 12 Aug 2019 22:44:08: 12000000 INFO @ Mon, 12 Aug 2019 22:44:14: 16000000 INFO @ Mon, 12 Aug 2019 22:44:15: 13000000 INFO @ Mon, 12 Aug 2019 22:44:16: 13000000 INFO @ Mon, 12 Aug 2019 22:44:20: 17000000 INFO @ Mon, 12 Aug 2019 22:44:24: 14000000 INFO @ Mon, 12 Aug 2019 22:44:25: 14000000 INFO @ Mon, 12 Aug 2019 22:44:27: 18000000 INFO @ Mon, 12 Aug 2019 22:44:32: 15000000 INFO @ Mon, 12 Aug 2019 22:44:33: 15000000 INFO @ Mon, 12 Aug 2019 22:44:33: 19000000 INFO @ Mon, 12 Aug 2019 22:44:39: 20000000 INFO @ Mon, 12 Aug 2019 22:44:40: 16000000 INFO @ Mon, 12 Aug 2019 22:44:41: 16000000 INFO @ Mon, 12 Aug 2019 22:44:46: 21000000 INFO @ Mon, 12 Aug 2019 22:44:48: 17000000 INFO @ Mon, 12 Aug 2019 22:44:49: 17000000 INFO @ Mon, 12 Aug 2019 22:44:52: 22000000 INFO @ Mon, 12 Aug 2019 22:44:56: 18000000 INFO @ Mon, 12 Aug 2019 22:44:57: 18000000 INFO @ Mon, 12 Aug 2019 22:44:59: 23000000 INFO @ Mon, 12 Aug 2019 22:45:05: 19000000 INFO @ Mon, 12 Aug 2019 22:45:05: 24000000 INFO @ Mon, 12 Aug 2019 22:45:06: 19000000 INFO @ Mon, 12 Aug 2019 22:45:12: 25000000 INFO @ Mon, 12 Aug 2019 22:45:13: 20000000 INFO @ Mon, 12 Aug 2019 22:45:14: 20000000 INFO @ Mon, 12 Aug 2019 22:45:18: 26000000 INFO @ Mon, 12 Aug 2019 22:45:20: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:45:20: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:45:20: #1 total tags in treatment: 26191578 INFO @ Mon, 12 Aug 2019 22:45:20: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:45:20: #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 22:45:20: #1 tags after filtering in treatment: 26191578 INFO @ Mon, 12 Aug 2019 22:45:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:45:20: #1 finished! INFO @ Mon, 12 Aug 2019 22:45:20: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:45:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:45:21: 21000000 INFO @ Mon, 12 Aug 2019 22:45:22: 21000000 INFO @ Mon, 12 Aug 2019 22:45:23: #2 number of paired peaks: 3447 INFO @ Mon, 12 Aug 2019 22:45:23: start model_add_line... INFO @ Mon, 12 Aug 2019 22:45:23: start X-correlation... INFO @ Mon, 12 Aug 2019 22:45:24: end of X-cor INFO @ Mon, 12 Aug 2019 22:45:24: #2 finished! INFO @ Mon, 12 Aug 2019 22:45:24: #2 predicted fragment length is 213 bps INFO @ Mon, 12 Aug 2019 22:45:24: #2 alternative fragment length(s) may be 213 bps INFO @ Mon, 12 Aug 2019 22:45:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.20_model.r INFO @ Mon, 12 Aug 2019 22:45:24: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:45:24: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:45:29: 22000000 INFO @ Mon, 12 Aug 2019 22:45:30: 22000000 INFO @ Mon, 12 Aug 2019 22:45:37: 23000000 INFO @ Mon, 12 Aug 2019 22:45:38: 23000000 INFO @ Mon, 12 Aug 2019 22:45:46: 24000000 INFO @ Mon, 12 Aug 2019 22:45:47: 24000000 INFO @ Mon, 12 Aug 2019 22:45:54: 25000000 INFO @ Mon, 12 Aug 2019 22:45:55: 25000000 INFO @ Mon, 12 Aug 2019 22:46:03: 26000000 INFO @ Mon, 12 Aug 2019 22:46:04: 26000000 INFO @ Mon, 12 Aug 2019 22:46:05: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:46:05: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:46:05: #1 total tags in treatment: 26191578 INFO @ Mon, 12 Aug 2019 22:46:05: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:46:05: #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 22:46:05: #1 tags after filtering in treatment: 26191578 INFO @ Mon, 12 Aug 2019 22:46:05: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:46:05: #1 finished! INFO @ Mon, 12 Aug 2019 22:46:05: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:46:05: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:46:06: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:46:06: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:46:06: #1 total tags in treatment: 26191578 INFO @ Mon, 12 Aug 2019 22:46:06: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:46:06: #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 22:46:06: #1 tags after filtering in treatment: 26191578 INFO @ Mon, 12 Aug 2019 22:46:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:46:06: #1 finished! INFO @ Mon, 12 Aug 2019 22:46:06: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:46:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:46:08: #2 number of paired peaks: 3447 INFO @ Mon, 12 Aug 2019 22:46:08: start model_add_line... INFO @ Mon, 12 Aug 2019 22:46:08: start X-correlation... INFO @ Mon, 12 Aug 2019 22:46:08: end of X-cor INFO @ Mon, 12 Aug 2019 22:46:08: #2 finished! INFO @ Mon, 12 Aug 2019 22:46:08: #2 predicted fragment length is 213 bps INFO @ Mon, 12 Aug 2019 22:46:08: #2 alternative fragment length(s) may be 213 bps INFO @ Mon, 12 Aug 2019 22:46:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.05_model.r INFO @ Mon, 12 Aug 2019 22:46:08: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:46:08: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:46:09: #2 number of paired peaks: 3447 INFO @ Mon, 12 Aug 2019 22:46:09: start model_add_line... INFO @ Mon, 12 Aug 2019 22:46:09: start X-correlation... INFO @ Mon, 12 Aug 2019 22:46:09: end of X-cor INFO @ Mon, 12 Aug 2019 22:46:09: #2 finished! INFO @ Mon, 12 Aug 2019 22:46:09: #2 predicted fragment length is 213 bps INFO @ Mon, 12 Aug 2019 22:46:09: #2 alternative fragment length(s) may be 213 bps INFO @ Mon, 12 Aug 2019 22:46:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.10_model.r INFO @ Mon, 12 Aug 2019 22:46:09: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:46:09: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:46:50: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:47:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.20_peaks.xls INFO @ Mon, 12 Aug 2019 22:47:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.20_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:47:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.20_summits.bed INFO @ Mon, 12 Aug 2019 22:47:20: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (5148 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 22:47:35: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:47:36: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:48:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.05_peaks.xls INFO @ Mon, 12 Aug 2019 22:48:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.05_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:48:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.05_summits.bed INFO @ Mon, 12 Aug 2019 22:48:04: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (10157 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 22:48:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.10_peaks.xls INFO @ Mon, 12 Aug 2019 22:48:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.10_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:48:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981732/SRX3981732.10_summits.bed INFO @ Mon, 12 Aug 2019 22:48:05: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (7716 records, 4 fields): 14 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。