Job ID = 2590445 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 14,615,135 reads read : 29,230,270 reads written : 14,615,135 reads 0-length : 14,615,135 spots read : 14,664,195 reads read : 29,328,390 reads written : 14,664,195 reads 0-length : 14,664,195 spots read : 14,554,097 reads read : 29,108,194 reads written : 14,554,097 reads 0-length : 14,554,097 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: 00:14:36 43833427 reads; of these: 43833427 (100.00%) were unpaired; of these: 1348853 (3.08%) aligned 0 times 35169825 (80.24%) aligned exactly 1 time 7314749 (16.69%) aligned >1 times 96.92% overall alignment rate Time searching: 00:14:36 Overall time: 00:14:36 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] 11793415 / 42484574 = 0.2776 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 22:18:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.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 22:18:19: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:18:19: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:18:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.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 22:18:20: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:18:20: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:18:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.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 22:18:21: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:18:21: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:18:26: 1000000 INFO @ Mon, 12 Aug 2019 22:18:27: 1000000 INFO @ Mon, 12 Aug 2019 22:18:28: 1000000 INFO @ Mon, 12 Aug 2019 22:18:33: 2000000 INFO @ Mon, 12 Aug 2019 22:18:34: 2000000 INFO @ Mon, 12 Aug 2019 22:18:34: 2000000 INFO @ Mon, 12 Aug 2019 22:18:40: 3000000 INFO @ Mon, 12 Aug 2019 22:18:41: 3000000 INFO @ Mon, 12 Aug 2019 22:18:41: 3000000 INFO @ Mon, 12 Aug 2019 22:18:47: 4000000 INFO @ Mon, 12 Aug 2019 22:18:47: 4000000 INFO @ Mon, 12 Aug 2019 22:18:48: 4000000 INFO @ Mon, 12 Aug 2019 22:18:54: 5000000 INFO @ Mon, 12 Aug 2019 22:18:54: 5000000 INFO @ Mon, 12 Aug 2019 22:18:55: 5000000 INFO @ Mon, 12 Aug 2019 22:19:00: 6000000 INFO @ Mon, 12 Aug 2019 22:19:01: 6000000 INFO @ Mon, 12 Aug 2019 22:19:02: 6000000 INFO @ Mon, 12 Aug 2019 22:19:07: 7000000 INFO @ Mon, 12 Aug 2019 22:19:08: 7000000 INFO @ Mon, 12 Aug 2019 22:19:09: 7000000 INFO @ Mon, 12 Aug 2019 22:19:13: 8000000 INFO @ Mon, 12 Aug 2019 22:19:14: 8000000 INFO @ Mon, 12 Aug 2019 22:19:16: 8000000 INFO @ Mon, 12 Aug 2019 22:19:19: 9000000 INFO @ Mon, 12 Aug 2019 22:19:21: 9000000 INFO @ Mon, 12 Aug 2019 22:19:22: 9000000 INFO @ Mon, 12 Aug 2019 22:19:25: 10000000 INFO @ Mon, 12 Aug 2019 22:19:28: 10000000 INFO @ Mon, 12 Aug 2019 22:19:29: 10000000 INFO @ Mon, 12 Aug 2019 22:19:32: 11000000 INFO @ Mon, 12 Aug 2019 22:19:35: 11000000 INFO @ Mon, 12 Aug 2019 22:19:36: 11000000 INFO @ Mon, 12 Aug 2019 22:19:38: 12000000 INFO @ Mon, 12 Aug 2019 22:19:42: 12000000 INFO @ Mon, 12 Aug 2019 22:19:43: 12000000 INFO @ Mon, 12 Aug 2019 22:19:45: 13000000 INFO @ Mon, 12 Aug 2019 22:19:49: 13000000 INFO @ Mon, 12 Aug 2019 22:19:50: 13000000 INFO @ Mon, 12 Aug 2019 22:19:51: 14000000 INFO @ Mon, 12 Aug 2019 22:19:55: 14000000 INFO @ Mon, 12 Aug 2019 22:19:57: 15000000 INFO @ Mon, 12 Aug 2019 22:19:58: 14000000 INFO @ Mon, 12 Aug 2019 22:20:02: 15000000 INFO @ Mon, 12 Aug 2019 22:20:03: 16000000 INFO @ Mon, 12 Aug 2019 22:20:05: 15000000 INFO @ Mon, 12 Aug 2019 22:20:08: 16000000 INFO @ Mon, 12 Aug 2019 22:20:09: 17000000 INFO @ Mon, 12 Aug 2019 22:20:12: 16000000 INFO @ Mon, 12 Aug 2019 22:20:14: 17000000 INFO @ Mon, 12 Aug 2019 22:20:15: 18000000 INFO @ Mon, 12 Aug 2019 22:20:20: 17000000 INFO @ Mon, 12 Aug 2019 22:20:20: 18000000 INFO @ Mon, 12 Aug 2019 22:20:22: 19000000 INFO @ Mon, 12 Aug 2019 22:20:26: 19000000 INFO @ Mon, 12 Aug 2019 22:20:27: 18000000 INFO @ Mon, 12 Aug 2019 22:20:28: 20000000 INFO @ Mon, 12 Aug 2019 22:20:33: 20000000 INFO @ Mon, 12 Aug 2019 22:20:33: 19000000 INFO @ Mon, 12 Aug 2019 22:20:34: 21000000 INFO @ Mon, 12 Aug 2019 22:20:39: 20000000 INFO @ Mon, 12 Aug 2019 22:20:40: 22000000 INFO @ Mon, 12 Aug 2019 22:20:40: 21000000 INFO @ Mon, 12 Aug 2019 22:20:45: 21000000 INFO @ Mon, 12 Aug 2019 22:20:46: 23000000 INFO @ Mon, 12 Aug 2019 22:20:47: 22000000 INFO @ Mon, 12 Aug 2019 22:20:51: 22000000 INFO @ Mon, 12 Aug 2019 22:20:52: 24000000 INFO @ Mon, 12 Aug 2019 22:20:55: 23000000 INFO @ Mon, 12 Aug 2019 22:20:57: 23000000 INFO @ Mon, 12 Aug 2019 22:20:58: 25000000 INFO @ Mon, 12 Aug 2019 22:21:02: 24000000 INFO @ Mon, 12 Aug 2019 22:21:03: 24000000 INFO @ Mon, 12 Aug 2019 22:21:04: 26000000 INFO @ Mon, 12 Aug 2019 22:21:10: 25000000 INFO @ Mon, 12 Aug 2019 22:21:10: 25000000 INFO @ Mon, 12 Aug 2019 22:21:10: 27000000 INFO @ Mon, 12 Aug 2019 22:21:16: 26000000 INFO @ Mon, 12 Aug 2019 22:21:17: 28000000 INFO @ Mon, 12 Aug 2019 22:21:17: 26000000 INFO @ Mon, 12 Aug 2019 22:21:22: 27000000 INFO @ Mon, 12 Aug 2019 22:21:23: 29000000 INFO @ Mon, 12 Aug 2019 22:21:24: 27000000 INFO @ Mon, 12 Aug 2019 22:21:28: 28000000 INFO @ Mon, 12 Aug 2019 22:21:29: 30000000 INFO @ Mon, 12 Aug 2019 22:21:32: 28000000 INFO @ Mon, 12 Aug 2019 22:21:33: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:21:33: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:21:33: #1 total tags in treatment: 30691159 INFO @ Mon, 12 Aug 2019 22:21:33: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:21:33: #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 22:21:34: 29000000 INFO @ Mon, 12 Aug 2019 22:21:34: #1 tags after filtering in treatment: 30691159 INFO @ Mon, 12 Aug 2019 22:21:34: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:21:34: #1 finished! INFO @ Mon, 12 Aug 2019 22:21:34: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:21:34: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:21:37: #2 number of paired peaks: 4473 INFO @ Mon, 12 Aug 2019 22:21:37: start model_add_line... INFO @ Mon, 12 Aug 2019 22:21:38: start X-correlation... INFO @ Mon, 12 Aug 2019 22:21:38: end of X-cor INFO @ Mon, 12 Aug 2019 22:21:38: #2 finished! INFO @ Mon, 12 Aug 2019 22:21:38: #2 predicted fragment length is 152 bps INFO @ Mon, 12 Aug 2019 22:21:38: #2 alternative fragment length(s) may be 152 bps INFO @ Mon, 12 Aug 2019 22:21:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.20_model.r INFO @ Mon, 12 Aug 2019 22:21:38: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:21:38: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:21:39: 29000000 INFO @ Mon, 12 Aug 2019 22:21:40: 30000000 INFO @ Mon, 12 Aug 2019 22:21:45: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:21:45: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:21:45: #1 total tags in treatment: 30691159 INFO @ Mon, 12 Aug 2019 22:21:45: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:21:45: #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 22:21:45: #1 tags after filtering in treatment: 30691159 INFO @ Mon, 12 Aug 2019 22:21:45: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:21:45: #1 finished! INFO @ Mon, 12 Aug 2019 22:21:45: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:21:45: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:21:46: 30000000 INFO @ Mon, 12 Aug 2019 22:21:48: #2 number of paired peaks: 4473 INFO @ Mon, 12 Aug 2019 22:21:48: start model_add_line... INFO @ Mon, 12 Aug 2019 22:21:49: start X-correlation... INFO @ Mon, 12 Aug 2019 22:21:49: end of X-cor INFO @ Mon, 12 Aug 2019 22:21:49: #2 finished! INFO @ Mon, 12 Aug 2019 22:21:49: #2 predicted fragment length is 152 bps INFO @ Mon, 12 Aug 2019 22:21:49: #2 alternative fragment length(s) may be 152 bps INFO @ Mon, 12 Aug 2019 22:21:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.10_model.r INFO @ Mon, 12 Aug 2019 22:21:49: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:21:49: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:21:52: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:21:52: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:21:52: #1 total tags in treatment: 30691159 INFO @ Mon, 12 Aug 2019 22:21:52: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:21:52: #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 22:21:52: #1 tags after filtering in treatment: 30691159 INFO @ Mon, 12 Aug 2019 22:21:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:21:52: #1 finished! INFO @ Mon, 12 Aug 2019 22:21:52: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:21:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:21:56: #2 number of paired peaks: 4473 INFO @ Mon, 12 Aug 2019 22:21:56: start model_add_line... INFO @ Mon, 12 Aug 2019 22:21:56: start X-correlation... INFO @ Mon, 12 Aug 2019 22:21:56: end of X-cor INFO @ Mon, 12 Aug 2019 22:21:56: #2 finished! INFO @ Mon, 12 Aug 2019 22:21:56: #2 predicted fragment length is 152 bps INFO @ Mon, 12 Aug 2019 22:21:56: #2 alternative fragment length(s) may be 152 bps INFO @ Mon, 12 Aug 2019 22:21:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.05_model.r INFO @ Mon, 12 Aug 2019 22:21:56: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:21:56: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:23:03: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:23:15: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:23:22: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:23:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.20_peaks.xls INFO @ Mon, 12 Aug 2019 22:23:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.20_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:23:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.20_summits.bed INFO @ Mon, 12 Aug 2019 22:23:38: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (7388 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 22:23:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.10_peaks.xls INFO @ Mon, 12 Aug 2019 22:23:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.10_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:23:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.10_summits.bed INFO @ Mon, 12 Aug 2019 22:23:50: Done! pass1 - making usageList (14 chroms): 5 millis pass2 - checking and writing primary data (9449 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 22:23:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.05_peaks.xls INFO @ Mon, 12 Aug 2019 22:23:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.05_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:23:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981679/SRX3981679.05_summits.bed INFO @ Mon, 12 Aug 2019 22:23:57: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (10867 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。