Job ID = 2590507 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 14,267,630 reads read : 28,535,260 reads written : 14,267,630 reads 0-length : 14,267,630 spots read : 14,425,170 reads read : 28,850,340 reads written : 14,425,170 reads 0-length : 14,425,170 spots read : 14,489,039 reads read : 28,978,078 reads written : 14,489,039 reads 0-length : 14,489,039 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: 00:14:30 43181839 reads; of these: 43181839 (100.00%) were unpaired; of these: 1103653 (2.56%) aligned 0 times 33488210 (77.55%) aligned exactly 1 time 8589976 (19.89%) aligned >1 times 97.44% overall alignment rate Time searching: 00:14:30 Overall time: 00:14:30 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] 14862773 / 42078186 = 0.3532 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 22:47:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.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 22:47:43: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:47:43: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:47:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.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 22:47:44: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:47:44: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:47:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.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 22:47:45: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:47:45: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:47:52: 1000000 INFO @ Mon, 12 Aug 2019 22:47:53: 1000000 INFO @ Mon, 12 Aug 2019 22:47:54: 1000000 INFO @ Mon, 12 Aug 2019 22:48:01: 2000000 INFO @ Mon, 12 Aug 2019 22:48:02: 2000000 INFO @ Mon, 12 Aug 2019 22:48:02: 2000000 INFO @ Mon, 12 Aug 2019 22:48:09: 3000000 INFO @ Mon, 12 Aug 2019 22:48:10: 3000000 INFO @ Mon, 12 Aug 2019 22:48:11: 3000000 INFO @ Mon, 12 Aug 2019 22:48:18: 4000000 INFO @ Mon, 12 Aug 2019 22:48:19: 4000000 INFO @ Mon, 12 Aug 2019 22:48:19: 4000000 INFO @ Mon, 12 Aug 2019 22:48:27: 5000000 INFO @ Mon, 12 Aug 2019 22:48:28: 5000000 INFO @ Mon, 12 Aug 2019 22:48:28: 5000000 INFO @ Mon, 12 Aug 2019 22:48:35: 6000000 INFO @ Mon, 12 Aug 2019 22:48:36: 6000000 INFO @ Mon, 12 Aug 2019 22:48:37: 6000000 INFO @ Mon, 12 Aug 2019 22:48:44: 7000000 INFO @ Mon, 12 Aug 2019 22:48:44: 7000000 INFO @ Mon, 12 Aug 2019 22:48:45: 7000000 INFO @ Mon, 12 Aug 2019 22:48:53: 8000000 INFO @ Mon, 12 Aug 2019 22:48:53: 8000000 INFO @ Mon, 12 Aug 2019 22:48:54: 8000000 INFO @ Mon, 12 Aug 2019 22:49:01: 9000000 INFO @ Mon, 12 Aug 2019 22:49:01: 9000000 INFO @ Mon, 12 Aug 2019 22:49:02: 9000000 INFO @ Mon, 12 Aug 2019 22:49:09: 10000000 INFO @ Mon, 12 Aug 2019 22:49:10: 10000000 INFO @ Mon, 12 Aug 2019 22:49:11: 10000000 INFO @ Mon, 12 Aug 2019 22:49:18: 11000000 INFO @ Mon, 12 Aug 2019 22:49:19: 11000000 INFO @ Mon, 12 Aug 2019 22:49:20: 11000000 INFO @ Mon, 12 Aug 2019 22:49:26: 12000000 INFO @ Mon, 12 Aug 2019 22:49:27: 12000000 INFO @ Mon, 12 Aug 2019 22:49:28: 12000000 INFO @ Mon, 12 Aug 2019 22:49:34: 13000000 INFO @ Mon, 12 Aug 2019 22:49:36: 13000000 INFO @ Mon, 12 Aug 2019 22:49:37: 13000000 INFO @ Mon, 12 Aug 2019 22:49:43: 14000000 INFO @ Mon, 12 Aug 2019 22:49:45: 14000000 INFO @ Mon, 12 Aug 2019 22:49:45: 14000000 INFO @ Mon, 12 Aug 2019 22:49:51: 15000000 INFO @ Mon, 12 Aug 2019 22:49:53: 15000000 INFO @ Mon, 12 Aug 2019 22:49:54: 15000000 INFO @ Mon, 12 Aug 2019 22:49:59: 16000000 INFO @ Mon, 12 Aug 2019 22:50:00: 16000000 INFO @ Mon, 12 Aug 2019 22:50:01: 16000000 INFO @ Mon, 12 Aug 2019 22:50:07: 17000000 INFO @ Mon, 12 Aug 2019 22:50:08: 17000000 INFO @ Mon, 12 Aug 2019 22:50:08: 17000000 INFO @ Mon, 12 Aug 2019 22:50:15: 18000000 INFO @ Mon, 12 Aug 2019 22:50:15: 18000000 INFO @ Mon, 12 Aug 2019 22:50:15: 18000000 INFO @ Mon, 12 Aug 2019 22:50:22: 19000000 INFO @ Mon, 12 Aug 2019 22:50:23: 19000000 INFO @ Mon, 12 Aug 2019 22:50:23: 19000000 INFO @ Mon, 12 Aug 2019 22:50:29: 20000000 INFO @ Mon, 12 Aug 2019 22:50:30: 20000000 INFO @ Mon, 12 Aug 2019 22:50:31: 20000000 INFO @ Mon, 12 Aug 2019 22:50:37: 21000000 INFO @ Mon, 12 Aug 2019 22:50:37: 21000000 INFO @ Mon, 12 Aug 2019 22:50:39: 21000000 INFO @ Mon, 12 Aug 2019 22:50:44: 22000000 INFO @ Mon, 12 Aug 2019 22:50:45: 22000000 INFO @ Mon, 12 Aug 2019 22:50:47: 22000000 INFO @ Mon, 12 Aug 2019 22:50:51: 23000000 INFO @ Mon, 12 Aug 2019 22:50:52: 23000000 INFO @ Mon, 12 Aug 2019 22:50:55: 23000000 INFO @ Mon, 12 Aug 2019 22:50:58: 24000000 INFO @ Mon, 12 Aug 2019 22:50:59: 24000000 INFO @ Mon, 12 Aug 2019 22:51:03: 24000000 INFO @ Mon, 12 Aug 2019 22:51:06: 25000000 INFO @ Mon, 12 Aug 2019 22:51:06: 25000000 INFO @ Mon, 12 Aug 2019 22:51:11: 25000000 INFO @ Mon, 12 Aug 2019 22:51:14: 26000000 INFO @ Mon, 12 Aug 2019 22:51:15: 26000000 INFO @ Mon, 12 Aug 2019 22:51:20: 26000000 INFO @ Mon, 12 Aug 2019 22:51:22: 27000000 INFO @ Mon, 12 Aug 2019 22:51:23: 27000000 INFO @ Mon, 12 Aug 2019 22:51:24: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:51:24: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:51:24: #1 total tags in treatment: 27215413 INFO @ Mon, 12 Aug 2019 22:51:24: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:51:24: #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 22:51:24: #1 tags after filtering in treatment: 27215413 INFO @ Mon, 12 Aug 2019 22:51:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:51:24: #1 finished! INFO @ Mon, 12 Aug 2019 22:51:24: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:51:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:51:25: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:51:25: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:51:25: #1 total tags in treatment: 27215413 INFO @ Mon, 12 Aug 2019 22:51:25: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:51:25: #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 22:51:25: #1 tags after filtering in treatment: 27215413 INFO @ Mon, 12 Aug 2019 22:51:25: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:51:25: #1 finished! INFO @ Mon, 12 Aug 2019 22:51:25: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:51:25: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:51:27: #2 number of paired peaks: 3474 INFO @ Mon, 12 Aug 2019 22:51:27: start model_add_line... INFO @ Mon, 12 Aug 2019 22:51:27: start X-correlation... INFO @ Mon, 12 Aug 2019 22:51:27: end of X-cor INFO @ Mon, 12 Aug 2019 22:51:27: #2 finished! INFO @ Mon, 12 Aug 2019 22:51:27: #2 predicted fragment length is 214 bps INFO @ Mon, 12 Aug 2019 22:51:27: #2 alternative fragment length(s) may be 4,214 bps INFO @ Mon, 12 Aug 2019 22:51:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.05_model.r INFO @ Mon, 12 Aug 2019 22:51:27: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:51:27: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:51:28: 27000000 INFO @ Mon, 12 Aug 2019 22:51:28: #2 number of paired peaks: 3474 INFO @ Mon, 12 Aug 2019 22:51:28: start model_add_line... INFO @ Mon, 12 Aug 2019 22:51:29: start X-correlation... INFO @ Mon, 12 Aug 2019 22:51:29: end of X-cor INFO @ Mon, 12 Aug 2019 22:51:29: #2 finished! INFO @ Mon, 12 Aug 2019 22:51:29: #2 predicted fragment length is 214 bps INFO @ Mon, 12 Aug 2019 22:51:29: #2 alternative fragment length(s) may be 4,214 bps INFO @ Mon, 12 Aug 2019 22:51:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.10_model.r INFO @ Mon, 12 Aug 2019 22:51:29: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:51:29: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:51:29: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:51:29: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:51:29: #1 total tags in treatment: 27215413 INFO @ Mon, 12 Aug 2019 22:51:29: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:51:29: #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 22:51:30: #1 tags after filtering in treatment: 27215413 INFO @ Mon, 12 Aug 2019 22:51:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:51:30: #1 finished! INFO @ Mon, 12 Aug 2019 22:51:30: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:51:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:51:33: #2 number of paired peaks: 3474 INFO @ Mon, 12 Aug 2019 22:51:33: start model_add_line... INFO @ Mon, 12 Aug 2019 22:51:33: start X-correlation... INFO @ Mon, 12 Aug 2019 22:51:33: end of X-cor INFO @ Mon, 12 Aug 2019 22:51:33: #2 finished! INFO @ Mon, 12 Aug 2019 22:51:33: #2 predicted fragment length is 214 bps INFO @ Mon, 12 Aug 2019 22:51:33: #2 alternative fragment length(s) may be 4,214 bps INFO @ Mon, 12 Aug 2019 22:51:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.20_model.r INFO @ Mon, 12 Aug 2019 22:51:33: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:51:33: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:52:59: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:53:00: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:53:05: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:53:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.05_peaks.xls INFO @ Mon, 12 Aug 2019 22:53:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.05_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:53:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.05_summits.bed INFO @ Mon, 12 Aug 2019 22:53:30: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (10494 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 22:53:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.10_peaks.xls INFO @ Mon, 12 Aug 2019 22:53:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.10_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:53:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.10_summits.bed INFO @ Mon, 12 Aug 2019 22:53:31: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (7964 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 22:53:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.20_peaks.xls INFO @ Mon, 12 Aug 2019 22:53:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.20_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:53:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981734/SRX3981734.20_summits.bed INFO @ Mon, 12 Aug 2019 22:53:37: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (5381 records, 4 fields): 16 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。