Job ID = 2590510 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 14,380,553 reads read : 28,761,106 reads written : 14,380,553 reads 0-length : 14,380,553 spots read : 14,570,629 reads read : 29,141,258 reads written : 14,570,629 reads 0-length : 14,570,629 spots read : 14,614,020 reads read : 29,228,040 reads written : 14,614,020 reads 0-length : 14,614,020 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: 00:13:50 43565202 reads; of these: 43565202 (100.00%) were unpaired; of these: 1174165 (2.70%) aligned 0 times 33753192 (77.48%) aligned exactly 1 time 8637845 (19.83%) aligned >1 times 97.30% overall alignment rate Time searching: 00:13:50 Overall time: 00:13:50 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] 14705020 / 42391037 = 0.3469 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 22:47:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.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 22:47:48: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:47:48: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:47:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.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 22:47:49: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:47:49: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:47:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.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 22:47:50: #1 read tag files... INFO @ Mon, 12 Aug 2019 22:47:50: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 22:47:57: 1000000 INFO @ Mon, 12 Aug 2019 22:47:59: 1000000 INFO @ Mon, 12 Aug 2019 22:47:59: 1000000 INFO @ Mon, 12 Aug 2019 22:48:06: 2000000 INFO @ Mon, 12 Aug 2019 22:48:08: 2000000 INFO @ Mon, 12 Aug 2019 22:48:08: 2000000 INFO @ Mon, 12 Aug 2019 22:48:15: 3000000 INFO @ Mon, 12 Aug 2019 22:48:17: 3000000 INFO @ Mon, 12 Aug 2019 22:48:17: 3000000 INFO @ Mon, 12 Aug 2019 22:48:23: 4000000 INFO @ Mon, 12 Aug 2019 22:48:25: 4000000 INFO @ Mon, 12 Aug 2019 22:48:25: 4000000 INFO @ Mon, 12 Aug 2019 22:48:31: 5000000 INFO @ Mon, 12 Aug 2019 22:48:33: 5000000 INFO @ Mon, 12 Aug 2019 22:48:34: 5000000 INFO @ Mon, 12 Aug 2019 22:48:40: 6000000 INFO @ Mon, 12 Aug 2019 22:48:41: 6000000 INFO @ Mon, 12 Aug 2019 22:48:43: 6000000 INFO @ Mon, 12 Aug 2019 22:48:48: 7000000 INFO @ Mon, 12 Aug 2019 22:48:50: 7000000 INFO @ Mon, 12 Aug 2019 22:48:51: 7000000 INFO @ Mon, 12 Aug 2019 22:48:57: 8000000 INFO @ Mon, 12 Aug 2019 22:48:58: 8000000 INFO @ Mon, 12 Aug 2019 22:49:00: 8000000 INFO @ Mon, 12 Aug 2019 22:49:07: 9000000 INFO @ Mon, 12 Aug 2019 22:49:07: 9000000 INFO @ Mon, 12 Aug 2019 22:49:09: 9000000 INFO @ Mon, 12 Aug 2019 22:49:16: 10000000 INFO @ Mon, 12 Aug 2019 22:49:16: 10000000 INFO @ Mon, 12 Aug 2019 22:49:18: 10000000 INFO @ Mon, 12 Aug 2019 22:49:25: 11000000 INFO @ Mon, 12 Aug 2019 22:49:26: 11000000 INFO @ Mon, 12 Aug 2019 22:49:27: 11000000 INFO @ Mon, 12 Aug 2019 22:49:33: 12000000 INFO @ Mon, 12 Aug 2019 22:49:34: 12000000 INFO @ Mon, 12 Aug 2019 22:49:35: 12000000 INFO @ Mon, 12 Aug 2019 22:49:42: 13000000 INFO @ Mon, 12 Aug 2019 22:49:43: 13000000 INFO @ Mon, 12 Aug 2019 22:49:44: 13000000 INFO @ Mon, 12 Aug 2019 22:49:50: 14000000 INFO @ Mon, 12 Aug 2019 22:49:52: 14000000 INFO @ Mon, 12 Aug 2019 22:49:53: 14000000 INFO @ Mon, 12 Aug 2019 22:49:59: 15000000 INFO @ Mon, 12 Aug 2019 22:50:01: 15000000 INFO @ Mon, 12 Aug 2019 22:50:02: 15000000 INFO @ Mon, 12 Aug 2019 22:50:07: 16000000 INFO @ Mon, 12 Aug 2019 22:50:10: 16000000 INFO @ Mon, 12 Aug 2019 22:50:11: 16000000 INFO @ Mon, 12 Aug 2019 22:50:16: 17000000 INFO @ Mon, 12 Aug 2019 22:50:19: 17000000 INFO @ Mon, 12 Aug 2019 22:50:20: 17000000 INFO @ Mon, 12 Aug 2019 22:50:24: 18000000 INFO @ Mon, 12 Aug 2019 22:50:28: 18000000 INFO @ Mon, 12 Aug 2019 22:50:29: 18000000 INFO @ Mon, 12 Aug 2019 22:50:33: 19000000 INFO @ Mon, 12 Aug 2019 22:50:37: 19000000 INFO @ Mon, 12 Aug 2019 22:50:38: 19000000 INFO @ Mon, 12 Aug 2019 22:50:41: 20000000 INFO @ Mon, 12 Aug 2019 22:50:46: 20000000 INFO @ Mon, 12 Aug 2019 22:50:47: 20000000 INFO @ Mon, 12 Aug 2019 22:50:50: 21000000 INFO @ Mon, 12 Aug 2019 22:50:55: 21000000 INFO @ Mon, 12 Aug 2019 22:50:56: 21000000 INFO @ Mon, 12 Aug 2019 22:50:59: 22000000 INFO @ Mon, 12 Aug 2019 22:51:04: 22000000 INFO @ Mon, 12 Aug 2019 22:51:05: 22000000 INFO @ Mon, 12 Aug 2019 22:51:07: 23000000 INFO @ Mon, 12 Aug 2019 22:51:13: 23000000 INFO @ Mon, 12 Aug 2019 22:51:14: 23000000 INFO @ Mon, 12 Aug 2019 22:51:16: 24000000 INFO @ Mon, 12 Aug 2019 22:51:22: 24000000 INFO @ Mon, 12 Aug 2019 22:51:23: 24000000 INFO @ Mon, 12 Aug 2019 22:51:24: 25000000 INFO @ Mon, 12 Aug 2019 22:51:31: 25000000 INFO @ Mon, 12 Aug 2019 22:51:32: 25000000 INFO @ Mon, 12 Aug 2019 22:51:32: 26000000 INFO @ Mon, 12 Aug 2019 22:51:39: 26000000 INFO @ Mon, 12 Aug 2019 22:51:40: 27000000 INFO @ Mon, 12 Aug 2019 22:51:40: 26000000 INFO @ Mon, 12 Aug 2019 22:51:46: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:51:46: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:51:46: #1 total tags in treatment: 27686017 INFO @ Mon, 12 Aug 2019 22:51:46: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:51:46: #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 22:51:46: #1 tags after filtering in treatment: 27686017 INFO @ Mon, 12 Aug 2019 22:51:46: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:51:46: #1 finished! INFO @ Mon, 12 Aug 2019 22:51:46: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:51:46: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:51:47: 27000000 INFO @ Mon, 12 Aug 2019 22:51:48: 27000000 INFO @ Mon, 12 Aug 2019 22:51:49: #2 number of paired peaks: 3125 INFO @ Mon, 12 Aug 2019 22:51:49: start model_add_line... INFO @ Mon, 12 Aug 2019 22:51:50: start X-correlation... INFO @ Mon, 12 Aug 2019 22:51:50: end of X-cor INFO @ Mon, 12 Aug 2019 22:51:50: #2 finished! INFO @ Mon, 12 Aug 2019 22:51:50: #2 predicted fragment length is 215 bps INFO @ Mon, 12 Aug 2019 22:51:50: #2 alternative fragment length(s) may be 215 bps INFO @ Mon, 12 Aug 2019 22:51:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.20_model.r INFO @ Mon, 12 Aug 2019 22:51:50: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:51:50: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:51:53: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:51:53: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:51:53: #1 total tags in treatment: 27686017 INFO @ Mon, 12 Aug 2019 22:51:53: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:51:53: #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 22:51:53: #1 tags after filtering in treatment: 27686017 INFO @ Mon, 12 Aug 2019 22:51:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:51:53: #1 finished! INFO @ Mon, 12 Aug 2019 22:51:53: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:51:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:51:54: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 22:51:54: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 22:51:54: #1 total tags in treatment: 27686017 INFO @ Mon, 12 Aug 2019 22:51:54: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 22:51:54: #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 22:51:54: #1 tags after filtering in treatment: 27686017 INFO @ Mon, 12 Aug 2019 22:51:54: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 22:51:54: #1 finished! INFO @ Mon, 12 Aug 2019 22:51:54: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 22:51:54: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 22:51:56: #2 number of paired peaks: 3125 INFO @ Mon, 12 Aug 2019 22:51:56: start model_add_line... INFO @ Mon, 12 Aug 2019 22:51:56: start X-correlation... INFO @ Mon, 12 Aug 2019 22:51:57: end of X-cor INFO @ Mon, 12 Aug 2019 22:51:57: #2 finished! INFO @ Mon, 12 Aug 2019 22:51:57: #2 predicted fragment length is 215 bps INFO @ Mon, 12 Aug 2019 22:51:57: #2 alternative fragment length(s) may be 215 bps INFO @ Mon, 12 Aug 2019 22:51:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.05_model.r INFO @ Mon, 12 Aug 2019 22:51:57: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:51:57: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:51:57: #2 number of paired peaks: 3125 INFO @ Mon, 12 Aug 2019 22:51:57: start model_add_line... INFO @ Mon, 12 Aug 2019 22:51:58: start X-correlation... INFO @ Mon, 12 Aug 2019 22:51:58: end of X-cor INFO @ Mon, 12 Aug 2019 22:51:58: #2 finished! INFO @ Mon, 12 Aug 2019 22:51:58: #2 predicted fragment length is 215 bps INFO @ Mon, 12 Aug 2019 22:51:58: #2 alternative fragment length(s) may be 215 bps INFO @ Mon, 12 Aug 2019 22:51:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.10_model.r INFO @ Mon, 12 Aug 2019 22:51:58: #3 Call peaks... INFO @ Mon, 12 Aug 2019 22:51:58: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 12 Aug 2019 22:53:21: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:53:29: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:53:29: #3 Call peaks for each chromosome... INFO @ Mon, 12 Aug 2019 22:53:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.20_peaks.xls INFO @ Mon, 12 Aug 2019 22:53:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.20_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:53:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.20_summits.bed INFO @ Mon, 12 Aug 2019 22:53:52: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (5420 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 22:54:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.05_peaks.xls INFO @ Mon, 12 Aug 2019 22:54:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.05_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:54:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.05_summits.bed INFO @ Mon, 12 Aug 2019 22:54:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.10_peaks.xls INFO @ Mon, 12 Aug 2019 22:54:00: Done! INFO @ Mon, 12 Aug 2019 22:54:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.10_peaks.narrowPeak INFO @ Mon, 12 Aug 2019 22:54:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3981736/SRX3981736.10_summits.bed INFO @ Mon, 12 Aug 2019 22:54:00: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (10387 records, 4 fields): 19 millis CompletedMACS2peakCalling pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (8020 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。