Job ID = 2591024 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 2,071,793 reads read : 2,071,793 reads written : 2,071,793 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:00:52 2071793 reads; of these: 2071793 (100.00%) were unpaired; of these: 9 (0.00%) aligned 0 times 2047801 (98.84%) aligned exactly 1 time 23983 (1.16%) aligned >1 times 100.00% overall alignment rate Time searching: 00:00:52 Overall time: 00:00:52 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_rmdupse_core] 253 / 2071784 = 0.0001 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 @ Tue, 13 Aug 2019 00:37:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.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 @ Tue, 13 Aug 2019 00:37:21: #1 read tag files... INFO @ Tue, 13 Aug 2019 00:37:21: #1 read treatment tags... INFO @ Tue, 13 Aug 2019 00:37:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.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 @ Tue, 13 Aug 2019 00:37:22: #1 read tag files... INFO @ Tue, 13 Aug 2019 00:37:22: #1 read treatment tags... INFO @ Tue, 13 Aug 2019 00:37:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.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 @ Tue, 13 Aug 2019 00:37:22: #1 read tag files... INFO @ Tue, 13 Aug 2019 00:37:22: #1 read treatment tags... INFO @ Tue, 13 Aug 2019 00:37:31: 1000000 INFO @ Tue, 13 Aug 2019 00:37:32: 1000000 INFO @ Tue, 13 Aug 2019 00:37:33: 1000000 INFO @ Tue, 13 Aug 2019 00:37:41: 2000000 INFO @ Tue, 13 Aug 2019 00:37:41: #1 tag size is determined as 101 bps INFO @ Tue, 13 Aug 2019 00:37:41: #1 tag size = 101 INFO @ Tue, 13 Aug 2019 00:37:41: #1 total tags in treatment: 2071531 INFO @ Tue, 13 Aug 2019 00:37:41: #1 user defined the maximum tags... INFO @ Tue, 13 Aug 2019 00:37:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 13 Aug 2019 00:37:41: #1 tags after filtering in treatment: 2071530 INFO @ Tue, 13 Aug 2019 00:37:41: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 13 Aug 2019 00:37:41: #1 finished! INFO @ Tue, 13 Aug 2019 00:37:41: #2 Build Peak Model... INFO @ Tue, 13 Aug 2019 00:37:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 13 Aug 2019 00:37:42: #2 number of paired peaks: 1201 INFO @ Tue, 13 Aug 2019 00:37:42: start model_add_line... INFO @ Tue, 13 Aug 2019 00:37:42: 2000000 INFO @ Tue, 13 Aug 2019 00:37:42: start X-correlation... INFO @ Tue, 13 Aug 2019 00:37:42: end of X-cor INFO @ Tue, 13 Aug 2019 00:37:42: #2 finished! INFO @ Tue, 13 Aug 2019 00:37:42: #2 predicted fragment length is 219 bps INFO @ Tue, 13 Aug 2019 00:37:42: #2 alternative fragment length(s) may be 219 bps INFO @ Tue, 13 Aug 2019 00:37:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.05_model.r INFO @ Tue, 13 Aug 2019 00:37:42: #3 Call peaks... INFO @ Tue, 13 Aug 2019 00:37:42: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 13 Aug 2019 00:37:42: #1 tag size is determined as 101 bps INFO @ Tue, 13 Aug 2019 00:37:42: #1 tag size = 101 INFO @ Tue, 13 Aug 2019 00:37:42: #1 total tags in treatment: 2071531 INFO @ Tue, 13 Aug 2019 00:37:42: #1 user defined the maximum tags... INFO @ Tue, 13 Aug 2019 00:37:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 13 Aug 2019 00:37:42: #1 tags after filtering in treatment: 2071530 INFO @ Tue, 13 Aug 2019 00:37:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 13 Aug 2019 00:37:42: #1 finished! INFO @ Tue, 13 Aug 2019 00:37:42: #2 Build Peak Model... INFO @ Tue, 13 Aug 2019 00:37:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 13 Aug 2019 00:37:43: #2 number of paired peaks: 1201 INFO @ Tue, 13 Aug 2019 00:37:43: start model_add_line... INFO @ Tue, 13 Aug 2019 00:37:43: start X-correlation... INFO @ Tue, 13 Aug 2019 00:37:43: end of X-cor INFO @ Tue, 13 Aug 2019 00:37:43: #2 finished! INFO @ Tue, 13 Aug 2019 00:37:43: #2 predicted fragment length is 219 bps INFO @ Tue, 13 Aug 2019 00:37:43: #2 alternative fragment length(s) may be 219 bps INFO @ Tue, 13 Aug 2019 00:37:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.10_model.r INFO @ Tue, 13 Aug 2019 00:37:43: #3 Call peaks... INFO @ Tue, 13 Aug 2019 00:37:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 13 Aug 2019 00:37:43: 2000000 INFO @ Tue, 13 Aug 2019 00:37:43: #1 tag size is determined as 101 bps INFO @ Tue, 13 Aug 2019 00:37:43: #1 tag size = 101 INFO @ Tue, 13 Aug 2019 00:37:43: #1 total tags in treatment: 2071531 INFO @ Tue, 13 Aug 2019 00:37:43: #1 user defined the maximum tags... INFO @ Tue, 13 Aug 2019 00:37:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 13 Aug 2019 00:37:44: #1 tags after filtering in treatment: 2071530 INFO @ Tue, 13 Aug 2019 00:37:44: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 13 Aug 2019 00:37:44: #1 finished! INFO @ Tue, 13 Aug 2019 00:37:44: #2 Build Peak Model... INFO @ Tue, 13 Aug 2019 00:37:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 13 Aug 2019 00:37:44: #2 number of paired peaks: 1201 INFO @ Tue, 13 Aug 2019 00:37:44: start model_add_line... INFO @ Tue, 13 Aug 2019 00:37:44: start X-correlation... INFO @ Tue, 13 Aug 2019 00:37:44: end of X-cor INFO @ Tue, 13 Aug 2019 00:37:44: #2 finished! INFO @ Tue, 13 Aug 2019 00:37:44: #2 predicted fragment length is 219 bps INFO @ Tue, 13 Aug 2019 00:37:44: #2 alternative fragment length(s) may be 219 bps INFO @ Tue, 13 Aug 2019 00:37:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.20_model.r INFO @ Tue, 13 Aug 2019 00:37:44: #3 Call peaks... INFO @ Tue, 13 Aug 2019 00:37:44: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 13 Aug 2019 00:37:48: #3 Call peaks for each chromosome... INFO @ Tue, 13 Aug 2019 00:37:49: #3 Call peaks for each chromosome... INFO @ Tue, 13 Aug 2019 00:37:50: #3 Call peaks for each chromosome... INFO @ Tue, 13 Aug 2019 00:37:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.05_peaks.xls INFO @ Tue, 13 Aug 2019 00:37:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.05_peaks.narrowPeak INFO @ Tue, 13 Aug 2019 00:37:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.05_summits.bed INFO @ Tue, 13 Aug 2019 00:37:52: Done! pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (1526 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 13 Aug 2019 00:37:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.10_peaks.xls INFO @ Tue, 13 Aug 2019 00:37:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.10_peaks.narrowPeak INFO @ Tue, 13 Aug 2019 00:37:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.10_summits.bed INFO @ Tue, 13 Aug 2019 00:37:53: Done! pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (622 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Tue, 13 Aug 2019 00:37:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.20_peaks.xls INFO @ Tue, 13 Aug 2019 00:37:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.20_peaks.narrowPeak INFO @ Tue, 13 Aug 2019 00:37:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX661501/SRX661501.20_summits.bed INFO @ Tue, 13 Aug 2019 00:37:54: Done! pass1 - making usageList (11 chroms): 2 millis pass2 - checking and writing primary data (206 records, 4 fields): 2 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。