Job ID = 1293258 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 6,484,973 reads read : 6,484,973 reads written : 6,484,973 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘fastqDump_tmp*’: 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: 00:01:02 6484973 reads; of these: 6484973 (100.00%) were unpaired; of these: 21399 (0.33%) aligned 0 times 6354325 (97.99%) aligned exactly 1 time 109249 (1.68%) aligned >1 times 99.67% overall alignment rate Time searching: 00:01:02 Overall time: 00:01:02 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] 1037974 / 6463574 = 0.1606 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 @ Sun, 02 Jun 2019 22:36:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.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 @ Sun, 02 Jun 2019 22:36:05: #1 read tag files... INFO @ Sun, 02 Jun 2019 22:36:05: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 22:36:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.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 @ Sun, 02 Jun 2019 22:36:05: #1 read tag files... INFO @ Sun, 02 Jun 2019 22:36:05: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 22:36:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.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 @ Sun, 02 Jun 2019 22:36:05: #1 read tag files... INFO @ Sun, 02 Jun 2019 22:36:05: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 22:36:13: 1000000 INFO @ Sun, 02 Jun 2019 22:36:14: 1000000 INFO @ Sun, 02 Jun 2019 22:36:14: 1000000 INFO @ Sun, 02 Jun 2019 22:36:21: 2000000 INFO @ Sun, 02 Jun 2019 22:36:21: 2000000 INFO @ Sun, 02 Jun 2019 22:36:22: 2000000 INFO @ Sun, 02 Jun 2019 22:36:29: 3000000 INFO @ Sun, 02 Jun 2019 22:36:29: 3000000 INFO @ Sun, 02 Jun 2019 22:36:30: 3000000 INFO @ Sun, 02 Jun 2019 22:36:36: 4000000 INFO @ Sun, 02 Jun 2019 22:36:36: 4000000 INFO @ Sun, 02 Jun 2019 22:36:38: 4000000 INFO @ Sun, 02 Jun 2019 22:36:44: 5000000 INFO @ Sun, 02 Jun 2019 22:36:44: 5000000 INFO @ Sun, 02 Jun 2019 22:36:46: 5000000 INFO @ Sun, 02 Jun 2019 22:36:47: #1 tag size is determined as 36 bps INFO @ Sun, 02 Jun 2019 22:36:47: #1 tag size = 36 INFO @ Sun, 02 Jun 2019 22:36:47: #1 total tags in treatment: 5425600 INFO @ Sun, 02 Jun 2019 22:36:47: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 22:36:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 02 Jun 2019 22:36:47: #1 tag size is determined as 36 bps INFO @ Sun, 02 Jun 2019 22:36:47: #1 tag size = 36 INFO @ Sun, 02 Jun 2019 22:36:47: #1 total tags in treatment: 5425600 INFO @ Sun, 02 Jun 2019 22:36:47: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 22:36:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 02 Jun 2019 22:36:47: #1 tags after filtering in treatment: 5425600 INFO @ Sun, 02 Jun 2019 22:36:47: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 22:36:47: #1 finished! INFO @ Sun, 02 Jun 2019 22:36:47: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 22:36:47: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 22:36:47: #1 tags after filtering in treatment: 5425600 INFO @ Sun, 02 Jun 2019 22:36:47: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 22:36:47: #1 finished! INFO @ Sun, 02 Jun 2019 22:36:47: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 22:36:47: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 22:36:48: #2 number of paired peaks: 2309 INFO @ Sun, 02 Jun 2019 22:36:48: start model_add_line... INFO @ Sun, 02 Jun 2019 22:36:48: start X-correlation... INFO @ Sun, 02 Jun 2019 22:36:48: #2 number of paired peaks: 2309 INFO @ Sun, 02 Jun 2019 22:36:48: start model_add_line... INFO @ Sun, 02 Jun 2019 22:36:48: end of X-cor INFO @ Sun, 02 Jun 2019 22:36:48: #2 finished! INFO @ Sun, 02 Jun 2019 22:36:48: #2 predicted fragment length is 100 bps INFO @ Sun, 02 Jun 2019 22:36:48: #2 alternative fragment length(s) may be 100 bps INFO @ Sun, 02 Jun 2019 22:36:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.10_model.r INFO @ Sun, 02 Jun 2019 22:36:48: #3 Call peaks... INFO @ Sun, 02 Jun 2019 22:36:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 02 Jun 2019 22:36:48: start X-correlation... INFO @ Sun, 02 Jun 2019 22:36:48: end of X-cor INFO @ Sun, 02 Jun 2019 22:36:48: #2 finished! INFO @ Sun, 02 Jun 2019 22:36:48: #2 predicted fragment length is 100 bps INFO @ Sun, 02 Jun 2019 22:36:48: #2 alternative fragment length(s) may be 100 bps INFO @ Sun, 02 Jun 2019 22:36:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.20_model.r INFO @ Sun, 02 Jun 2019 22:36:48: #3 Call peaks... INFO @ Sun, 02 Jun 2019 22:36:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 02 Jun 2019 22:36:49: #1 tag size is determined as 36 bps INFO @ Sun, 02 Jun 2019 22:36:49: #1 tag size = 36 INFO @ Sun, 02 Jun 2019 22:36:49: #1 total tags in treatment: 5425600 INFO @ Sun, 02 Jun 2019 22:36:49: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 22:36:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 02 Jun 2019 22:36:49: #1 tags after filtering in treatment: 5425600 INFO @ Sun, 02 Jun 2019 22:36:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 22:36:49: #1 finished! INFO @ Sun, 02 Jun 2019 22:36:49: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 22:36:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 22:36:50: #2 number of paired peaks: 2309 INFO @ Sun, 02 Jun 2019 22:36:50: start model_add_line... INFO @ Sun, 02 Jun 2019 22:36:50: start X-correlation... INFO @ Sun, 02 Jun 2019 22:36:50: end of X-cor INFO @ Sun, 02 Jun 2019 22:36:50: #2 finished! INFO @ Sun, 02 Jun 2019 22:36:50: #2 predicted fragment length is 100 bps INFO @ Sun, 02 Jun 2019 22:36:50: #2 alternative fragment length(s) may be 100 bps INFO @ Sun, 02 Jun 2019 22:36:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.05_model.r INFO @ Sun, 02 Jun 2019 22:36:50: #3 Call peaks... INFO @ Sun, 02 Jun 2019 22:36:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 02 Jun 2019 22:37:04: #3 Call peaks for each chromosome... INFO @ Sun, 02 Jun 2019 22:37:05: #3 Call peaks for each chromosome... INFO @ Sun, 02 Jun 2019 22:37:06: #3 Call peaks for each chromosome... INFO @ Sun, 02 Jun 2019 22:37:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.10_peaks.xls INFO @ Sun, 02 Jun 2019 22:37:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.10_peaks.narrowPeak INFO @ Sun, 02 Jun 2019 22:37:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.10_summits.bed INFO @ Sun, 02 Jun 2019 22:37:13: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (5059 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sun, 02 Jun 2019 22:37:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.20_peaks.xls INFO @ Sun, 02 Jun 2019 22:37:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.20_peaks.narrowPeak INFO @ Sun, 02 Jun 2019 22:37:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.20_summits.bed INFO @ Sun, 02 Jun 2019 22:37:13: Done! pass1 - making usageList (10 chroms): 2 millis pass2 - checking and writing primary data (2610 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sun, 02 Jun 2019 22:37:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.05_peaks.xls INFO @ Sun, 02 Jun 2019 22:37:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.05_peaks.narrowPeak INFO @ Sun, 02 Jun 2019 22:37:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX008189/ERX008189.05_summits.bed INFO @ Sun, 02 Jun 2019 22:37:15: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (9460 records, 4 fields): 13 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。