Job ID = 6529179 SRX = SRX032112 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 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: 00:04:24 22987773 reads; of these: 22987773 (100.00%) were unpaired; of these: 388468 (1.69%) aligned 0 times 18559807 (80.74%) aligned exactly 1 time 4039498 (17.57%) aligned >1 times 98.31% overall alignment rate Time searching: 00:04:24 Overall time: 00:04:24 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3648811 / 22599305 = 0.1615 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:46:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.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, 30 Jun 2020 01:46:06: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:46:06: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:46:11: 1000000 INFO @ Tue, 30 Jun 2020 01:46:16: 2000000 INFO @ Tue, 30 Jun 2020 01:46:21: 3000000 INFO @ Tue, 30 Jun 2020 01:46:26: 4000000 INFO @ Tue, 30 Jun 2020 01:46:31: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:46:35: 6000000 INFO @ Tue, 30 Jun 2020 01:46:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.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, 30 Jun 2020 01:46:36: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:46:36: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:46:40: 7000000 INFO @ Tue, 30 Jun 2020 01:46:41: 1000000 INFO @ Tue, 30 Jun 2020 01:46:45: 8000000 INFO @ Tue, 30 Jun 2020 01:46:46: 2000000 INFO @ Tue, 30 Jun 2020 01:46:50: 9000000 INFO @ Tue, 30 Jun 2020 01:46:51: 3000000 INFO @ Tue, 30 Jun 2020 01:46:55: 10000000 INFO @ Tue, 30 Jun 2020 01:46:56: 4000000 INFO @ Tue, 30 Jun 2020 01:47:00: 11000000 INFO @ Tue, 30 Jun 2020 01:47:01: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:47:05: 12000000 INFO @ Tue, 30 Jun 2020 01:47:06: 6000000 INFO @ Tue, 30 Jun 2020 01:47:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.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, 30 Jun 2020 01:47:08: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:47:08: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:47:10: 13000000 INFO @ Tue, 30 Jun 2020 01:47:11: 7000000 INFO @ Tue, 30 Jun 2020 01:47:13: 1000000 INFO @ Tue, 30 Jun 2020 01:47:14: 14000000 INFO @ Tue, 30 Jun 2020 01:47:16: 8000000 INFO @ Tue, 30 Jun 2020 01:47:17: 2000000 INFO @ Tue, 30 Jun 2020 01:47:19: 15000000 INFO @ Tue, 30 Jun 2020 01:47:21: 9000000 INFO @ Tue, 30 Jun 2020 01:47:22: 3000000 INFO @ Tue, 30 Jun 2020 01:47:25: 16000000 INFO @ Tue, 30 Jun 2020 01:47:26: 10000000 INFO @ Tue, 30 Jun 2020 01:47:26: 4000000 INFO @ Tue, 30 Jun 2020 01:47:30: 17000000 INFO @ Tue, 30 Jun 2020 01:47:31: 11000000 INFO @ Tue, 30 Jun 2020 01:47:31: 5000000 INFO @ Tue, 30 Jun 2020 01:47:35: 18000000 INFO @ Tue, 30 Jun 2020 01:47:35: 6000000 INFO @ Tue, 30 Jun 2020 01:47:35: 12000000 INFO @ Tue, 30 Jun 2020 01:47:40: 7000000 INFO @ Tue, 30 Jun 2020 01:47:40: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:47:40: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:47:40: #1 total tags in treatment: 18950494 INFO @ Tue, 30 Jun 2020 01:47:40: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:47:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:47:40: #1 tags after filtering in treatment: 18950490 INFO @ Tue, 30 Jun 2020 01:47:40: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:47:40: #1 finished! INFO @ Tue, 30 Jun 2020 01:47:40: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:47:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:47:40: 13000000 INFO @ Tue, 30 Jun 2020 01:47:41: #2 number of paired peaks: 151 WARNING @ Tue, 30 Jun 2020 01:47:41: Fewer paired peaks (151) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 151 pairs to build model! INFO @ Tue, 30 Jun 2020 01:47:41: start model_add_line... INFO @ Tue, 30 Jun 2020 01:47:42: start X-correlation... INFO @ Tue, 30 Jun 2020 01:47:42: end of X-cor INFO @ Tue, 30 Jun 2020 01:47:42: #2 finished! INFO @ Tue, 30 Jun 2020 01:47:42: #2 predicted fragment length is 139 bps INFO @ Tue, 30 Jun 2020 01:47:42: #2 alternative fragment length(s) may be 139 bps INFO @ Tue, 30 Jun 2020 01:47:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.05_model.r INFO @ Tue, 30 Jun 2020 01:47:42: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:47:42: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:47:44: 8000000 INFO @ Tue, 30 Jun 2020 01:47:45: 14000000 INFO @ Tue, 30 Jun 2020 01:47:48: 9000000 INFO @ Tue, 30 Jun 2020 01:47:50: 15000000 INFO @ Tue, 30 Jun 2020 01:47:53: 10000000 INFO @ Tue, 30 Jun 2020 01:47:56: 16000000 INFO @ Tue, 30 Jun 2020 01:47:57: 11000000 INFO @ Tue, 30 Jun 2020 01:48:01: 17000000 INFO @ Tue, 30 Jun 2020 01:48:02: 12000000 INFO @ Tue, 30 Jun 2020 01:48:06: 18000000 INFO @ Tue, 30 Jun 2020 01:48:06: 13000000 INFO @ Tue, 30 Jun 2020 01:48:11: 14000000 INFO @ Tue, 30 Jun 2020 01:48:11: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:48:11: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:48:11: #1 total tags in treatment: 18950494 INFO @ Tue, 30 Jun 2020 01:48:11: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:48:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:48:11: #1 tags after filtering in treatment: 18950490 INFO @ Tue, 30 Jun 2020 01:48:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:48:11: #1 finished! INFO @ Tue, 30 Jun 2020 01:48:11: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:48:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:48:13: #2 number of paired peaks: 151 WARNING @ Tue, 30 Jun 2020 01:48:13: Fewer paired peaks (151) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 151 pairs to build model! INFO @ Tue, 30 Jun 2020 01:48:13: start model_add_line... INFO @ Tue, 30 Jun 2020 01:48:13: start X-correlation... INFO @ Tue, 30 Jun 2020 01:48:13: end of X-cor INFO @ Tue, 30 Jun 2020 01:48:13: #2 finished! INFO @ Tue, 30 Jun 2020 01:48:13: #2 predicted fragment length is 139 bps INFO @ Tue, 30 Jun 2020 01:48:13: #2 alternative fragment length(s) may be 139 bps INFO @ Tue, 30 Jun 2020 01:48:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.10_model.r INFO @ Tue, 30 Jun 2020 01:48:13: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:48:13: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:48:15: 15000000 INFO @ Tue, 30 Jun 2020 01:48:17: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:48:20: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:48:24: 17000000 INFO @ Tue, 30 Jun 2020 01:48:28: 18000000 INFO @ Tue, 30 Jun 2020 01:48:33: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:48:33: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:48:33: #1 total tags in treatment: 18950494 INFO @ Tue, 30 Jun 2020 01:48:33: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:48:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:48:33: #1 tags after filtering in treatment: 18950490 INFO @ Tue, 30 Jun 2020 01:48:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:48:33: #1 finished! INFO @ Tue, 30 Jun 2020 01:48:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:48:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:48:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.05_peaks.xls INFO @ Tue, 30 Jun 2020 01:48:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:48:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.05_summits.bed INFO @ Tue, 30 Jun 2020 01:48:34: Done! pass1 - making usageList (417 chroms): 1 millis pass2 - checking and writing primary data (4595 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:48:35: #2 number of paired peaks: 151 WARNING @ Tue, 30 Jun 2020 01:48:35: Fewer paired peaks (151) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 151 pairs to build model! INFO @ Tue, 30 Jun 2020 01:48:35: start model_add_line... INFO @ Tue, 30 Jun 2020 01:48:35: start X-correlation... INFO @ Tue, 30 Jun 2020 01:48:35: end of X-cor INFO @ Tue, 30 Jun 2020 01:48:35: #2 finished! INFO @ Tue, 30 Jun 2020 01:48:35: #2 predicted fragment length is 139 bps INFO @ Tue, 30 Jun 2020 01:48:35: #2 alternative fragment length(s) may be 139 bps INFO @ Tue, 30 Jun 2020 01:48:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.20_model.r INFO @ Tue, 30 Jun 2020 01:48:35: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:48:35: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:48:48: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:49:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.10_peaks.xls INFO @ Tue, 30 Jun 2020 01:49:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:49:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.10_summits.bed INFO @ Tue, 30 Jun 2020 01:49:05: Done! pass1 - making usageList (210 chroms): 1 millis pass2 - checking and writing primary data (1225 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:49:10: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:49:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.20_peaks.xls INFO @ Tue, 30 Jun 2020 01:49:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:49:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX032112/SRX032112.20_summits.bed INFO @ Tue, 30 Jun 2020 01:49:27: Done! pass1 - making usageList (92 chroms): 1 millis pass2 - checking and writing primary data (266 records, 4 fields): 4 millis CompletedMACS2peakCalling