Job ID = 6458523 SRX = SRX529167 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:32:19 prefetch.2.10.7: 1) Downloading 'SRR1265773'... 2020-06-21T12:32:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:36:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:36:57 prefetch.2.10.7: 1) 'SRR1265773' was downloaded successfully Read 30181637 spots for SRR1265773/SRR1265773.sra Written 30181637 spots for SRR1265773/SRR1265773.sra 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: 00:06:44 30181637 reads; of these: 30181637 (100.00%) were unpaired; of these: 747162 (2.48%) aligned 0 times 24692237 (81.81%) aligned exactly 1 time 4742238 (15.71%) aligned >1 times 97.52% overall alignment rate Time searching: 00:06:44 Overall time: 00:06:44 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 12 files... [bam_rmdupse_core] 12266687 / 29434475 = 0.4167 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 @ Sun, 21 Jun 2020 21:50:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.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, 21 Jun 2020 21:50:52: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:50:52: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:50:57: 1000000 INFO @ Sun, 21 Jun 2020 21:51:02: 2000000 INFO @ Sun, 21 Jun 2020 21:51:08: 3000000 INFO @ Sun, 21 Jun 2020 21:51:13: 4000000 INFO @ Sun, 21 Jun 2020 21:51:18: 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 @ Sun, 21 Jun 2020 21:51:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.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, 21 Jun 2020 21:51:22: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:51:22: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:51:24: 6000000 INFO @ Sun, 21 Jun 2020 21:51:28: 1000000 INFO @ Sun, 21 Jun 2020 21:51:30: 7000000 INFO @ Sun, 21 Jun 2020 21:51:34: 2000000 INFO @ Sun, 21 Jun 2020 21:51:36: 8000000 INFO @ Sun, 21 Jun 2020 21:51:40: 3000000 INFO @ Sun, 21 Jun 2020 21:51:41: 9000000 INFO @ Sun, 21 Jun 2020 21:51:46: 4000000 INFO @ Sun, 21 Jun 2020 21:51:47: 10000000 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 @ Sun, 21 Jun 2020 21:51:52: 5000000 INFO @ Sun, 21 Jun 2020 21:51:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.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, 21 Jun 2020 21:51:52: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:51:52: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:51:53: 11000000 INFO @ Sun, 21 Jun 2020 21:51:58: 6000000 INFO @ Sun, 21 Jun 2020 21:51:58: 1000000 INFO @ Sun, 21 Jun 2020 21:51:59: 12000000 INFO @ Sun, 21 Jun 2020 21:52:03: 7000000 INFO @ Sun, 21 Jun 2020 21:52:04: 2000000 INFO @ Sun, 21 Jun 2020 21:52:05: 13000000 INFO @ Sun, 21 Jun 2020 21:52:09: 8000000 INFO @ Sun, 21 Jun 2020 21:52:11: 3000000 INFO @ Sun, 21 Jun 2020 21:52:11: 14000000 INFO @ Sun, 21 Jun 2020 21:52:15: 9000000 INFO @ Sun, 21 Jun 2020 21:52:17: 4000000 INFO @ Sun, 21 Jun 2020 21:52:17: 15000000 INFO @ Sun, 21 Jun 2020 21:52:21: 10000000 INFO @ Sun, 21 Jun 2020 21:52:23: 5000000 INFO @ Sun, 21 Jun 2020 21:52:24: 16000000 INFO @ Sun, 21 Jun 2020 21:52:27: 11000000 INFO @ Sun, 21 Jun 2020 21:52:29: 6000000 INFO @ Sun, 21 Jun 2020 21:52:30: 17000000 INFO @ Sun, 21 Jun 2020 21:52:31: #1 tag size is determined as 49 bps INFO @ Sun, 21 Jun 2020 21:52:31: #1 tag size = 49 INFO @ Sun, 21 Jun 2020 21:52:31: #1 total tags in treatment: 17167788 INFO @ Sun, 21 Jun 2020 21:52:31: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:52:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:52:32: #1 tags after filtering in treatment: 17167695 INFO @ Sun, 21 Jun 2020 21:52:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:52:32: #1 finished! INFO @ Sun, 21 Jun 2020 21:52:32: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:52:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:52:33: 12000000 INFO @ Sun, 21 Jun 2020 21:52:33: #2 number of paired peaks: 6632 INFO @ Sun, 21 Jun 2020 21:52:33: start model_add_line... INFO @ Sun, 21 Jun 2020 21:52:34: start X-correlation... INFO @ Sun, 21 Jun 2020 21:52:34: end of X-cor INFO @ Sun, 21 Jun 2020 21:52:34: #2 finished! INFO @ Sun, 21 Jun 2020 21:52:34: #2 predicted fragment length is 199 bps INFO @ Sun, 21 Jun 2020 21:52:34: #2 alternative fragment length(s) may be 4,199 bps INFO @ Sun, 21 Jun 2020 21:52:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.05_model.r INFO @ Sun, 21 Jun 2020 21:52:34: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:52:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:52:35: 7000000 INFO @ Sun, 21 Jun 2020 21:52:38: 13000000 INFO @ Sun, 21 Jun 2020 21:52:41: 8000000 INFO @ Sun, 21 Jun 2020 21:52:44: 14000000 INFO @ Sun, 21 Jun 2020 21:52:47: 9000000 INFO @ Sun, 21 Jun 2020 21:52:50: 15000000 INFO @ Sun, 21 Jun 2020 21:52:53: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:52:56: 16000000 INFO @ Sun, 21 Jun 2020 21:52:59: 11000000 INFO @ Sun, 21 Jun 2020 21:53:02: 17000000 INFO @ Sun, 21 Jun 2020 21:53:03: #1 tag size is determined as 49 bps INFO @ Sun, 21 Jun 2020 21:53:03: #1 tag size = 49 INFO @ Sun, 21 Jun 2020 21:53:03: #1 total tags in treatment: 17167788 INFO @ Sun, 21 Jun 2020 21:53:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:53:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:53:04: #1 tags after filtering in treatment: 17167695 INFO @ Sun, 21 Jun 2020 21:53:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:53:04: #1 finished! INFO @ Sun, 21 Jun 2020 21:53:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:53:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:53:04: 12000000 INFO @ Sun, 21 Jun 2020 21:53:06: #2 number of paired peaks: 6632 INFO @ Sun, 21 Jun 2020 21:53:06: start model_add_line... INFO @ Sun, 21 Jun 2020 21:53:06: start X-correlation... INFO @ Sun, 21 Jun 2020 21:53:06: end of X-cor INFO @ Sun, 21 Jun 2020 21:53:06: #2 finished! INFO @ Sun, 21 Jun 2020 21:53:06: #2 predicted fragment length is 199 bps INFO @ Sun, 21 Jun 2020 21:53:06: #2 alternative fragment length(s) may be 4,199 bps INFO @ Sun, 21 Jun 2020 21:53:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.10_model.r INFO @ Sun, 21 Jun 2020 21:53:06: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:53:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:53:10: 13000000 INFO @ Sun, 21 Jun 2020 21:53:16: 14000000 INFO @ Sun, 21 Jun 2020 21:53:20: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:53:22: 15000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:53:27: 16000000 INFO @ Sun, 21 Jun 2020 21:53:33: 17000000 INFO @ Sun, 21 Jun 2020 21:53:34: #1 tag size is determined as 49 bps INFO @ Sun, 21 Jun 2020 21:53:34: #1 tag size = 49 INFO @ Sun, 21 Jun 2020 21:53:34: #1 total tags in treatment: 17167788 INFO @ Sun, 21 Jun 2020 21:53:34: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:53:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:53:35: #1 tags after filtering in treatment: 17167695 INFO @ Sun, 21 Jun 2020 21:53:35: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:53:35: #1 finished! INFO @ Sun, 21 Jun 2020 21:53:35: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:53:35: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:53:37: #2 number of paired peaks: 6632 INFO @ Sun, 21 Jun 2020 21:53:37: start model_add_line... INFO @ Sun, 21 Jun 2020 21:53:37: start X-correlation... INFO @ Sun, 21 Jun 2020 21:53:37: end of X-cor INFO @ Sun, 21 Jun 2020 21:53:37: #2 finished! INFO @ Sun, 21 Jun 2020 21:53:37: #2 predicted fragment length is 199 bps INFO @ Sun, 21 Jun 2020 21:53:37: #2 alternative fragment length(s) may be 4,199 bps INFO @ Sun, 21 Jun 2020 21:53:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.20_model.r INFO @ Sun, 21 Jun 2020 21:53:37: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:53:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:53:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:53:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:53:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.05_summits.bed INFO @ Sun, 21 Jun 2020 21:53:42: Done! pass1 - making usageList (208 chroms): 3 millis pass2 - checking and writing primary data (12924 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:53:51: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:54:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:54:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:54:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.10_summits.bed INFO @ Sun, 21 Jun 2020 21:54:11: Done! pass1 - making usageList (118 chroms): 2 millis pass2 - checking and writing primary data (8583 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:54:23: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:54:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:54:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:54:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX529167/SRX529167.20_summits.bed INFO @ Sun, 21 Jun 2020 21:54:44: Done! pass1 - making usageList (81 chroms): 2 millis pass2 - checking and writing primary data (4159 records, 4 fields): 8 millis CompletedMACS2peakCalling