Job ID = 6454371 SRX = SRX201902 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:31:14 prefetch.2.10.7: 1) Downloading 'SRR609692'... 2020-06-21T09:31:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:36:12 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:36:12 prefetch.2.10.7: 1) 'SRR609692' was downloaded successfully Read 27059544 spots for SRR609692/SRR609692.sra Written 27059544 spots for SRR609692/SRR609692.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: 00:05:19 27059544 reads; of these: 27059544 (100.00%) were unpaired; of these: 2680147 (9.90%) aligned 0 times 22389094 (82.74%) aligned exactly 1 time 1990303 (7.36%) aligned >1 times 90.10% overall alignment rate Time searching: 00:05:19 Overall time: 00:05:19 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] 11481044 / 24379397 = 0.4709 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 18:49:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.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 18:49:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:49:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:49:46: 1000000 INFO @ Sun, 21 Jun 2020 18:49:54: 2000000 INFO @ Sun, 21 Jun 2020 18:50:02: 3000000 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 18:50:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.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 18:50:09: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:50:09: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:50:10: 4000000 INFO @ Sun, 21 Jun 2020 18:50:17: 1000000 INFO @ Sun, 21 Jun 2020 18:50:17: 5000000 INFO @ Sun, 21 Jun 2020 18:50:24: 2000000 INFO @ Sun, 21 Jun 2020 18:50:25: 6000000 INFO @ Sun, 21 Jun 2020 18:50:32: 3000000 INFO @ Sun, 21 Jun 2020 18:50:33: 7000000 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 18:50:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.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 18:50:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:50:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:50:40: 4000000 INFO @ Sun, 21 Jun 2020 18:50:41: 8000000 INFO @ Sun, 21 Jun 2020 18:50:47: 1000000 INFO @ Sun, 21 Jun 2020 18:50:48: 5000000 INFO @ Sun, 21 Jun 2020 18:50:49: 9000000 INFO @ Sun, 21 Jun 2020 18:50:55: 2000000 INFO @ Sun, 21 Jun 2020 18:50:56: 6000000 INFO @ Sun, 21 Jun 2020 18:50:57: 10000000 INFO @ Sun, 21 Jun 2020 18:51:03: 3000000 INFO @ Sun, 21 Jun 2020 18:51:04: 7000000 INFO @ Sun, 21 Jun 2020 18:51:06: 11000000 INFO @ Sun, 21 Jun 2020 18:51:11: 4000000 INFO @ Sun, 21 Jun 2020 18:51:12: 8000000 INFO @ Sun, 21 Jun 2020 18:51:14: 12000000 INFO @ Sun, 21 Jun 2020 18:51:20: 5000000 INFO @ Sun, 21 Jun 2020 18:51:20: 9000000 INFO @ Sun, 21 Jun 2020 18:51:22: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:51:22: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:51:22: #1 total tags in treatment: 12898353 INFO @ Sun, 21 Jun 2020 18:51:22: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:51:22: #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 18:51:22: #1 tags after filtering in treatment: 12897974 INFO @ Sun, 21 Jun 2020 18:51:22: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:51:22: #1 finished! INFO @ Sun, 21 Jun 2020 18:51:22: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:51:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:51:24: #2 number of paired peaks: 6387 INFO @ Sun, 21 Jun 2020 18:51:24: start model_add_line... INFO @ Sun, 21 Jun 2020 18:51:24: start X-correlation... INFO @ Sun, 21 Jun 2020 18:51:24: end of X-cor INFO @ Sun, 21 Jun 2020 18:51:24: #2 finished! INFO @ Sun, 21 Jun 2020 18:51:24: #2 predicted fragment length is 205 bps INFO @ Sun, 21 Jun 2020 18:51:24: #2 alternative fragment length(s) may be 205 bps INFO @ Sun, 21 Jun 2020 18:51:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.05_model.r INFO @ Sun, 21 Jun 2020 18:51:24: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:51:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:51:27: 6000000 INFO @ Sun, 21 Jun 2020 18:51:28: 10000000 INFO @ Sun, 21 Jun 2020 18:51:35: 7000000 INFO @ Sun, 21 Jun 2020 18:51:36: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:51:42: 8000000 INFO @ Sun, 21 Jun 2020 18:51:44: 12000000 INFO @ Sun, 21 Jun 2020 18:51:50: 9000000 INFO @ Sun, 21 Jun 2020 18:51:52: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:51:52: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:51:52: #1 total tags in treatment: 12898353 INFO @ Sun, 21 Jun 2020 18:51:52: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:51:52: #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 18:51:52: #1 tags after filtering in treatment: 12897974 INFO @ Sun, 21 Jun 2020 18:51:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:51:52: #1 finished! INFO @ Sun, 21 Jun 2020 18:51:52: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:51:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:51:54: #2 number of paired peaks: 6387 INFO @ Sun, 21 Jun 2020 18:51:54: start model_add_line... INFO @ Sun, 21 Jun 2020 18:51:54: start X-correlation... INFO @ Sun, 21 Jun 2020 18:51:54: end of X-cor INFO @ Sun, 21 Jun 2020 18:51:54: #2 finished! INFO @ Sun, 21 Jun 2020 18:51:54: #2 predicted fragment length is 205 bps INFO @ Sun, 21 Jun 2020 18:51:54: #2 alternative fragment length(s) may be 205 bps INFO @ Sun, 21 Jun 2020 18:51:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.10_model.r INFO @ Sun, 21 Jun 2020 18:51:54: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:51:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:51:58: 10000000 INFO @ Sun, 21 Jun 2020 18:52:07: 11000000 INFO @ Sun, 21 Jun 2020 18:52:09: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:52:15: 12000000 INFO @ Sun, 21 Jun 2020 18:52:22: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:52:22: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:52:22: #1 total tags in treatment: 12898353 INFO @ Sun, 21 Jun 2020 18:52:22: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:52:22: #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 18:52:23: #1 tags after filtering in treatment: 12897974 INFO @ Sun, 21 Jun 2020 18:52:23: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:52:23: #1 finished! INFO @ Sun, 21 Jun 2020 18:52:23: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:52:23: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:52:24: #2 number of paired peaks: 6387 INFO @ Sun, 21 Jun 2020 18:52:24: start model_add_line... INFO @ Sun, 21 Jun 2020 18:52:24: start X-correlation... INFO @ Sun, 21 Jun 2020 18:52:24: end of X-cor INFO @ Sun, 21 Jun 2020 18:52:24: #2 finished! INFO @ Sun, 21 Jun 2020 18:52:24: #2 predicted fragment length is 205 bps INFO @ Sun, 21 Jun 2020 18:52:24: #2 alternative fragment length(s) may be 205 bps INFO @ Sun, 21 Jun 2020 18:52:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.20_model.r INFO @ Sun, 21 Jun 2020 18:52:24: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:52:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:52:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:52:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:52:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.05_summits.bed INFO @ Sun, 21 Jun 2020 18:52:27: Done! pass1 - making usageList (76 chroms): 3 millis pass2 - checking and writing primary data (9431 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:52:40: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:52:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:52:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:52:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.10_summits.bed INFO @ Sun, 21 Jun 2020 18:52:57: Done! pass1 - making usageList (62 chroms): 2 millis pass2 - checking and writing primary data (7354 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:53:10: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:53:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:53:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:53:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX201902/SRX201902.20_summits.bed INFO @ Sun, 21 Jun 2020 18:53:26: Done! pass1 - making usageList (48 chroms): 2 millis pass2 - checking and writing primary data (5426 records, 4 fields): 11 millis CompletedMACS2peakCalling