Job ID = 6455905 SRX = SRX306197 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:38:14 prefetch.2.10.7: 1) Downloading 'SRR901300'... 2020-06-21T10:38:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:43:36 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:43:36 prefetch.2.10.7: 1) 'SRR901300' was downloaded successfully Read 26810407 spots for SRR901300/SRR901300.sra Written 26810407 spots for SRR901300/SRR901300.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: 00:07:21 26810407 reads; of these: 26810407 (100.00%) were unpaired; of these: 1262338 (4.71%) aligned 0 times 20122334 (75.05%) aligned exactly 1 time 5425735 (20.24%) aligned >1 times 95.29% overall alignment rate Time searching: 00:07:21 Overall time: 00:07:21 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] 5104286 / 25548069 = 0.1998 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 19:59:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.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 19:59:05: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:59:05: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:59:10: 1000000 INFO @ Sun, 21 Jun 2020 19:59:15: 2000000 INFO @ Sun, 21 Jun 2020 19:59:20: 3000000 INFO @ Sun, 21 Jun 2020 19:59:25: 4000000 INFO @ Sun, 21 Jun 2020 19:59:30: 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 19:59:35: 6000000 INFO @ Sun, 21 Jun 2020 19:59:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.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 19:59:35: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:59:35: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:59:40: 7000000 INFO @ Sun, 21 Jun 2020 19:59:41: 1000000 INFO @ Sun, 21 Jun 2020 19:59:45: 8000000 INFO @ Sun, 21 Jun 2020 19:59:46: 2000000 INFO @ Sun, 21 Jun 2020 19:59:50: 9000000 INFO @ Sun, 21 Jun 2020 19:59:51: 3000000 INFO @ Sun, 21 Jun 2020 19:59:55: 10000000 INFO @ Sun, 21 Jun 2020 19:59:56: 4000000 INFO @ Sun, 21 Jun 2020 20:00:00: 11000000 INFO @ Sun, 21 Jun 2020 20:00:01: 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 @ Sun, 21 Jun 2020 20:00:05: 12000000 INFO @ Sun, 21 Jun 2020 20:00:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.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 20:00:05: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:00:05: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:00:07: 6000000 INFO @ Sun, 21 Jun 2020 20:00:10: 13000000 INFO @ Sun, 21 Jun 2020 20:00:11: 1000000 INFO @ Sun, 21 Jun 2020 20:00:12: 7000000 INFO @ Sun, 21 Jun 2020 20:00:15: 14000000 INFO @ Sun, 21 Jun 2020 20:00:16: 2000000 INFO @ Sun, 21 Jun 2020 20:00:17: 8000000 INFO @ Sun, 21 Jun 2020 20:00:20: 15000000 INFO @ Sun, 21 Jun 2020 20:00:22: 3000000 INFO @ Sun, 21 Jun 2020 20:00:23: 9000000 INFO @ Sun, 21 Jun 2020 20:00:25: 16000000 INFO @ Sun, 21 Jun 2020 20:00:27: 4000000 INFO @ Sun, 21 Jun 2020 20:00:28: 10000000 INFO @ Sun, 21 Jun 2020 20:00:30: 17000000 INFO @ Sun, 21 Jun 2020 20:00:32: 5000000 INFO @ Sun, 21 Jun 2020 20:00:33: 11000000 INFO @ Sun, 21 Jun 2020 20:00:36: 18000000 INFO @ Sun, 21 Jun 2020 20:00:37: 6000000 INFO @ Sun, 21 Jun 2020 20:00:39: 12000000 INFO @ Sun, 21 Jun 2020 20:00:41: 19000000 INFO @ Sun, 21 Jun 2020 20:00:42: 7000000 INFO @ Sun, 21 Jun 2020 20:00:44: 13000000 INFO @ Sun, 21 Jun 2020 20:00:46: 20000000 INFO @ Sun, 21 Jun 2020 20:00:48: 8000000 INFO @ Sun, 21 Jun 2020 20:00:49: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:00:49: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:00:49: #1 total tags in treatment: 20443783 INFO @ Sun, 21 Jun 2020 20:00:49: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:00:49: #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 20:00:49: 14000000 INFO @ Sun, 21 Jun 2020 20:00:49: #1 tags after filtering in treatment: 20443699 INFO @ Sun, 21 Jun 2020 20:00:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:00:49: #1 finished! INFO @ Sun, 21 Jun 2020 20:00:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:00:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:00:51: #2 number of paired peaks: 1218 INFO @ Sun, 21 Jun 2020 20:00:51: start model_add_line... INFO @ Sun, 21 Jun 2020 20:00:51: start X-correlation... INFO @ Sun, 21 Jun 2020 20:00:51: end of X-cor INFO @ Sun, 21 Jun 2020 20:00:51: #2 finished! INFO @ Sun, 21 Jun 2020 20:00:51: #2 predicted fragment length is 168 bps INFO @ Sun, 21 Jun 2020 20:00:51: #2 alternative fragment length(s) may be 168 bps INFO @ Sun, 21 Jun 2020 20:00:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.05_model.r INFO @ Sun, 21 Jun 2020 20:00:51: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:00:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:00:53: 9000000 INFO @ Sun, 21 Jun 2020 20:00:55: 15000000 INFO @ Sun, 21 Jun 2020 20:00:58: 10000000 INFO @ Sun, 21 Jun 2020 20:01:00: 16000000 INFO @ Sun, 21 Jun 2020 20:01:03: 11000000 INFO @ Sun, 21 Jun 2020 20:01:05: 17000000 INFO @ Sun, 21 Jun 2020 20:01:09: 12000000 INFO @ Sun, 21 Jun 2020 20:01:11: 18000000 INFO @ Sun, 21 Jun 2020 20:01:14: 13000000 INFO @ Sun, 21 Jun 2020 20:01:16: 19000000 INFO @ Sun, 21 Jun 2020 20:01:19: 14000000 INFO @ Sun, 21 Jun 2020 20:01:21: 20000000 INFO @ Sun, 21 Jun 2020 20:01:24: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:01:24: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:01:24: #1 total tags in treatment: 20443783 INFO @ Sun, 21 Jun 2020 20:01:24: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:01:24: #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 20:01:24: 15000000 INFO @ Sun, 21 Jun 2020 20:01:25: #1 tags after filtering in treatment: 20443699 INFO @ Sun, 21 Jun 2020 20:01:25: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:01:25: #1 finished! INFO @ Sun, 21 Jun 2020 20:01:25: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:01:25: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:01:26: #2 number of paired peaks: 1218 INFO @ Sun, 21 Jun 2020 20:01:26: start model_add_line... INFO @ Sun, 21 Jun 2020 20:01:26: start X-correlation... INFO @ Sun, 21 Jun 2020 20:01:26: end of X-cor INFO @ Sun, 21 Jun 2020 20:01:26: #2 finished! INFO @ Sun, 21 Jun 2020 20:01:26: #2 predicted fragment length is 168 bps INFO @ Sun, 21 Jun 2020 20:01:26: #2 alternative fragment length(s) may be 168 bps INFO @ Sun, 21 Jun 2020 20:01:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.10_model.r INFO @ Sun, 21 Jun 2020 20:01:26: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:01:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:01:29: 16000000 INFO @ Sun, 21 Jun 2020 20:01:34: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:01:39: 18000000 INFO @ Sun, 21 Jun 2020 20:01:41: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:01:44: 19000000 INFO @ Sun, 21 Jun 2020 20:01:50: 20000000 INFO @ Sun, 21 Jun 2020 20:01:52: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:01:52: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:01:52: #1 total tags in treatment: 20443783 INFO @ Sun, 21 Jun 2020 20:01:52: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:01:52: #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 20:01:53: #1 tags after filtering in treatment: 20443699 INFO @ Sun, 21 Jun 2020 20:01:53: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:01:53: #1 finished! INFO @ Sun, 21 Jun 2020 20:01:53: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:01:53: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:01:54: #2 number of paired peaks: 1218 INFO @ Sun, 21 Jun 2020 20:01:54: start model_add_line... INFO @ Sun, 21 Jun 2020 20:01:54: start X-correlation... INFO @ Sun, 21 Jun 2020 20:01:55: end of X-cor INFO @ Sun, 21 Jun 2020 20:01:55: #2 finished! INFO @ Sun, 21 Jun 2020 20:01:55: #2 predicted fragment length is 168 bps INFO @ Sun, 21 Jun 2020 20:01:55: #2 alternative fragment length(s) may be 168 bps INFO @ Sun, 21 Jun 2020 20:01:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.20_model.r INFO @ Sun, 21 Jun 2020 20:01:55: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:01:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:02:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:02:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:02:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.05_summits.bed INFO @ Sun, 21 Jun 2020 20:02:04: Done! pass1 - making usageList (595 chroms): 2 millis pass2 - checking and writing primary data (9818 records, 4 fields): 26 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:02:15: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:02:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:02:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:02:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.10_summits.bed INFO @ Sun, 21 Jun 2020 20:02:39: Done! pass1 - making usageList (399 chroms): 2 millis pass2 - checking and writing primary data (6657 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:02:44: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:03:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:03:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:03:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX306197/SRX306197.20_summits.bed INFO @ Sun, 21 Jun 2020 20:03:08: Done! pass1 - making usageList (226 chroms): 2 millis pass2 - checking and writing primary data (4223 records, 4 fields): 21 millis CompletedMACS2peakCalling