Job ID = 6456844 SRX = SRX3981727 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:18:54 prefetch.2.10.7: 1) Downloading 'SRR7050593'... 2020-06-21T11:18:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:20:27 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:20:27 prefetch.2.10.7: 'SRR7050593' is valid 2020-06-21T11:20:27 prefetch.2.10.7: 1) 'SRR7050593' was downloaded successfully 2020-06-21T11:20:27 prefetch.2.10.7: 'SRR7050593' has 0 unresolved dependencies Read 11846442 spots for SRR7050593/SRR7050593.sra Written 11846442 spots for SRR7050593/SRR7050593.sra 2020-06-21T11:21:19 prefetch.2.10.7: 1) Downloading 'SRR7050594'... 2020-06-21T11:21:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:22:51 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:22:52 prefetch.2.10.7: 'SRR7050594' is valid 2020-06-21T11:22:52 prefetch.2.10.7: 1) 'SRR7050594' was downloaded successfully 2020-06-21T11:22:52 prefetch.2.10.7: 'SRR7050594' has 0 unresolved dependencies Read 11995461 spots for SRR7050594/SRR7050594.sra Written 11995461 spots for SRR7050594/SRR7050594.sra 2020-06-21T11:23:40 prefetch.2.10.7: 1) Downloading 'SRR7050595'... 2020-06-21T11:23:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:24:54 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:24:54 prefetch.2.10.7: 'SRR7050595' is valid 2020-06-21T11:24:54 prefetch.2.10.7: 1) 'SRR7050595' was downloaded successfully 2020-06-21T11:24:54 prefetch.2.10.7: 'SRR7050595' has 0 unresolved dependencies Read 12041089 spots for SRR7050595/SRR7050595.sra Written 12041089 spots for SRR7050595/SRR7050595.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: 00:09:47 35882992 reads; of these: 35882992 (100.00%) were unpaired; of these: 897330 (2.50%) aligned 0 times 27177902 (75.74%) aligned exactly 1 time 7807760 (21.76%) aligned >1 times 97.50% overall alignment rate Time searching: 00:09:47 Overall time: 00:09:47 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 16 files... [bam_rmdupse_core] 12872155 / 34985662 = 0.3679 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 20:42:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.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 20:42:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:42:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:42:25: 1000000 INFO @ Sun, 21 Jun 2020 20:42:30: 2000000 INFO @ Sun, 21 Jun 2020 20:42:36: 3000000 INFO @ Sun, 21 Jun 2020 20:42:41: 4000000 INFO @ Sun, 21 Jun 2020 20:42:47: 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 20:42:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.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 20:42:49: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:42:49: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:42:53: 6000000 INFO @ Sun, 21 Jun 2020 20:42:57: 1000000 INFO @ Sun, 21 Jun 2020 20:43:00: 7000000 INFO @ Sun, 21 Jun 2020 20:43:04: 2000000 INFO @ Sun, 21 Jun 2020 20:43:06: 8000000 INFO @ Sun, 21 Jun 2020 20:43:12: 3000000 INFO @ Sun, 21 Jun 2020 20:43:13: 9000000 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 20:43:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.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 20:43:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:43:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:43:20: 4000000 INFO @ Sun, 21 Jun 2020 20:43:20: 10000000 INFO @ Sun, 21 Jun 2020 20:43:26: 1000000 INFO @ Sun, 21 Jun 2020 20:43:27: 11000000 INFO @ Sun, 21 Jun 2020 20:43:27: 5000000 INFO @ Sun, 21 Jun 2020 20:43:33: 2000000 INFO @ Sun, 21 Jun 2020 20:43:33: 12000000 INFO @ Sun, 21 Jun 2020 20:43:35: 6000000 INFO @ Sun, 21 Jun 2020 20:43:40: 3000000 INFO @ Sun, 21 Jun 2020 20:43:40: 13000000 INFO @ Sun, 21 Jun 2020 20:43:42: 7000000 INFO @ Sun, 21 Jun 2020 20:43:46: 4000000 INFO @ Sun, 21 Jun 2020 20:43:47: 14000000 INFO @ Sun, 21 Jun 2020 20:43:49: 8000000 INFO @ Sun, 21 Jun 2020 20:43:53: 5000000 INFO @ Sun, 21 Jun 2020 20:43:54: 15000000 INFO @ Sun, 21 Jun 2020 20:43:56: 9000000 INFO @ Sun, 21 Jun 2020 20:44:00: 6000000 INFO @ Sun, 21 Jun 2020 20:44:01: 16000000 INFO @ Sun, 21 Jun 2020 20:44:03: 10000000 INFO @ Sun, 21 Jun 2020 20:44:07: 7000000 INFO @ Sun, 21 Jun 2020 20:44:08: 17000000 INFO @ Sun, 21 Jun 2020 20:44:10: 11000000 INFO @ Sun, 21 Jun 2020 20:44:13: 8000000 INFO @ Sun, 21 Jun 2020 20:44:15: 18000000 INFO @ Sun, 21 Jun 2020 20:44:17: 12000000 INFO @ Sun, 21 Jun 2020 20:44:20: 9000000 INFO @ Sun, 21 Jun 2020 20:44:22: 19000000 INFO @ Sun, 21 Jun 2020 20:44:25: 13000000 INFO @ Sun, 21 Jun 2020 20:44:26: 10000000 INFO @ Sun, 21 Jun 2020 20:44:29: 20000000 INFO @ Sun, 21 Jun 2020 20:44:32: 14000000 INFO @ Sun, 21 Jun 2020 20:44:33: 11000000 INFO @ Sun, 21 Jun 2020 20:44:36: 21000000 INFO @ Sun, 21 Jun 2020 20:44:40: 12000000 INFO @ Sun, 21 Jun 2020 20:44:40: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:44:43: 22000000 INFO @ Sun, 21 Jun 2020 20:44:44: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:44:44: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:44:44: #1 total tags in treatment: 22113507 INFO @ Sun, 21 Jun 2020 20:44:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:44:44: #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 20:44:44: #1 tags after filtering in treatment: 22113430 INFO @ Sun, 21 Jun 2020 20:44:44: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:44:44: #1 finished! INFO @ Sun, 21 Jun 2020 20:44:44: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:44:44: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:44:46: #2 number of paired peaks: 4711 INFO @ Sun, 21 Jun 2020 20:44:46: start model_add_line... INFO @ Sun, 21 Jun 2020 20:44:46: 13000000 INFO @ Sun, 21 Jun 2020 20:44:46: start X-correlation... INFO @ Sun, 21 Jun 2020 20:44:46: end of X-cor INFO @ Sun, 21 Jun 2020 20:44:46: #2 finished! INFO @ Sun, 21 Jun 2020 20:44:46: #2 predicted fragment length is 217 bps INFO @ Sun, 21 Jun 2020 20:44:46: #2 alternative fragment length(s) may be 217 bps INFO @ Sun, 21 Jun 2020 20:44:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.05_model.r INFO @ Sun, 21 Jun 2020 20:44:46: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:44:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:44:47: 16000000 INFO @ Sun, 21 Jun 2020 20:44:53: 14000000 INFO @ Sun, 21 Jun 2020 20:44:55: 17000000 INFO @ Sun, 21 Jun 2020 20:45:00: 15000000 INFO @ Sun, 21 Jun 2020 20:45:02: 18000000 INFO @ Sun, 21 Jun 2020 20:45:06: 16000000 INFO @ Sun, 21 Jun 2020 20:45:10: 19000000 INFO @ Sun, 21 Jun 2020 20:45:13: 17000000 INFO @ Sun, 21 Jun 2020 20:45:17: 20000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:45:19: 18000000 INFO @ Sun, 21 Jun 2020 20:45:25: 21000000 INFO @ Sun, 21 Jun 2020 20:45:26: 19000000 INFO @ Sun, 21 Jun 2020 20:45:33: 20000000 INFO @ Sun, 21 Jun 2020 20:45:33: 22000000 INFO @ Sun, 21 Jun 2020 20:45:34: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:45:34: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:45:34: #1 total tags in treatment: 22113507 INFO @ Sun, 21 Jun 2020 20:45:34: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:45:34: #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 20:45:34: #1 tags after filtering in treatment: 22113430 INFO @ Sun, 21 Jun 2020 20:45:34: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:45:34: #1 finished! INFO @ Sun, 21 Jun 2020 20:45:34: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:45:34: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:45:36: #2 number of paired peaks: 4711 INFO @ Sun, 21 Jun 2020 20:45:36: start model_add_line... INFO @ Sun, 21 Jun 2020 20:45:36: start X-correlation... INFO @ Sun, 21 Jun 2020 20:45:36: end of X-cor INFO @ Sun, 21 Jun 2020 20:45:36: #2 finished! INFO @ Sun, 21 Jun 2020 20:45:36: #2 predicted fragment length is 217 bps INFO @ Sun, 21 Jun 2020 20:45:36: #2 alternative fragment length(s) may be 217 bps INFO @ Sun, 21 Jun 2020 20:45:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.10_model.r INFO @ Sun, 21 Jun 2020 20:45:36: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:45:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:45:39: 21000000 INFO @ Sun, 21 Jun 2020 20:45:45: 22000000 INFO @ Sun, 21 Jun 2020 20:45:45: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:45:45: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:45:45: #1 total tags in treatment: 22113507 INFO @ Sun, 21 Jun 2020 20:45:45: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:45:45: #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 20:45:46: #1 tags after filtering in treatment: 22113430 INFO @ Sun, 21 Jun 2020 20:45:46: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:45:46: #1 finished! INFO @ Sun, 21 Jun 2020 20:45:46: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:45:46: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:45:48: #2 number of paired peaks: 4711 INFO @ Sun, 21 Jun 2020 20:45:48: start model_add_line... INFO @ Sun, 21 Jun 2020 20:45:48: start X-correlation... INFO @ Sun, 21 Jun 2020 20:45:48: end of X-cor INFO @ Sun, 21 Jun 2020 20:45:48: #2 finished! INFO @ Sun, 21 Jun 2020 20:45:48: #2 predicted fragment length is 217 bps INFO @ Sun, 21 Jun 2020 20:45:48: #2 alternative fragment length(s) may be 217 bps INFO @ Sun, 21 Jun 2020 20:45:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.20_model.r INFO @ Sun, 21 Jun 2020 20:45:48: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:45:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:45:51: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:46:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:46:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:46:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.05_summits.bed INFO @ Sun, 21 Jun 2020 20:46:16: Done! pass1 - making usageList (295 chroms): 2 millis pass2 - checking and writing primary data (9414 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:46:42: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:46:51: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:47:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:47:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:47:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.10_summits.bed INFO @ Sun, 21 Jun 2020 20:47:08: Done! pass1 - making usageList (225 chroms): 2 millis pass2 - checking and writing primary data (7359 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:47:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:47:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:47:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981727/SRX3981727.20_summits.bed INFO @ Sun, 21 Jun 2020 20:47:16: Done! pass1 - making usageList (177 chroms): 1 millis pass2 - checking and writing primary data (5213 records, 4 fields): 14 millis CompletedMACS2peakCalling