Job ID = 6455881 SRX = SRX3020547 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:20:21 prefetch.2.10.7: 1) Downloading 'SRR5850448'... 2020-06-21T10:20:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:21:05 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:21:05 prefetch.2.10.7: 'SRR5850448' is valid 2020-06-21T10:21:05 prefetch.2.10.7: 1) 'SRR5850448' was downloaded successfully 2020-06-21T10:21:05 prefetch.2.10.7: 'SRR5850448' has 0 unresolved dependencies Read 5127237 spots for SRR5850448/SRR5850448.sra Written 5127237 spots for SRR5850448/SRR5850448.sra 2020-06-21T10:21:33 prefetch.2.10.7: 1) Downloading 'SRR5850449'... 2020-06-21T10:21:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:22:02 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:22:02 prefetch.2.10.7: 'SRR5850449' is valid 2020-06-21T10:22:02 prefetch.2.10.7: 1) 'SRR5850449' was downloaded successfully 2020-06-21T10:22:02 prefetch.2.10.7: 'SRR5850449' has 0 unresolved dependencies Read 5081782 spots for SRR5850449/SRR5850449.sra Written 5081782 spots for SRR5850449/SRR5850449.sra 2020-06-21T10:22:29 prefetch.2.10.7: 1) Downloading 'SRR5850450'... 2020-06-21T10:22:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:23:14 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:23:14 prefetch.2.10.7: 'SRR5850450' is valid 2020-06-21T10:23:14 prefetch.2.10.7: 1) 'SRR5850450' was downloaded successfully 2020-06-21T10:23:14 prefetch.2.10.7: 'SRR5850450' has 0 unresolved dependencies Read 5076028 spots for SRR5850450/SRR5850450.sra Written 5076028 spots for SRR5850450/SRR5850450.sra 2020-06-21T10:23:42 prefetch.2.10.7: 1) Downloading 'SRR5850451'... 2020-06-21T10:23:42 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:24:29 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:24:29 prefetch.2.10.7: 'SRR5850451' is valid 2020-06-21T10:24:29 prefetch.2.10.7: 1) 'SRR5850451' was downloaded successfully 2020-06-21T10:24:29 prefetch.2.10.7: 'SRR5850451' has 0 unresolved dependencies Read 5045893 spots for SRR5850451/SRR5850451.sra Written 5045893 spots for SRR5850451/SRR5850451.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: 00:05:21 20330940 reads; of these: 20330940 (100.00%) were unpaired; of these: 666102 (3.28%) aligned 0 times 14594103 (71.78%) aligned exactly 1 time 5070735 (24.94%) aligned >1 times 96.72% overall alignment rate Time searching: 00:05:21 Overall time: 00:05:21 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] 3770008 / 19664838 = 0.1917 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 19:34:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.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 19:34:38: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:34:38: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:34:43: 1000000 INFO @ Sun, 21 Jun 2020 19:34:49: 2000000 INFO @ Sun, 21 Jun 2020 19:34:54: 3000000 INFO @ Sun, 21 Jun 2020 19:34:59: 4000000 INFO @ Sun, 21 Jun 2020 19:35:05: 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 19:35:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.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 19:35:08: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:35:08: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:35:10: 6000000 INFO @ Sun, 21 Jun 2020 19:35:15: 1000000 INFO @ Sun, 21 Jun 2020 19:35:16: 7000000 INFO @ Sun, 21 Jun 2020 19:35:20: 2000000 INFO @ Sun, 21 Jun 2020 19:35:22: 8000000 INFO @ Sun, 21 Jun 2020 19:35:26: 3000000 INFO @ Sun, 21 Jun 2020 19:35:27: 9000000 INFO @ Sun, 21 Jun 2020 19:35:31: 4000000 INFO @ Sun, 21 Jun 2020 19:35:33: 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 19:35:37: 5000000 INFO @ Sun, 21 Jun 2020 19:35:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.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 19:35:38: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:35:38: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:35:38: 11000000 INFO @ Sun, 21 Jun 2020 19:35:43: 6000000 INFO @ Sun, 21 Jun 2020 19:35:44: 12000000 INFO @ Sun, 21 Jun 2020 19:35:45: 1000000 INFO @ Sun, 21 Jun 2020 19:35:49: 7000000 INFO @ Sun, 21 Jun 2020 19:35:50: 13000000 INFO @ Sun, 21 Jun 2020 19:35:51: 2000000 INFO @ Sun, 21 Jun 2020 19:35:55: 8000000 INFO @ Sun, 21 Jun 2020 19:35:57: 14000000 INFO @ Sun, 21 Jun 2020 19:35:58: 3000000 INFO @ Sun, 21 Jun 2020 19:36:01: 9000000 INFO @ Sun, 21 Jun 2020 19:36:03: 15000000 INFO @ Sun, 21 Jun 2020 19:36:05: 4000000 INFO @ Sun, 21 Jun 2020 19:36:08: 10000000 INFO @ Sun, 21 Jun 2020 19:36:09: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:36:09: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:36:09: #1 total tags in treatment: 15894830 INFO @ Sun, 21 Jun 2020 19:36:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:36:09: #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 19:36:09: #1 tags after filtering in treatment: 15894760 INFO @ Sun, 21 Jun 2020 19:36:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:36:09: #1 finished! INFO @ Sun, 21 Jun 2020 19:36:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:36:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:36:10: #2 number of paired peaks: 2835 INFO @ Sun, 21 Jun 2020 19:36:10: start model_add_line... INFO @ Sun, 21 Jun 2020 19:36:11: start X-correlation... INFO @ Sun, 21 Jun 2020 19:36:11: end of X-cor INFO @ Sun, 21 Jun 2020 19:36:11: #2 finished! INFO @ Sun, 21 Jun 2020 19:36:11: #2 predicted fragment length is 141 bps INFO @ Sun, 21 Jun 2020 19:36:11: #2 alternative fragment length(s) may be 141 bps INFO @ Sun, 21 Jun 2020 19:36:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.05_model.r INFO @ Sun, 21 Jun 2020 19:36:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:36:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:36:12: 5000000 INFO @ Sun, 21 Jun 2020 19:36:14: 11000000 INFO @ Sun, 21 Jun 2020 19:36:18: 6000000 INFO @ Sun, 21 Jun 2020 19:36:20: 12000000 INFO @ Sun, 21 Jun 2020 19:36:25: 7000000 INFO @ Sun, 21 Jun 2020 19:36:26: 13000000 INFO @ Sun, 21 Jun 2020 19:36:32: 8000000 INFO @ Sun, 21 Jun 2020 19:36:33: 14000000 INFO @ Sun, 21 Jun 2020 19:36:39: 9000000 INFO @ Sun, 21 Jun 2020 19:36:39: 15000000 INFO @ Sun, 21 Jun 2020 19:36:44: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:36:44: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:36:44: #1 total tags in treatment: 15894830 INFO @ Sun, 21 Jun 2020 19:36:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:36:44: #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 19:36:45: #1 tags after filtering in treatment: 15894760 INFO @ Sun, 21 Jun 2020 19:36:45: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:36:45: #1 finished! INFO @ Sun, 21 Jun 2020 19:36:45: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:36:45: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:36:45: 10000000 INFO @ Sun, 21 Jun 2020 19:36:46: #2 number of paired peaks: 2835 INFO @ Sun, 21 Jun 2020 19:36:46: start model_add_line... INFO @ Sun, 21 Jun 2020 19:36:46: start X-correlation... INFO @ Sun, 21 Jun 2020 19:36:46: end of X-cor INFO @ Sun, 21 Jun 2020 19:36:46: #2 finished! INFO @ Sun, 21 Jun 2020 19:36:46: #2 predicted fragment length is 141 bps INFO @ Sun, 21 Jun 2020 19:36:46: #2 alternative fragment length(s) may be 141 bps INFO @ Sun, 21 Jun 2020 19:36:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.10_model.r INFO @ Sun, 21 Jun 2020 19:36:46: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:36:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:36:47: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:36:52: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:36:58: 12000000 INFO @ Sun, 21 Jun 2020 19:37:04: 13000000 INFO @ Sun, 21 Jun 2020 19:37:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:37:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:37:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.05_summits.bed INFO @ Sun, 21 Jun 2020 19:37:05: Done! pass1 - making usageList (600 chroms): 2 millis pass2 - checking and writing primary data (8766 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:37:11: 14000000 INFO @ Sun, 21 Jun 2020 19:37:17: 15000000 INFO @ Sun, 21 Jun 2020 19:37:23: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:37:23: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:37:23: #1 total tags in treatment: 15894830 INFO @ Sun, 21 Jun 2020 19:37:23: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:37:23: #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 19:37:23: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:37:23: #1 tags after filtering in treatment: 15894760 INFO @ Sun, 21 Jun 2020 19:37:23: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:37:23: #1 finished! INFO @ Sun, 21 Jun 2020 19:37:23: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:37:23: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:37:24: #2 number of paired peaks: 2835 INFO @ Sun, 21 Jun 2020 19:37:24: start model_add_line... INFO @ Sun, 21 Jun 2020 19:37:25: start X-correlation... INFO @ Sun, 21 Jun 2020 19:37:25: end of X-cor INFO @ Sun, 21 Jun 2020 19:37:25: #2 finished! INFO @ Sun, 21 Jun 2020 19:37:25: #2 predicted fragment length is 141 bps INFO @ Sun, 21 Jun 2020 19:37:25: #2 alternative fragment length(s) may be 141 bps INFO @ Sun, 21 Jun 2020 19:37:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.20_model.r INFO @ Sun, 21 Jun 2020 19:37:25: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:37:25: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:37:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:37:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:37:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.10_summits.bed INFO @ Sun, 21 Jun 2020 19:37:41: Done! pass1 - making usageList (482 chroms): 2 millis pass2 - checking and writing primary data (7360 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:38:02: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:38:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:38:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:38:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020547/SRX3020547.20_summits.bed INFO @ Sun, 21 Jun 2020 19:38:21: Done! pass1 - making usageList (344 chroms): 1 millis pass2 - checking and writing primary data (4979 records, 4 fields): 15 millis CompletedMACS2peakCalling