Job ID = 6454057 SRX = SRX1794241 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:44:32 prefetch.2.10.7: 1) Downloading 'SRR3575285'... 2020-06-21T08:44:32 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:46:27 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:46:28 prefetch.2.10.7: 'SRR3575285' is valid 2020-06-21T08:46:28 prefetch.2.10.7: 1) 'SRR3575285' was downloaded successfully 2020-06-21T08:46:28 prefetch.2.10.7: 'SRR3575285' has 0 unresolved dependencies Read 26112720 spots for SRR3575285/SRR3575285.sra Written 26112720 spots for SRR3575285/SRR3575285.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: 00:06:04 26112720 reads; of these: 26112720 (100.00%) were unpaired; of these: 5288272 (20.25%) aligned 0 times 15845796 (60.68%) aligned exactly 1 time 4978652 (19.07%) aligned >1 times 79.75% overall alignment rate Time searching: 00:06:04 Overall time: 00:06:04 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] 4718904 / 20824448 = 0.2266 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 17:58:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.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 17:58:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:58:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:58:24: 1000000 INFO @ Sun, 21 Jun 2020 17:58:30: 2000000 INFO @ Sun, 21 Jun 2020 17:58:36: 3000000 INFO @ Sun, 21 Jun 2020 17:58:42: 4000000 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 17:58:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.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 17:58:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:58:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:58:48: 5000000 INFO @ Sun, 21 Jun 2020 17:58:54: 1000000 INFO @ Sun, 21 Jun 2020 17:58:55: 6000000 INFO @ Sun, 21 Jun 2020 17:59:00: 2000000 INFO @ Sun, 21 Jun 2020 17:59:01: 7000000 INFO @ Sun, 21 Jun 2020 17:59:06: 3000000 INFO @ Sun, 21 Jun 2020 17:59:07: 8000000 INFO @ Sun, 21 Jun 2020 17:59:12: 4000000 INFO @ Sun, 21 Jun 2020 17:59:14: 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 17:59:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.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 17:59:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:59:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:59:18: 5000000 INFO @ Sun, 21 Jun 2020 17:59:20: 10000000 INFO @ Sun, 21 Jun 2020 17:59:24: 6000000 INFO @ Sun, 21 Jun 2020 17:59:24: 1000000 INFO @ Sun, 21 Jun 2020 17:59:26: 11000000 INFO @ Sun, 21 Jun 2020 17:59:29: 7000000 INFO @ Sun, 21 Jun 2020 17:59:30: 2000000 INFO @ Sun, 21 Jun 2020 17:59:33: 12000000 INFO @ Sun, 21 Jun 2020 17:59:35: 8000000 INFO @ Sun, 21 Jun 2020 17:59:37: 3000000 INFO @ Sun, 21 Jun 2020 17:59:39: 13000000 INFO @ Sun, 21 Jun 2020 17:59:41: 9000000 INFO @ Sun, 21 Jun 2020 17:59:43: 4000000 INFO @ Sun, 21 Jun 2020 17:59:46: 14000000 INFO @ Sun, 21 Jun 2020 17:59:47: 10000000 INFO @ Sun, 21 Jun 2020 17:59:50: 5000000 INFO @ Sun, 21 Jun 2020 17:59:52: 11000000 INFO @ Sun, 21 Jun 2020 17:59:53: 15000000 INFO @ Sun, 21 Jun 2020 17:59:56: 6000000 INFO @ Sun, 21 Jun 2020 17:59:58: 12000000 INFO @ Sun, 21 Jun 2020 17:59:59: 16000000 INFO @ Sun, 21 Jun 2020 18:00:00: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:00:00: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:00:00: #1 total tags in treatment: 16105544 INFO @ Sun, 21 Jun 2020 18:00:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:00:00: #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 18:00:01: #1 tags after filtering in treatment: 16105445 INFO @ Sun, 21 Jun 2020 18:00:01: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:00:01: #1 finished! INFO @ Sun, 21 Jun 2020 18:00:01: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:00:01: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:00:02: #2 number of paired peaks: 5173 INFO @ Sun, 21 Jun 2020 18:00:02: start model_add_line... INFO @ Sun, 21 Jun 2020 18:00:02: start X-correlation... INFO @ Sun, 21 Jun 2020 18:00:02: end of X-cor INFO @ Sun, 21 Jun 2020 18:00:02: #2 finished! INFO @ Sun, 21 Jun 2020 18:00:02: #2 predicted fragment length is 158 bps INFO @ Sun, 21 Jun 2020 18:00:02: #2 alternative fragment length(s) may be 4,158 bps INFO @ Sun, 21 Jun 2020 18:00:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.05_model.r INFO @ Sun, 21 Jun 2020 18:00:02: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:00:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:00:03: 7000000 INFO @ Sun, 21 Jun 2020 18:00:04: 13000000 INFO @ Sun, 21 Jun 2020 18:00:09: 8000000 INFO @ Sun, 21 Jun 2020 18:00:10: 14000000 INFO @ Sun, 21 Jun 2020 18:00:15: 9000000 INFO @ Sun, 21 Jun 2020 18:00:16: 15000000 INFO @ Sun, 21 Jun 2020 18:00:22: 10000000 INFO @ Sun, 21 Jun 2020 18:00:22: 16000000 INFO @ Sun, 21 Jun 2020 18:00:22: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:00:22: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:00:22: #1 total tags in treatment: 16105544 INFO @ Sun, 21 Jun 2020 18:00:22: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:00:22: #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 18:00:23: #1 tags after filtering in treatment: 16105445 INFO @ Sun, 21 Jun 2020 18:00:23: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:00:23: #1 finished! INFO @ Sun, 21 Jun 2020 18:00:23: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:00:23: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:00:24: #2 number of paired peaks: 5173 INFO @ Sun, 21 Jun 2020 18:00:24: start model_add_line... INFO @ Sun, 21 Jun 2020 18:00:25: start X-correlation... INFO @ Sun, 21 Jun 2020 18:00:25: end of X-cor INFO @ Sun, 21 Jun 2020 18:00:25: #2 finished! INFO @ Sun, 21 Jun 2020 18:00:25: #2 predicted fragment length is 158 bps INFO @ Sun, 21 Jun 2020 18:00:25: #2 alternative fragment length(s) may be 4,158 bps INFO @ Sun, 21 Jun 2020 18:00:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.10_model.r INFO @ Sun, 21 Jun 2020 18:00:25: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:00:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:00:28: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:00:33: 12000000 INFO @ Sun, 21 Jun 2020 18:00:39: 13000000 INFO @ Sun, 21 Jun 2020 18:00:43: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:00:46: 14000000 INFO @ Sun, 21 Jun 2020 18:00:51: 15000000 INFO @ Sun, 21 Jun 2020 18:00:57: 16000000 INFO @ Sun, 21 Jun 2020 18:00:58: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:00:58: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:00:58: #1 total tags in treatment: 16105544 INFO @ Sun, 21 Jun 2020 18:00:58: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:00:58: #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 18:00:59: #1 tags after filtering in treatment: 16105445 INFO @ Sun, 21 Jun 2020 18:00:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:00:59: #1 finished! INFO @ Sun, 21 Jun 2020 18:00:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:00:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:01:00: #2 number of paired peaks: 5173 INFO @ Sun, 21 Jun 2020 18:01:00: start model_add_line... INFO @ Sun, 21 Jun 2020 18:01:00: start X-correlation... INFO @ Sun, 21 Jun 2020 18:01:00: end of X-cor INFO @ Sun, 21 Jun 2020 18:01:00: #2 finished! INFO @ Sun, 21 Jun 2020 18:01:00: #2 predicted fragment length is 158 bps INFO @ Sun, 21 Jun 2020 18:01:00: #2 alternative fragment length(s) may be 4,158 bps INFO @ Sun, 21 Jun 2020 18:01:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.20_model.r INFO @ Sun, 21 Jun 2020 18:01:00: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:01:00: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:01:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:01:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:01:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.05_summits.bed INFO @ Sun, 21 Jun 2020 18:01:03: Done! pass1 - making usageList (515 chroms): 2 millis pass2 - checking and writing primary data (12264 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:01:04: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:01:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:01:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:01:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.10_summits.bed INFO @ Sun, 21 Jun 2020 18:01:22: Done! pass1 - making usageList (394 chroms): 2 millis pass2 - checking and writing primary data (9137 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:01:41: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:01:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:02:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:02:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1794241/SRX1794241.20_summits.bed INFO @ Sun, 21 Jun 2020 18:02:00: Done! pass1 - making usageList (226 chroms): 1 millis pass2 - checking and writing primary data (5163 records, 4 fields): 12 millis CompletedMACS2peakCalling