Job ID = 14170459 SRX = SRX11760561 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2021-12-10T21:49:06 prefetch.2.10.7: 1) Downloading 'SRR15461249'... 2021-12-10T21:49:06 prefetch.2.10.7: Downloading via HTTPS... 2021-12-10T21:50:22 prefetch.2.10.7: HTTPS download succeed 2021-12-10T21:50:22 prefetch.2.10.7: 1) 'SRR15461249' was downloaded successfully 2021-12-10T21:50:22 prefetch.2.10.7: 'SRR15461249' has 0 unresolved dependencies Read 45343176 spots for SRR15461249/SRR15461249.sra Written 45343176 spots for SRR15461249/SRR15461249.sra fastq に変換しました。 bowtie でマッピング中... Your job 14170994 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:31:53 45343176 reads; of these: 45343176 (100.00%) were paired; of these: 13508588 (29.79%) aligned concordantly 0 times 16000023 (35.29%) aligned concordantly exactly 1 time 15834565 (34.92%) aligned concordantly >1 times ---- 13508588 pairs aligned concordantly 0 times; of these: 41698 (0.31%) aligned discordantly 1 time ---- 13466890 pairs aligned 0 times concordantly or discordantly; of these: 26933780 mates make up the pairs; of these: 16062343 (59.64%) aligned 0 times 7185388 (26.68%) aligned exactly 1 time 3686049 (13.69%) aligned >1 times 82.29% overall alignment rate Time searching: 00:31:53 Overall time: 00:31:53 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 24 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 22169985 / 31650264 = 0.7005 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:37:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.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 @ Sat, 11 Dec 2021 07:37:25: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:37:25: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:37:29: 1000000 INFO @ Sat, 11 Dec 2021 07:37:33: 2000000 INFO @ Sat, 11 Dec 2021 07:37:37: 3000000 INFO @ Sat, 11 Dec 2021 07:37:42: 4000000 INFO @ Sat, 11 Dec 2021 07:37:46: 5000000 INFO @ Sat, 11 Dec 2021 07:37:50: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:37:54: 7000000 INFO @ Sat, 11 Dec 2021 07:37:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.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 @ Sat, 11 Dec 2021 07:37:55: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:37:55: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:37:59: 8000000 INFO @ Sat, 11 Dec 2021 07:37:59: 1000000 INFO @ Sat, 11 Dec 2021 07:38:04: 9000000 INFO @ Sat, 11 Dec 2021 07:38:04: 2000000 INFO @ Sat, 11 Dec 2021 07:38:09: 10000000 INFO @ Sat, 11 Dec 2021 07:38:09: 3000000 INFO @ Sat, 11 Dec 2021 07:38:13: 11000000 INFO @ Sat, 11 Dec 2021 07:38:14: 4000000 INFO @ Sat, 11 Dec 2021 07:38:18: 12000000 INFO @ Sat, 11 Dec 2021 07:38:19: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:38:23: 13000000 INFO @ Sat, 11 Dec 2021 07:38:23: 6000000 INFO @ Sat, 11 Dec 2021 07:38:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.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 @ Sat, 11 Dec 2021 07:38:25: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:38:25: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:38:28: 14000000 INFO @ Sat, 11 Dec 2021 07:38:28: 7000000 INFO @ Sat, 11 Dec 2021 07:38:29: 1000000 INFO @ Sat, 11 Dec 2021 07:38:33: 15000000 INFO @ Sat, 11 Dec 2021 07:38:33: 8000000 INFO @ Sat, 11 Dec 2021 07:38:34: 2000000 INFO @ Sat, 11 Dec 2021 07:38:37: 16000000 INFO @ Sat, 11 Dec 2021 07:38:38: 9000000 INFO @ Sat, 11 Dec 2021 07:38:39: 3000000 INFO @ Sat, 11 Dec 2021 07:38:42: 17000000 INFO @ Sat, 11 Dec 2021 07:38:43: 10000000 INFO @ Sat, 11 Dec 2021 07:38:44: 4000000 INFO @ Sat, 11 Dec 2021 07:38:47: 18000000 INFO @ Sat, 11 Dec 2021 07:38:48: 11000000 INFO @ Sat, 11 Dec 2021 07:38:49: 5000000 INFO @ Sat, 11 Dec 2021 07:38:52: 19000000 INFO @ Sat, 11 Dec 2021 07:38:52: 12000000 INFO @ Sat, 11 Dec 2021 07:38:54: 6000000 INFO @ Sat, 11 Dec 2021 07:38:56: 20000000 INFO @ Sat, 11 Dec 2021 07:38:57: 13000000 INFO @ Sat, 11 Dec 2021 07:38:59: 7000000 INFO @ Sat, 11 Dec 2021 07:39:01: 21000000 INFO @ Sat, 11 Dec 2021 07:39:02: 14000000 INFO @ Sat, 11 Dec 2021 07:39:04: 8000000 INFO @ Sat, 11 Dec 2021 07:39:05: 22000000 INFO @ Sat, 11 Dec 2021 07:39:07: 15000000 INFO @ Sat, 11 Dec 2021 07:39:08: 9000000 INFO @ Sat, 11 Dec 2021 07:39:10: 23000000 INFO @ Sat, 11 Dec 2021 07:39:11: 16000000 INFO @ Sat, 11 Dec 2021 07:39:13: 10000000 INFO @ Sat, 11 Dec 2021 07:39:15: 24000000 INFO @ Sat, 11 Dec 2021 07:39:16: 17000000 INFO @ Sat, 11 Dec 2021 07:39:18: 11000000 INFO @ Sat, 11 Dec 2021 07:39:20: 25000000 INFO @ Sat, 11 Dec 2021 07:39:21: 18000000 INFO @ Sat, 11 Dec 2021 07:39:23: 12000000 INFO @ Sat, 11 Dec 2021 07:39:25: 26000000 INFO @ Sat, 11 Dec 2021 07:39:26: 19000000 INFO @ Sat, 11 Dec 2021 07:39:28: 13000000 INFO @ Sat, 11 Dec 2021 07:39:30: 27000000 INFO @ Sat, 11 Dec 2021 07:39:30: 20000000 INFO @ Sat, 11 Dec 2021 07:39:33: 14000000 INFO @ Sat, 11 Dec 2021 07:39:35: 28000000 INFO @ Sat, 11 Dec 2021 07:39:35: 21000000 INFO @ Sat, 11 Dec 2021 07:39:38: 15000000 INFO @ Sat, 11 Dec 2021 07:39:40: 29000000 INFO @ Sat, 11 Dec 2021 07:39:40: 22000000 INFO @ Sat, 11 Dec 2021 07:39:43: 16000000 INFO @ Sat, 11 Dec 2021 07:39:44: 23000000 INFO @ Sat, 11 Dec 2021 07:39:44: 30000000 INFO @ Sat, 11 Dec 2021 07:39:46: #1 tag size is determined as 36 bps INFO @ Sat, 11 Dec 2021 07:39:46: #1 tag size = 36 INFO @ Sat, 11 Dec 2021 07:39:46: #1 total tags in treatment: 9673510 INFO @ Sat, 11 Dec 2021 07:39:46: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:39:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:39:46: #1 tags after filtering in treatment: 7098599 INFO @ Sat, 11 Dec 2021 07:39:46: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 11 Dec 2021 07:39:46: #1 finished! INFO @ Sat, 11 Dec 2021 07:39:46: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:39:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:39:47: #2 number of paired peaks: 1308 INFO @ Sat, 11 Dec 2021 07:39:47: start model_add_line... INFO @ Sat, 11 Dec 2021 07:39:47: start X-correlation... INFO @ Sat, 11 Dec 2021 07:39:47: end of X-cor INFO @ Sat, 11 Dec 2021 07:39:47: #2 finished! INFO @ Sat, 11 Dec 2021 07:39:47: #2 predicted fragment length is 76 bps INFO @ Sat, 11 Dec 2021 07:39:47: #2 alternative fragment length(s) may be 76 bps INFO @ Sat, 11 Dec 2021 07:39:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.05_model.r INFO @ Sat, 11 Dec 2021 07:39:47: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:39:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:39:47: 17000000 INFO @ Sat, 11 Dec 2021 07:39:49: 24000000 INFO @ Sat, 11 Dec 2021 07:39:52: 18000000 INFO @ Sat, 11 Dec 2021 07:39:54: 25000000 INFO @ Sat, 11 Dec 2021 07:39:57: 19000000 INFO @ Sat, 11 Dec 2021 07:39:59: 26000000 INFO @ Sat, 11 Dec 2021 07:40:01: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:40:01: 20000000 INFO @ Sat, 11 Dec 2021 07:40:04: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 07:40:06: 21000000 INFO @ Sat, 11 Dec 2021 07:40:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.05_peaks.xls INFO @ Sat, 11 Dec 2021 07:40:09: 28000000 INFO @ Sat, 11 Dec 2021 07:40:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:40:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.05_summits.bed INFO @ Sat, 11 Dec 2021 07:40:09: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (10876 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:40:11: 22000000 INFO @ Sat, 11 Dec 2021 07:40:13: 29000000 INFO @ Sat, 11 Dec 2021 07:40:15: 23000000 INFO @ Sat, 11 Dec 2021 07:40:18: 30000000 INFO @ Sat, 11 Dec 2021 07:40:19: #1 tag size is determined as 36 bps INFO @ Sat, 11 Dec 2021 07:40:19: #1 tag size = 36 INFO @ Sat, 11 Dec 2021 07:40:19: #1 total tags in treatment: 9673510 INFO @ Sat, 11 Dec 2021 07:40:19: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:40:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:40:20: #1 tags after filtering in treatment: 7098599 INFO @ Sat, 11 Dec 2021 07:40:20: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 11 Dec 2021 07:40:20: #1 finished! INFO @ Sat, 11 Dec 2021 07:40:20: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:40:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:40:20: 24000000 INFO @ Sat, 11 Dec 2021 07:40:20: #2 number of paired peaks: 1308 INFO @ Sat, 11 Dec 2021 07:40:20: start model_add_line... INFO @ Sat, 11 Dec 2021 07:40:20: start X-correlation... INFO @ Sat, 11 Dec 2021 07:40:20: end of X-cor INFO @ Sat, 11 Dec 2021 07:40:20: #2 finished! INFO @ Sat, 11 Dec 2021 07:40:20: #2 predicted fragment length is 76 bps INFO @ Sat, 11 Dec 2021 07:40:20: #2 alternative fragment length(s) may be 76 bps INFO @ Sat, 11 Dec 2021 07:40:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.10_model.r INFO @ Sat, 11 Dec 2021 07:40:20: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:40:20: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:40:25: 25000000 INFO @ Sat, 11 Dec 2021 07:40:30: 26000000 INFO @ Sat, 11 Dec 2021 07:40:34: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:40:34: 27000000 INFO @ Sat, 11 Dec 2021 07:40:39: 28000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 07:40:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.10_peaks.xls INFO @ Sat, 11 Dec 2021 07:40:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:40:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.10_summits.bed INFO @ Sat, 11 Dec 2021 07:40:42: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4447 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:40:43: 29000000 INFO @ Sat, 11 Dec 2021 07:40:48: 30000000 INFO @ Sat, 11 Dec 2021 07:40:49: #1 tag size is determined as 36 bps INFO @ Sat, 11 Dec 2021 07:40:49: #1 tag size = 36 INFO @ Sat, 11 Dec 2021 07:40:49: #1 total tags in treatment: 9673510 INFO @ Sat, 11 Dec 2021 07:40:49: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:40:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:40:49: #1 tags after filtering in treatment: 7098599 INFO @ Sat, 11 Dec 2021 07:40:49: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 11 Dec 2021 07:40:49: #1 finished! INFO @ Sat, 11 Dec 2021 07:40:49: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:40:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:40:50: #2 number of paired peaks: 1308 INFO @ Sat, 11 Dec 2021 07:40:50: start model_add_line... INFO @ Sat, 11 Dec 2021 07:40:50: start X-correlation... INFO @ Sat, 11 Dec 2021 07:40:50: end of X-cor INFO @ Sat, 11 Dec 2021 07:40:50: #2 finished! INFO @ Sat, 11 Dec 2021 07:40:50: #2 predicted fragment length is 76 bps INFO @ Sat, 11 Dec 2021 07:40:50: #2 alternative fragment length(s) may be 76 bps INFO @ Sat, 11 Dec 2021 07:40:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.20_model.r INFO @ Sat, 11 Dec 2021 07:40:50: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:40:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:41:04: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:41:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.20_peaks.xls INFO @ Sat, 11 Dec 2021 07:41:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:41:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX11760561/SRX11760561.20_summits.bed INFO @ Sat, 11 Dec 2021 07:41:11: Done! pass1 - making usageList (12 chroms): 1 millis pass2 - checking and writing primary data (795 records, 4 fields): 3 millis CompletedMACS2peakCalling