Job ID = 14168297 SRX = SRX7175266 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 30934216 spots for SRR10485706/SRR10485706.sra Written 30934216 spots for SRR10485706/SRR10485706.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169517 ("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: 01:01:20 30934216 reads; of these: 30934216 (100.00%) were paired; of these: 3770697 (12.19%) aligned concordantly 0 times 21409801 (69.21%) aligned concordantly exactly 1 time 5753718 (18.60%) aligned concordantly >1 times ---- 3770697 pairs aligned concordantly 0 times; of these: 184793 (4.90%) aligned discordantly 1 time ---- 3585904 pairs aligned 0 times concordantly or discordantly; of these: 7171808 mates make up the pairs; of these: 5634511 (78.56%) aligned 0 times 877314 (12.23%) aligned exactly 1 time 659983 (9.20%) aligned >1 times 90.89% overall alignment rate Time searching: 01:01:20 Overall time: 01:01:20 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] 5397348 / 27294750 = 0.1977 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 @ Fri, 10 Dec 2021 18:20:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.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 @ Fri, 10 Dec 2021 18:20:28: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:20:28: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:20:33: 1000000 INFO @ Fri, 10 Dec 2021 18:20:38: 2000000 INFO @ Fri, 10 Dec 2021 18:20:44: 3000000 INFO @ Fri, 10 Dec 2021 18:20:49: 4000000 INFO @ Fri, 10 Dec 2021 18:20:55: 5000000 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 @ Fri, 10 Dec 2021 18:20:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.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 @ Fri, 10 Dec 2021 18:20:58: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:20:58: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:21:00: 6000000 INFO @ Fri, 10 Dec 2021 18:21:04: 1000000 INFO @ Fri, 10 Dec 2021 18:21:06: 7000000 INFO @ Fri, 10 Dec 2021 18:21:10: 2000000 INFO @ Fri, 10 Dec 2021 18:21:12: 8000000 INFO @ Fri, 10 Dec 2021 18:21:16: 3000000 INFO @ Fri, 10 Dec 2021 18:21:18: 9000000 INFO @ Fri, 10 Dec 2021 18:21:22: 4000000 INFO @ Fri, 10 Dec 2021 18:21:24: 10000000 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 @ Fri, 10 Dec 2021 18:21:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.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 @ Fri, 10 Dec 2021 18:21:28: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:21:28: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:21:28: 5000000 INFO @ Fri, 10 Dec 2021 18:21:30: 11000000 INFO @ Fri, 10 Dec 2021 18:21:34: 1000000 INFO @ Fri, 10 Dec 2021 18:21:34: 6000000 INFO @ Fri, 10 Dec 2021 18:21:36: 12000000 INFO @ Fri, 10 Dec 2021 18:21:40: 2000000 INFO @ Fri, 10 Dec 2021 18:21:40: 7000000 INFO @ Fri, 10 Dec 2021 18:21:42: 13000000 INFO @ Fri, 10 Dec 2021 18:21:46: 3000000 INFO @ Fri, 10 Dec 2021 18:21:46: 8000000 INFO @ Fri, 10 Dec 2021 18:21:48: 14000000 INFO @ Fri, 10 Dec 2021 18:21:52: 4000000 INFO @ Fri, 10 Dec 2021 18:21:53: 9000000 INFO @ Fri, 10 Dec 2021 18:21:54: 15000000 INFO @ Fri, 10 Dec 2021 18:21:58: 5000000 INFO @ Fri, 10 Dec 2021 18:21:59: 10000000 INFO @ Fri, 10 Dec 2021 18:22:00: 16000000 INFO @ Fri, 10 Dec 2021 18:22:05: 6000000 INFO @ Fri, 10 Dec 2021 18:22:05: 11000000 INFO @ Fri, 10 Dec 2021 18:22:06: 17000000 INFO @ Fri, 10 Dec 2021 18:22:11: 7000000 INFO @ Fri, 10 Dec 2021 18:22:12: 12000000 INFO @ Fri, 10 Dec 2021 18:22:13: 18000000 INFO @ Fri, 10 Dec 2021 18:22:17: 8000000 INFO @ Fri, 10 Dec 2021 18:22:18: 13000000 INFO @ Fri, 10 Dec 2021 18:22:18: 19000000 INFO @ Fri, 10 Dec 2021 18:22:23: 9000000 INFO @ Fri, 10 Dec 2021 18:22:24: 14000000 INFO @ Fri, 10 Dec 2021 18:22:24: 20000000 INFO @ Fri, 10 Dec 2021 18:22:29: 10000000 INFO @ Fri, 10 Dec 2021 18:22:30: 15000000 INFO @ Fri, 10 Dec 2021 18:22:31: 21000000 INFO @ Fri, 10 Dec 2021 18:22:35: 11000000 INFO @ Fri, 10 Dec 2021 18:22:36: 16000000 INFO @ Fri, 10 Dec 2021 18:22:37: 22000000 INFO @ Fri, 10 Dec 2021 18:22:41: 12000000 INFO @ Fri, 10 Dec 2021 18:22:42: 17000000 INFO @ Fri, 10 Dec 2021 18:22:43: 23000000 INFO @ Fri, 10 Dec 2021 18:22:47: 13000000 INFO @ Fri, 10 Dec 2021 18:22:48: 18000000 INFO @ Fri, 10 Dec 2021 18:22:49: 24000000 INFO @ Fri, 10 Dec 2021 18:22:53: 14000000 INFO @ Fri, 10 Dec 2021 18:22:55: 19000000 INFO @ Fri, 10 Dec 2021 18:22:55: 25000000 INFO @ Fri, 10 Dec 2021 18:23:00: 15000000 INFO @ Fri, 10 Dec 2021 18:23:01: 20000000 INFO @ Fri, 10 Dec 2021 18:23:01: 26000000 INFO @ Fri, 10 Dec 2021 18:23:06: 16000000 INFO @ Fri, 10 Dec 2021 18:23:07: 21000000 INFO @ Fri, 10 Dec 2021 18:23:08: 27000000 INFO @ Fri, 10 Dec 2021 18:23:12: 17000000 INFO @ Fri, 10 Dec 2021 18:23:13: 22000000 INFO @ Fri, 10 Dec 2021 18:23:14: 28000000 INFO @ Fri, 10 Dec 2021 18:23:18: 18000000 INFO @ Fri, 10 Dec 2021 18:23:19: 23000000 INFO @ Fri, 10 Dec 2021 18:23:20: 29000000 INFO @ Fri, 10 Dec 2021 18:23:24: 19000000 INFO @ Fri, 10 Dec 2021 18:23:25: 24000000 INFO @ Fri, 10 Dec 2021 18:23:26: 30000000 INFO @ Fri, 10 Dec 2021 18:23:30: 20000000 INFO @ Fri, 10 Dec 2021 18:23:31: 25000000 INFO @ Fri, 10 Dec 2021 18:23:32: 31000000 INFO @ Fri, 10 Dec 2021 18:23:36: 21000000 INFO @ Fri, 10 Dec 2021 18:23:37: 26000000 INFO @ Fri, 10 Dec 2021 18:23:38: 32000000 INFO @ Fri, 10 Dec 2021 18:23:42: 22000000 INFO @ Fri, 10 Dec 2021 18:23:43: 27000000 INFO @ Fri, 10 Dec 2021 18:23:44: 33000000 INFO @ Fri, 10 Dec 2021 18:23:48: 23000000 INFO @ Fri, 10 Dec 2021 18:23:50: 28000000 INFO @ Fri, 10 Dec 2021 18:23:50: 34000000 INFO @ Fri, 10 Dec 2021 18:23:54: 24000000 INFO @ Fri, 10 Dec 2021 18:23:56: 29000000 INFO @ Fri, 10 Dec 2021 18:23:56: 35000000 INFO @ Fri, 10 Dec 2021 18:24:00: 25000000 INFO @ Fri, 10 Dec 2021 18:24:02: 30000000 INFO @ Fri, 10 Dec 2021 18:24:02: 36000000 INFO @ Fri, 10 Dec 2021 18:24:06: 26000000 INFO @ Fri, 10 Dec 2021 18:24:08: 31000000 INFO @ Fri, 10 Dec 2021 18:24:08: 37000000 INFO @ Fri, 10 Dec 2021 18:24:12: 27000000 INFO @ Fri, 10 Dec 2021 18:24:14: 38000000 INFO @ Fri, 10 Dec 2021 18:24:14: 32000000 INFO @ Fri, 10 Dec 2021 18:24:18: 28000000 INFO @ Fri, 10 Dec 2021 18:24:20: 39000000 INFO @ Fri, 10 Dec 2021 18:24:21: 33000000 INFO @ Fri, 10 Dec 2021 18:24:25: 29000000 INFO @ Fri, 10 Dec 2021 18:24:27: 40000000 INFO @ Fri, 10 Dec 2021 18:24:27: 34000000 INFO @ Fri, 10 Dec 2021 18:24:31: 30000000 INFO @ Fri, 10 Dec 2021 18:24:32: 41000000 INFO @ Fri, 10 Dec 2021 18:24:33: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 18:24:37: 31000000 INFO @ Fri, 10 Dec 2021 18:24:38: 42000000 INFO @ Fri, 10 Dec 2021 18:24:39: 36000000 INFO @ Fri, 10 Dec 2021 18:24:43: 32000000 INFO @ Fri, 10 Dec 2021 18:24:44: 43000000 INFO @ Fri, 10 Dec 2021 18:24:46: 37000000 INFO @ Fri, 10 Dec 2021 18:24:49: 33000000 INFO @ Fri, 10 Dec 2021 18:24:50: 44000000 INFO @ Fri, 10 Dec 2021 18:24:52: 38000000 INFO @ Fri, 10 Dec 2021 18:24:55: 34000000 INFO @ Fri, 10 Dec 2021 18:24:56: 45000000 INFO @ Fri, 10 Dec 2021 18:24:58: 39000000 INFO @ Fri, 10 Dec 2021 18:24:59: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 18:24:59: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 18:24:59: #1 total tags in treatment: 21778933 INFO @ Fri, 10 Dec 2021 18:24:59: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 18:24:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 18:25:00: #1 tags after filtering in treatment: 19169682 INFO @ Fri, 10 Dec 2021 18:25:00: #1 Redundant rate of treatment: 0.12 INFO @ Fri, 10 Dec 2021 18:25:00: #1 finished! INFO @ Fri, 10 Dec 2021 18:25:00: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 18:25:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 18:25:01: #2 number of paired peaks: 1486 INFO @ Fri, 10 Dec 2021 18:25:01: start model_add_line... INFO @ Fri, 10 Dec 2021 18:25:01: start X-correlation... INFO @ Fri, 10 Dec 2021 18:25:01: end of X-cor INFO @ Fri, 10 Dec 2021 18:25:01: #2 finished! INFO @ Fri, 10 Dec 2021 18:25:01: #2 predicted fragment length is 197 bps INFO @ Fri, 10 Dec 2021 18:25:01: #2 alternative fragment length(s) may be 197 bps INFO @ Fri, 10 Dec 2021 18:25:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.05_model.r INFO @ Fri, 10 Dec 2021 18:25:01: #3 Call peaks... INFO @ Fri, 10 Dec 2021 18:25:01: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 18:25:01: 35000000 INFO @ Fri, 10 Dec 2021 18:25:04: 40000000 INFO @ Fri, 10 Dec 2021 18:25:07: 36000000 INFO @ Fri, 10 Dec 2021 18:25:11: 41000000 INFO @ Fri, 10 Dec 2021 18:25:14: 37000000 INFO @ Fri, 10 Dec 2021 18:25:17: 42000000 INFO @ Fri, 10 Dec 2021 18:25:20: 38000000 INFO @ Fri, 10 Dec 2021 18:25:23: 43000000 INFO @ Fri, 10 Dec 2021 18:25:26: 39000000 INFO @ Fri, 10 Dec 2021 18:25:29: 44000000 INFO @ Fri, 10 Dec 2021 18:25:32: 40000000 INFO @ Fri, 10 Dec 2021 18:25:35: 45000000 INFO @ Fri, 10 Dec 2021 18:25:38: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 18:25:38: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 18:25:38: #1 total tags in treatment: 21778933 INFO @ Fri, 10 Dec 2021 18:25:38: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 18:25:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 18:25:38: 41000000 INFO @ Fri, 10 Dec 2021 18:25:39: #1 tags after filtering in treatment: 19169682 INFO @ Fri, 10 Dec 2021 18:25:39: #1 Redundant rate of treatment: 0.12 INFO @ Fri, 10 Dec 2021 18:25:39: #1 finished! INFO @ Fri, 10 Dec 2021 18:25:39: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 18:25:39: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 18:25:40: #2 number of paired peaks: 1486 INFO @ Fri, 10 Dec 2021 18:25:40: start model_add_line... INFO @ Fri, 10 Dec 2021 18:25:40: start X-correlation... INFO @ Fri, 10 Dec 2021 18:25:40: end of X-cor INFO @ Fri, 10 Dec 2021 18:25:40: #2 finished! INFO @ Fri, 10 Dec 2021 18:25:40: #2 predicted fragment length is 197 bps INFO @ Fri, 10 Dec 2021 18:25:40: #2 alternative fragment length(s) may be 197 bps INFO @ Fri, 10 Dec 2021 18:25:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.10_model.r INFO @ Fri, 10 Dec 2021 18:25:40: #3 Call peaks... INFO @ Fri, 10 Dec 2021 18:25:40: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 18:25:44: 42000000 INFO @ Fri, 10 Dec 2021 18:25:46: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 18:25:49: 43000000 INFO @ Fri, 10 Dec 2021 18:25:55: 44000000 INFO @ Fri, 10 Dec 2021 18:26:00: 45000000 INFO @ Fri, 10 Dec 2021 18:26:03: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 18:26:03: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 18:26:03: #1 total tags in treatment: 21778933 INFO @ Fri, 10 Dec 2021 18:26:03: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 18:26:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 18:26:03: #1 tags after filtering in treatment: 19169682 INFO @ Fri, 10 Dec 2021 18:26:03: #1 Redundant rate of treatment: 0.12 INFO @ Fri, 10 Dec 2021 18:26:03: #1 finished! INFO @ Fri, 10 Dec 2021 18:26:03: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 18:26:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 18:26:04: #2 number of paired peaks: 1486 INFO @ Fri, 10 Dec 2021 18:26:04: start model_add_line... INFO @ Fri, 10 Dec 2021 18:26:05: start X-correlation... INFO @ Fri, 10 Dec 2021 18:26:05: end of X-cor INFO @ Fri, 10 Dec 2021 18:26:05: #2 finished! INFO @ Fri, 10 Dec 2021 18:26:05: #2 predicted fragment length is 197 bps INFO @ Fri, 10 Dec 2021 18:26:05: #2 alternative fragment length(s) may be 197 bps INFO @ Fri, 10 Dec 2021 18:26:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.20_model.r INFO @ Fri, 10 Dec 2021 18:26:05: #3 Call peaks... INFO @ Fri, 10 Dec 2021 18:26:05: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 18:26:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.05_peaks.xls INFO @ Fri, 10 Dec 2021 18:26:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 18:26:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.05_summits.bed INFO @ Fri, 10 Dec 2021 18:26:06: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6111 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 18:26:24: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 18:26:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.10_peaks.xls INFO @ Fri, 10 Dec 2021 18:26:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 18:26:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.10_summits.bed INFO @ Fri, 10 Dec 2021 18:26:45: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4023 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 18:26:50: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 18:27:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.20_peaks.xls INFO @ Fri, 10 Dec 2021 18:27:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 18:27:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175266/SRX7175266.20_summits.bed INFO @ Fri, 10 Dec 2021 18:27:10: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2399 records, 4 fields): 4 millis CompletedMACS2peakCalling