Job ID = 14172133 SRX = SRX7628917 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 18639508 spots for SRR10963279/SRR10963279.sra Written 18639508 spots for SRR10963279/SRR10963279.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172723 ("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: 00:35:34 18639508 reads; of these: 18639508 (100.00%) were paired; of these: 851502 (4.57%) aligned concordantly 0 times 11676781 (62.65%) aligned concordantly exactly 1 time 6111225 (32.79%) aligned concordantly >1 times ---- 851502 pairs aligned concordantly 0 times; of these: 80639 (9.47%) aligned discordantly 1 time ---- 770863 pairs aligned 0 times concordantly or discordantly; of these: 1541726 mates make up the pairs; of these: 762869 (49.48%) aligned 0 times 443013 (28.73%) aligned exactly 1 time 335844 (21.78%) aligned >1 times 97.95% overall alignment rate Time searching: 00:35:34 Overall time: 00:35:34 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 16 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] 1426245 / 17817246 = 0.0800 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 15:09:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.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 15:09:13: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:09:13: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:09:18: 1000000 INFO @ Sat, 11 Dec 2021 15:09:23: 2000000 INFO @ Sat, 11 Dec 2021 15:09:27: 3000000 INFO @ Sat, 11 Dec 2021 15:09:32: 4000000 INFO @ Sat, 11 Dec 2021 15:09:37: 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 @ Sat, 11 Dec 2021 15:09:42: 6000000 INFO @ Sat, 11 Dec 2021 15:09:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.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 15:09:42: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:09:42: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:09:48: 7000000 INFO @ Sat, 11 Dec 2021 15:09:48: 1000000 INFO @ Sat, 11 Dec 2021 15:09:54: 8000000 INFO @ Sat, 11 Dec 2021 15:09:54: 2000000 INFO @ Sat, 11 Dec 2021 15:10:00: 9000000 INFO @ Sat, 11 Dec 2021 15:10:00: 3000000 INFO @ Sat, 11 Dec 2021 15:10:06: 10000000 INFO @ Sat, 11 Dec 2021 15:10:06: 4000000 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 15:10:11: 11000000 INFO @ Sat, 11 Dec 2021 15:10:12: 5000000 INFO @ Sat, 11 Dec 2021 15:10:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.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 15:10:13: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:10:13: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:10:17: 12000000 INFO @ Sat, 11 Dec 2021 15:10:17: 6000000 INFO @ Sat, 11 Dec 2021 15:10:18: 1000000 INFO @ Sat, 11 Dec 2021 15:10:23: 13000000 INFO @ Sat, 11 Dec 2021 15:10:23: 7000000 INFO @ Sat, 11 Dec 2021 15:10:24: 2000000 INFO @ Sat, 11 Dec 2021 15:10:29: 8000000 INFO @ Sat, 11 Dec 2021 15:10:29: 14000000 INFO @ Sat, 11 Dec 2021 15:10:30: 3000000 INFO @ Sat, 11 Dec 2021 15:10:35: 9000000 INFO @ Sat, 11 Dec 2021 15:10:35: 15000000 INFO @ Sat, 11 Dec 2021 15:10:36: 4000000 INFO @ Sat, 11 Dec 2021 15:10:41: 10000000 INFO @ Sat, 11 Dec 2021 15:10:41: 16000000 INFO @ Sat, 11 Dec 2021 15:10:42: 5000000 INFO @ Sat, 11 Dec 2021 15:10:47: 11000000 INFO @ Sat, 11 Dec 2021 15:10:47: 17000000 INFO @ Sat, 11 Dec 2021 15:10:48: 6000000 INFO @ Sat, 11 Dec 2021 15:10:52: 12000000 INFO @ Sat, 11 Dec 2021 15:10:53: 18000000 INFO @ Sat, 11 Dec 2021 15:10:53: 7000000 INFO @ Sat, 11 Dec 2021 15:10:58: 13000000 INFO @ Sat, 11 Dec 2021 15:10:58: 19000000 INFO @ Sat, 11 Dec 2021 15:10:59: 8000000 INFO @ Sat, 11 Dec 2021 15:11:04: 14000000 INFO @ Sat, 11 Dec 2021 15:11:04: 20000000 INFO @ Sat, 11 Dec 2021 15:11:05: 9000000 INFO @ Sat, 11 Dec 2021 15:11:10: 15000000 INFO @ Sat, 11 Dec 2021 15:11:10: 21000000 INFO @ Sat, 11 Dec 2021 15:11:11: 10000000 INFO @ Sat, 11 Dec 2021 15:11:16: 16000000 INFO @ Sat, 11 Dec 2021 15:11:16: 22000000 INFO @ Sat, 11 Dec 2021 15:11:17: 11000000 INFO @ Sat, 11 Dec 2021 15:11:22: 17000000 INFO @ Sat, 11 Dec 2021 15:11:22: 23000000 INFO @ Sat, 11 Dec 2021 15:11:22: 12000000 INFO @ Sat, 11 Dec 2021 15:11:28: 18000000 INFO @ Sat, 11 Dec 2021 15:11:28: 24000000 INFO @ Sat, 11 Dec 2021 15:11:28: 13000000 INFO @ Sat, 11 Dec 2021 15:11:34: 19000000 INFO @ Sat, 11 Dec 2021 15:11:34: 25000000 INFO @ Sat, 11 Dec 2021 15:11:34: 14000000 INFO @ Sat, 11 Dec 2021 15:11:39: 20000000 INFO @ Sat, 11 Dec 2021 15:11:40: 26000000 INFO @ Sat, 11 Dec 2021 15:11:40: 15000000 INFO @ Sat, 11 Dec 2021 15:11:45: 21000000 INFO @ Sat, 11 Dec 2021 15:11:46: 27000000 INFO @ Sat, 11 Dec 2021 15:11:46: 16000000 INFO @ Sat, 11 Dec 2021 15:11:51: 22000000 INFO @ Sat, 11 Dec 2021 15:11:51: 28000000 INFO @ Sat, 11 Dec 2021 15:11:52: 17000000 INFO @ Sat, 11 Dec 2021 15:11:57: 23000000 INFO @ Sat, 11 Dec 2021 15:11:57: 29000000 INFO @ Sat, 11 Dec 2021 15:11:57: 18000000 INFO @ Sat, 11 Dec 2021 15:12:03: 24000000 INFO @ Sat, 11 Dec 2021 15:12:03: 19000000 INFO @ Sat, 11 Dec 2021 15:12:03: 30000000 INFO @ Sat, 11 Dec 2021 15:12:09: 25000000 INFO @ Sat, 11 Dec 2021 15:12:09: 20000000 INFO @ Sat, 11 Dec 2021 15:12:09: 31000000 INFO @ Sat, 11 Dec 2021 15:12:15: 26000000 INFO @ Sat, 11 Dec 2021 15:12:15: 21000000 INFO @ Sat, 11 Dec 2021 15:12:15: 32000000 INFO @ Sat, 11 Dec 2021 15:12:20: 27000000 INFO @ Sat, 11 Dec 2021 15:12:21: 22000000 INFO @ Sat, 11 Dec 2021 15:12:21: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:12:25: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:12:25: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:12:25: #1 total tags in treatment: 16362399 INFO @ Sat, 11 Dec 2021 15:12:25: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:12:25: #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 15:12:26: #1 tags after filtering in treatment: 14929581 INFO @ Sat, 11 Dec 2021 15:12:26: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:12:26: #1 finished! INFO @ Sat, 11 Dec 2021 15:12:26: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:12:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:12:26: 28000000 INFO @ Sat, 11 Dec 2021 15:12:27: #2 number of paired peaks: 1118 INFO @ Sat, 11 Dec 2021 15:12:27: start model_add_line... INFO @ Sat, 11 Dec 2021 15:12:27: start X-correlation... INFO @ Sat, 11 Dec 2021 15:12:27: end of X-cor INFO @ Sat, 11 Dec 2021 15:12:27: #2 finished! INFO @ Sat, 11 Dec 2021 15:12:27: #2 predicted fragment length is 144 bps INFO @ Sat, 11 Dec 2021 15:12:27: #2 alternative fragment length(s) may be 4,144 bps INFO @ Sat, 11 Dec 2021 15:12:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.05_model.r INFO @ Sat, 11 Dec 2021 15:12:27: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:12:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:12:27: 23000000 INFO @ Sat, 11 Dec 2021 15:12:32: 29000000 INFO @ Sat, 11 Dec 2021 15:12:33: 24000000 INFO @ Sat, 11 Dec 2021 15:12:38: 30000000 INFO @ Sat, 11 Dec 2021 15:12:39: 25000000 INFO @ Sat, 11 Dec 2021 15:12:44: 31000000 INFO @ Sat, 11 Dec 2021 15:12:44: 26000000 INFO @ Sat, 11 Dec 2021 15:12:49: 32000000 INFO @ Sat, 11 Dec 2021 15:12:50: 27000000 INFO @ Sat, 11 Dec 2021 15:12:55: 33000000 INFO @ Sat, 11 Dec 2021 15:12:56: 28000000 INFO @ Sat, 11 Dec 2021 15:12:57: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:12:59: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:12:59: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:12:59: #1 total tags in treatment: 16362399 INFO @ Sat, 11 Dec 2021 15:12:59: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:12:59: #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 15:12:59: #1 tags after filtering in treatment: 14929581 INFO @ Sat, 11 Dec 2021 15:12:59: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:12:59: #1 finished! INFO @ Sat, 11 Dec 2021 15:12:59: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:12:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:13:00: #2 number of paired peaks: 1118 INFO @ Sat, 11 Dec 2021 15:13:00: start model_add_line... INFO @ Sat, 11 Dec 2021 15:13:01: start X-correlation... INFO @ Sat, 11 Dec 2021 15:13:01: end of X-cor INFO @ Sat, 11 Dec 2021 15:13:01: #2 finished! INFO @ Sat, 11 Dec 2021 15:13:01: #2 predicted fragment length is 144 bps INFO @ Sat, 11 Dec 2021 15:13:01: #2 alternative fragment length(s) may be 4,144 bps INFO @ Sat, 11 Dec 2021 15:13:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.10_model.r INFO @ Sat, 11 Dec 2021 15:13:01: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:13:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:13:02: 29000000 INFO @ Sat, 11 Dec 2021 15:13:07: 30000000 INFO @ Sat, 11 Dec 2021 15:13:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:13:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:13:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.05_summits.bed INFO @ Sat, 11 Dec 2021 15:13:11: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3010 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:13:13: 31000000 INFO @ Sat, 11 Dec 2021 15:13:18: 32000000 INFO @ Sat, 11 Dec 2021 15:13:23: 33000000 INFO @ Sat, 11 Dec 2021 15:13:27: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:13:27: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:13:27: #1 total tags in treatment: 16362399 INFO @ Sat, 11 Dec 2021 15:13:27: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:13:27: #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 15:13:27: #1 tags after filtering in treatment: 14929581 INFO @ Sat, 11 Dec 2021 15:13:27: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:13:27: #1 finished! INFO @ Sat, 11 Dec 2021 15:13:27: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:13:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:13:28: #2 number of paired peaks: 1118 INFO @ Sat, 11 Dec 2021 15:13:28: start model_add_line... INFO @ Sat, 11 Dec 2021 15:13:28: start X-correlation... INFO @ Sat, 11 Dec 2021 15:13:28: end of X-cor INFO @ Sat, 11 Dec 2021 15:13:28: #2 finished! INFO @ Sat, 11 Dec 2021 15:13:28: #2 predicted fragment length is 144 bps INFO @ Sat, 11 Dec 2021 15:13:28: #2 alternative fragment length(s) may be 4,144 bps INFO @ Sat, 11 Dec 2021 15:13:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.20_model.r INFO @ Sat, 11 Dec 2021 15:13:28: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:13:28: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:13:32: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:13:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:13:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:13:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.10_summits.bed INFO @ Sat, 11 Dec 2021 15:13:47: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (1878 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:13:59: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:14:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:14:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:14:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628917/SRX7628917.20_summits.bed INFO @ Sat, 11 Dec 2021 15:14:14: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (1098 records, 4 fields): 3 millis CompletedMACS2peakCalling