Job ID = 14172135 SRX = SRX7628919 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 22500646 spots for SRR10963281/SRR10963281.sra Written 22500646 spots for SRR10963281/SRR10963281.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172724 ("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: 00:35:20 22500646 reads; of these: 22500646 (100.00%) were paired; of these: 3686819 (16.39%) aligned concordantly 0 times 14372301 (63.88%) aligned concordantly exactly 1 time 4441526 (19.74%) aligned concordantly >1 times ---- 3686819 pairs aligned concordantly 0 times; of these: 434419 (11.78%) aligned discordantly 1 time ---- 3252400 pairs aligned 0 times concordantly or discordantly; of these: 6504800 mates make up the pairs; of these: 4685326 (72.03%) aligned 0 times 783496 (12.04%) aligned exactly 1 time 1035978 (15.93%) aligned >1 times 89.59% overall alignment rate Time searching: 00:35:20 Overall time: 00:35:20 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 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] 1278120 / 19238028 = 0.0664 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 15:10:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.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 15:10:07: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:10:07: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:10:12: 1000000 INFO @ Sat, 11 Dec 2021 15:10:18: 2000000 INFO @ Sat, 11 Dec 2021 15:10:23: 3000000 INFO @ Sat, 11 Dec 2021 15:10:29: 4000000 INFO @ Sat, 11 Dec 2021 15:10:34: 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 15:10:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.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 15:10:37: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:10:37: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:10:40: 6000000 INFO @ Sat, 11 Dec 2021 15:10:42: 1000000 INFO @ Sat, 11 Dec 2021 15:10:46: 7000000 INFO @ Sat, 11 Dec 2021 15:10:48: 2000000 INFO @ Sat, 11 Dec 2021 15:10:51: 8000000 INFO @ Sat, 11 Dec 2021 15:10:53: 3000000 INFO @ Sat, 11 Dec 2021 15:10:57: 9000000 INFO @ Sat, 11 Dec 2021 15:10:58: 4000000 INFO @ Sat, 11 Dec 2021 15:11:03: 10000000 INFO @ Sat, 11 Dec 2021 15:11:04: 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 15:11:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.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 15:11:07: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:11:07: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:11:09: 6000000 INFO @ Sat, 11 Dec 2021 15:11:09: 11000000 INFO @ Sat, 11 Dec 2021 15:11:12: 1000000 INFO @ Sat, 11 Dec 2021 15:11:14: 7000000 INFO @ Sat, 11 Dec 2021 15:11:15: 12000000 INFO @ Sat, 11 Dec 2021 15:11:18: 2000000 INFO @ Sat, 11 Dec 2021 15:11:20: 8000000 INFO @ Sat, 11 Dec 2021 15:11:21: 13000000 INFO @ Sat, 11 Dec 2021 15:11:23: 3000000 INFO @ Sat, 11 Dec 2021 15:11:25: 9000000 INFO @ Sat, 11 Dec 2021 15:11:27: 14000000 INFO @ Sat, 11 Dec 2021 15:11:28: 4000000 INFO @ Sat, 11 Dec 2021 15:11:30: 10000000 INFO @ Sat, 11 Dec 2021 15:11:33: 15000000 INFO @ Sat, 11 Dec 2021 15:11:34: 5000000 INFO @ Sat, 11 Dec 2021 15:11:36: 11000000 INFO @ Sat, 11 Dec 2021 15:11:39: 16000000 INFO @ Sat, 11 Dec 2021 15:11:39: 6000000 INFO @ Sat, 11 Dec 2021 15:11:41: 12000000 INFO @ Sat, 11 Dec 2021 15:11:44: 7000000 INFO @ Sat, 11 Dec 2021 15:11:45: 17000000 INFO @ Sat, 11 Dec 2021 15:11:47: 13000000 INFO @ Sat, 11 Dec 2021 15:11:49: 8000000 INFO @ Sat, 11 Dec 2021 15:11:50: 18000000 INFO @ Sat, 11 Dec 2021 15:11:52: 14000000 INFO @ Sat, 11 Dec 2021 15:11:55: 9000000 INFO @ Sat, 11 Dec 2021 15:11:56: 19000000 INFO @ Sat, 11 Dec 2021 15:11:57: 15000000 INFO @ Sat, 11 Dec 2021 15:12:00: 10000000 INFO @ Sat, 11 Dec 2021 15:12:03: 20000000 INFO @ Sat, 11 Dec 2021 15:12:03: 16000000 INFO @ Sat, 11 Dec 2021 15:12:05: 11000000 INFO @ Sat, 11 Dec 2021 15:12:08: 17000000 INFO @ Sat, 11 Dec 2021 15:12:09: 21000000 INFO @ Sat, 11 Dec 2021 15:12:11: 12000000 INFO @ Sat, 11 Dec 2021 15:12:14: 18000000 INFO @ Sat, 11 Dec 2021 15:12:15: 22000000 INFO @ Sat, 11 Dec 2021 15:12:16: 13000000 INFO @ Sat, 11 Dec 2021 15:12:19: 19000000 INFO @ Sat, 11 Dec 2021 15:12:20: 23000000 INFO @ Sat, 11 Dec 2021 15:12:21: 14000000 INFO @ Sat, 11 Dec 2021 15:12:24: 20000000 INFO @ Sat, 11 Dec 2021 15:12:26: 24000000 INFO @ Sat, 11 Dec 2021 15:12:27: 15000000 INFO @ Sat, 11 Dec 2021 15:12:30: 21000000 INFO @ Sat, 11 Dec 2021 15:12:32: 16000000 INFO @ Sat, 11 Dec 2021 15:12:33: 25000000 INFO @ Sat, 11 Dec 2021 15:12:35: 22000000 INFO @ Sat, 11 Dec 2021 15:12:37: 17000000 INFO @ Sat, 11 Dec 2021 15:12:39: 26000000 INFO @ Sat, 11 Dec 2021 15:12:40: 23000000 INFO @ Sat, 11 Dec 2021 15:12:42: 18000000 INFO @ Sat, 11 Dec 2021 15:12:45: 27000000 INFO @ Sat, 11 Dec 2021 15:12:46: 24000000 INFO @ Sat, 11 Dec 2021 15:12:48: 19000000 INFO @ Sat, 11 Dec 2021 15:12:51: 25000000 INFO @ Sat, 11 Dec 2021 15:12:51: 28000000 INFO @ Sat, 11 Dec 2021 15:12:53: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:12:56: 26000000 INFO @ Sat, 11 Dec 2021 15:12:57: 29000000 INFO @ Sat, 11 Dec 2021 15:12:58: 21000000 INFO @ Sat, 11 Dec 2021 15:13:02: 27000000 INFO @ Sat, 11 Dec 2021 15:13:03: 22000000 INFO @ Sat, 11 Dec 2021 15:13:04: 30000000 INFO @ Sat, 11 Dec 2021 15:13:07: 28000000 INFO @ Sat, 11 Dec 2021 15:13:09: 23000000 INFO @ Sat, 11 Dec 2021 15:13:10: 31000000 INFO @ Sat, 11 Dec 2021 15:13:12: 29000000 INFO @ Sat, 11 Dec 2021 15:13:14: 24000000 INFO @ Sat, 11 Dec 2021 15:13:16: 32000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:13:18: 30000000 INFO @ Sat, 11 Dec 2021 15:13:19: 25000000 INFO @ Sat, 11 Dec 2021 15:13:22: 33000000 INFO @ Sat, 11 Dec 2021 15:13:23: 31000000 INFO @ Sat, 11 Dec 2021 15:13:24: 26000000 INFO @ Sat, 11 Dec 2021 15:13:28: 34000000 INFO @ Sat, 11 Dec 2021 15:13:29: 32000000 INFO @ Sat, 11 Dec 2021 15:13:30: 27000000 INFO @ Sat, 11 Dec 2021 15:13:34: 33000000 INFO @ Sat, 11 Dec 2021 15:13:34: 35000000 INFO @ Sat, 11 Dec 2021 15:13:35: 28000000 INFO @ Sat, 11 Dec 2021 15:13:39: 34000000 INFO @ Sat, 11 Dec 2021 15:13:40: 36000000 INFO @ Sat, 11 Dec 2021 15:13:40: 29000000 INFO @ Sat, 11 Dec 2021 15:13:45: 35000000 INFO @ Sat, 11 Dec 2021 15:13:46: 30000000 INFO @ Sat, 11 Dec 2021 15:13:46: 37000000 INFO @ Sat, 11 Dec 2021 15:13:50: 36000000 INFO @ Sat, 11 Dec 2021 15:13:51: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:13:51: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:13:51: #1 total tags in treatment: 17546018 INFO @ Sat, 11 Dec 2021 15:13:51: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:13:51: #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 15:13:51: 31000000 INFO @ Sat, 11 Dec 2021 15:13:51: #1 tags after filtering in treatment: 9111553 INFO @ Sat, 11 Dec 2021 15:13:51: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 11 Dec 2021 15:13:51: #1 finished! INFO @ Sat, 11 Dec 2021 15:13:51: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:13:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:13:52: #2 number of paired peaks: 11277 INFO @ Sat, 11 Dec 2021 15:13:52: start model_add_line... INFO @ Sat, 11 Dec 2021 15:13:53: start X-correlation... INFO @ Sat, 11 Dec 2021 15:13:53: end of X-cor INFO @ Sat, 11 Dec 2021 15:13:53: #2 finished! INFO @ Sat, 11 Dec 2021 15:13:53: #2 predicted fragment length is 219 bps INFO @ Sat, 11 Dec 2021 15:13:53: #2 alternative fragment length(s) may be 219 bps INFO @ Sat, 11 Dec 2021 15:13:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.05_model.r INFO @ Sat, 11 Dec 2021 15:13:53: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:13:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:13:55: 37000000 INFO @ Sat, 11 Dec 2021 15:13:56: 32000000 INFO @ Sat, 11 Dec 2021 15:13:59: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:13:59: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:13:59: #1 total tags in treatment: 17546018 INFO @ Sat, 11 Dec 2021 15:13:59: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:13:59: #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 15:13:59: #1 tags after filtering in treatment: 9111553 INFO @ Sat, 11 Dec 2021 15:13:59: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 11 Dec 2021 15:13:59: #1 finished! INFO @ Sat, 11 Dec 2021 15:13:59: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:13:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:14:01: #2 number of paired peaks: 11277 INFO @ Sat, 11 Dec 2021 15:14:01: start model_add_line... INFO @ Sat, 11 Dec 2021 15:14:01: start X-correlation... INFO @ Sat, 11 Dec 2021 15:14:01: end of X-cor INFO @ Sat, 11 Dec 2021 15:14:01: #2 finished! INFO @ Sat, 11 Dec 2021 15:14:01: #2 predicted fragment length is 219 bps INFO @ Sat, 11 Dec 2021 15:14:01: #2 alternative fragment length(s) may be 219 bps INFO @ Sat, 11 Dec 2021 15:14:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.10_model.r INFO @ Sat, 11 Dec 2021 15:14:01: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:14:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:14:01: 33000000 INFO @ Sat, 11 Dec 2021 15:14:06: 34000000 INFO @ Sat, 11 Dec 2021 15:14:10: 35000000 INFO @ Sat, 11 Dec 2021 15:14:15: 36000000 INFO @ Sat, 11 Dec 2021 15:14:19: 37000000 INFO @ Sat, 11 Dec 2021 15:14:22: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:14:23: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:14:23: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:14:23: #1 total tags in treatment: 17546018 INFO @ Sat, 11 Dec 2021 15:14:23: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:14:23: #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 15:14:23: #1 tags after filtering in treatment: 9111553 INFO @ Sat, 11 Dec 2021 15:14:23: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 11 Dec 2021 15:14:23: #1 finished! INFO @ Sat, 11 Dec 2021 15:14:23: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:14:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:14:24: #2 number of paired peaks: 11277 INFO @ Sat, 11 Dec 2021 15:14:24: start model_add_line... INFO @ Sat, 11 Dec 2021 15:14:24: start X-correlation... INFO @ Sat, 11 Dec 2021 15:14:24: end of X-cor INFO @ Sat, 11 Dec 2021 15:14:24: #2 finished! INFO @ Sat, 11 Dec 2021 15:14:24: #2 predicted fragment length is 219 bps INFO @ Sat, 11 Dec 2021 15:14:24: #2 alternative fragment length(s) may be 219 bps INFO @ Sat, 11 Dec 2021 15:14:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.20_model.r INFO @ Sat, 11 Dec 2021 15:14:24: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:14:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:14:32: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:14:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:14:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:14:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.05_summits.bed INFO @ Sat, 11 Dec 2021 15:14:34: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9095 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:14:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:14:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:14:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.10_summits.bed INFO @ Sat, 11 Dec 2021 15:14:43: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (8338 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:14:55: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:15:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:15:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:15:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628919/SRX7628919.20_summits.bed INFO @ Sat, 11 Dec 2021 15:15:06: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (7408 records, 4 fields): 9 millis CompletedMACS2peakCalling