Job ID = 14172122 SRX = SRX7628910 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 21280914 spots for SRR10963272/SRR10963272.sra Written 21280914 spots for SRR10963272/SRR10963272.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172722 ("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: 00:40:22 21280914 reads; of these: 21280914 (100.00%) were paired; of these: 1563808 (7.35%) aligned concordantly 0 times 12851425 (60.39%) aligned concordantly exactly 1 time 6865681 (32.26%) aligned concordantly >1 times ---- 1563808 pairs aligned concordantly 0 times; of these: 128020 (8.19%) aligned discordantly 1 time ---- 1435788 pairs aligned 0 times concordantly or discordantly; of these: 2871576 mates make up the pairs; of these: 1999121 (69.62%) aligned 0 times 488373 (17.01%) aligned exactly 1 time 384082 (13.38%) aligned >1 times 95.30% overall alignment rate Time searching: 00:40:22 Overall time: 00:40:22 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] 1497900 / 19792900 = 0.0757 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 15:09:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.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 15:09:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:09:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:09:58: 1000000 INFO @ Sat, 11 Dec 2021 15:10:05: 2000000 INFO @ Sat, 11 Dec 2021 15:10:11: 3000000 INFO @ Sat, 11 Dec 2021 15:10:18: 4000000 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 15:10:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.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 15:10:22: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:10:22: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:10:24: 5000000 INFO @ Sat, 11 Dec 2021 15:10:29: 1000000 INFO @ Sat, 11 Dec 2021 15:10:31: 6000000 INFO @ Sat, 11 Dec 2021 15:10:37: 2000000 INFO @ Sat, 11 Dec 2021 15:10:39: 7000000 INFO @ Sat, 11 Dec 2021 15:10:44: 3000000 INFO @ Sat, 11 Dec 2021 15:10:46: 8000000 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 15:10:52: 4000000 INFO @ Sat, 11 Dec 2021 15:10:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.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 15:10:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:10:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:10:54: 9000000 INFO @ Sat, 11 Dec 2021 15:10:59: 5000000 INFO @ Sat, 11 Dec 2021 15:10:59: 1000000 INFO @ Sat, 11 Dec 2021 15:11:01: 10000000 INFO @ Sat, 11 Dec 2021 15:11:07: 2000000 INFO @ Sat, 11 Dec 2021 15:11:07: 6000000 INFO @ Sat, 11 Dec 2021 15:11:09: 11000000 INFO @ Sat, 11 Dec 2021 15:11:14: 3000000 INFO @ Sat, 11 Dec 2021 15:11:14: 7000000 INFO @ Sat, 11 Dec 2021 15:11:16: 12000000 INFO @ Sat, 11 Dec 2021 15:11:21: 4000000 INFO @ Sat, 11 Dec 2021 15:11:22: 8000000 INFO @ Sat, 11 Dec 2021 15:11:24: 13000000 INFO @ Sat, 11 Dec 2021 15:11:29: 5000000 INFO @ Sat, 11 Dec 2021 15:11:29: 9000000 INFO @ Sat, 11 Dec 2021 15:11:31: 14000000 INFO @ Sat, 11 Dec 2021 15:11:36: 6000000 INFO @ Sat, 11 Dec 2021 15:11:37: 10000000 INFO @ Sat, 11 Dec 2021 15:11:38: 15000000 INFO @ Sat, 11 Dec 2021 15:11:43: 7000000 INFO @ Sat, 11 Dec 2021 15:11:44: 11000000 INFO @ Sat, 11 Dec 2021 15:11:46: 16000000 INFO @ Sat, 11 Dec 2021 15:11:50: 8000000 INFO @ Sat, 11 Dec 2021 15:11:52: 12000000 INFO @ Sat, 11 Dec 2021 15:11:53: 17000000 INFO @ Sat, 11 Dec 2021 15:11:58: 9000000 INFO @ Sat, 11 Dec 2021 15:12:00: 13000000 INFO @ Sat, 11 Dec 2021 15:12:00: 18000000 INFO @ Sat, 11 Dec 2021 15:12:05: 10000000 INFO @ Sat, 11 Dec 2021 15:12:07: 14000000 INFO @ Sat, 11 Dec 2021 15:12:07: 19000000 INFO @ Sat, 11 Dec 2021 15:12:12: 11000000 INFO @ Sat, 11 Dec 2021 15:12:14: 20000000 INFO @ Sat, 11 Dec 2021 15:12:15: 15000000 INFO @ Sat, 11 Dec 2021 15:12:20: 12000000 INFO @ Sat, 11 Dec 2021 15:12:22: 21000000 INFO @ Sat, 11 Dec 2021 15:12:22: 16000000 INFO @ Sat, 11 Dec 2021 15:12:27: 13000000 INFO @ Sat, 11 Dec 2021 15:12:29: 22000000 INFO @ Sat, 11 Dec 2021 15:12:30: 17000000 INFO @ Sat, 11 Dec 2021 15:12:34: 14000000 INFO @ Sat, 11 Dec 2021 15:12:37: 23000000 INFO @ Sat, 11 Dec 2021 15:12:37: 18000000 INFO @ Sat, 11 Dec 2021 15:12:41: 15000000 INFO @ Sat, 11 Dec 2021 15:12:44: 24000000 INFO @ Sat, 11 Dec 2021 15:12:45: 19000000 INFO @ Sat, 11 Dec 2021 15:12:49: 16000000 INFO @ Sat, 11 Dec 2021 15:12:51: 25000000 INFO @ Sat, 11 Dec 2021 15:12:52: 20000000 INFO @ Sat, 11 Dec 2021 15:12:56: 17000000 INFO @ Sat, 11 Dec 2021 15:12:58: 26000000 INFO @ Sat, 11 Dec 2021 15:13:00: 21000000 INFO @ Sat, 11 Dec 2021 15:13:03: 18000000 INFO @ Sat, 11 Dec 2021 15:13:06: 27000000 INFO @ Sat, 11 Dec 2021 15:13:07: 22000000 INFO @ Sat, 11 Dec 2021 15:13:11: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:13:13: 28000000 INFO @ Sat, 11 Dec 2021 15:13:14: 23000000 INFO @ Sat, 11 Dec 2021 15:13:18: 20000000 INFO @ Sat, 11 Dec 2021 15:13:21: 29000000 INFO @ Sat, 11 Dec 2021 15:13:22: 24000000 INFO @ Sat, 11 Dec 2021 15:13:25: 21000000 INFO @ Sat, 11 Dec 2021 15:13:28: 30000000 INFO @ Sat, 11 Dec 2021 15:13:29: 25000000 INFO @ Sat, 11 Dec 2021 15:13:32: 22000000 INFO @ Sat, 11 Dec 2021 15:13:36: 31000000 INFO @ Sat, 11 Dec 2021 15:13:36: 26000000 INFO @ Sat, 11 Dec 2021 15:13:40: 23000000 INFO @ Sat, 11 Dec 2021 15:13:44: 32000000 INFO @ Sat, 11 Dec 2021 15:13:44: 27000000 INFO @ Sat, 11 Dec 2021 15:13:47: 24000000 INFO @ Sat, 11 Dec 2021 15:13:51: 33000000 INFO @ Sat, 11 Dec 2021 15:13:52: 28000000 INFO @ Sat, 11 Dec 2021 15:13:54: 25000000 INFO @ Sat, 11 Dec 2021 15:13:59: 34000000 INFO @ Sat, 11 Dec 2021 15:13:59: 29000000 INFO @ Sat, 11 Dec 2021 15:14:02: 26000000 INFO @ Sat, 11 Dec 2021 15:14:06: 35000000 INFO @ Sat, 11 Dec 2021 15:14:07: 30000000 INFO @ Sat, 11 Dec 2021 15:14:09: 27000000 INFO @ Sat, 11 Dec 2021 15:14:14: 36000000 INFO @ Sat, 11 Dec 2021 15:14:14: 31000000 INFO @ Sat, 11 Dec 2021 15:14:16: 28000000 INFO @ Sat, 11 Dec 2021 15:14:21: 37000000 INFO @ Sat, 11 Dec 2021 15:14:22: 32000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:14:24: 29000000 INFO @ Sat, 11 Dec 2021 15:14:25: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:14:25: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:14:25: #1 total tags in treatment: 18220576 INFO @ Sat, 11 Dec 2021 15:14:25: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:14:25: #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 15:14:25: #1 tags after filtering in treatment: 16600045 INFO @ Sat, 11 Dec 2021 15:14:25: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:14:25: #1 finished! INFO @ Sat, 11 Dec 2021 15:14:25: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:14:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:14:27: #2 number of paired peaks: 1145 INFO @ Sat, 11 Dec 2021 15:14:27: start model_add_line... INFO @ Sat, 11 Dec 2021 15:14:27: start X-correlation... INFO @ Sat, 11 Dec 2021 15:14:27: end of X-cor INFO @ Sat, 11 Dec 2021 15:14:27: #2 finished! INFO @ Sat, 11 Dec 2021 15:14:27: #2 predicted fragment length is 155 bps INFO @ Sat, 11 Dec 2021 15:14:27: #2 alternative fragment length(s) may be 4,155 bps INFO @ Sat, 11 Dec 2021 15:14:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.05_model.r INFO @ Sat, 11 Dec 2021 15:14:27: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:14:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:14:29: 33000000 INFO @ Sat, 11 Dec 2021 15:14:31: 30000000 INFO @ Sat, 11 Dec 2021 15:14:37: 34000000 INFO @ Sat, 11 Dec 2021 15:14:38: 31000000 INFO @ Sat, 11 Dec 2021 15:14:44: 35000000 INFO @ Sat, 11 Dec 2021 15:14:45: 32000000 INFO @ Sat, 11 Dec 2021 15:14:52: 36000000 INFO @ Sat, 11 Dec 2021 15:14:53: 33000000 INFO @ Sat, 11 Dec 2021 15:14:59: 37000000 INFO @ Sat, 11 Dec 2021 15:14:59: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:15:00: 34000000 INFO @ Sat, 11 Dec 2021 15:15:03: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:15:03: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:15:03: #1 total tags in treatment: 18220576 INFO @ Sat, 11 Dec 2021 15:15:03: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:15:03: #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 15:15:03: #1 tags after filtering in treatment: 16600045 INFO @ Sat, 11 Dec 2021 15:15:03: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:15:03: #1 finished! INFO @ Sat, 11 Dec 2021 15:15:03: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:15:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:15:05: #2 number of paired peaks: 1145 INFO @ Sat, 11 Dec 2021 15:15:05: start model_add_line... INFO @ Sat, 11 Dec 2021 15:15:05: start X-correlation... INFO @ Sat, 11 Dec 2021 15:15:05: end of X-cor INFO @ Sat, 11 Dec 2021 15:15:05: #2 finished! INFO @ Sat, 11 Dec 2021 15:15:05: #2 predicted fragment length is 155 bps INFO @ Sat, 11 Dec 2021 15:15:05: #2 alternative fragment length(s) may be 4,155 bps INFO @ Sat, 11 Dec 2021 15:15:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.10_model.r INFO @ Sat, 11 Dec 2021 15:15:05: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:15:05: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:15:07: 35000000 INFO @ Sat, 11 Dec 2021 15:15:13: 36000000 INFO @ Sat, 11 Dec 2021 15:15:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:15:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:15:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.05_summits.bed INFO @ Sat, 11 Dec 2021 15:15:15: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3070 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:15:20: 37000000 INFO @ Sat, 11 Dec 2021 15:15:23: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:15:23: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:15:23: #1 total tags in treatment: 18220576 INFO @ Sat, 11 Dec 2021 15:15:23: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:15:23: #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 15:15:24: #1 tags after filtering in treatment: 16600045 INFO @ Sat, 11 Dec 2021 15:15:24: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:15:24: #1 finished! INFO @ Sat, 11 Dec 2021 15:15:24: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:15:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:15:25: #2 number of paired peaks: 1145 INFO @ Sat, 11 Dec 2021 15:15:25: start model_add_line... INFO @ Sat, 11 Dec 2021 15:15:25: start X-correlation... INFO @ Sat, 11 Dec 2021 15:15:25: end of X-cor INFO @ Sat, 11 Dec 2021 15:15:25: #2 finished! INFO @ Sat, 11 Dec 2021 15:15:25: #2 predicted fragment length is 155 bps INFO @ Sat, 11 Dec 2021 15:15:25: #2 alternative fragment length(s) may be 4,155 bps INFO @ Sat, 11 Dec 2021 15:15:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.20_model.r INFO @ Sat, 11 Dec 2021 15:15:25: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:15:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:15:40: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:15:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:15:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:15:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.10_summits.bed INFO @ Sat, 11 Dec 2021 15:15:56: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (1961 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:15:59: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:16:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:16:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:16:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628910/SRX7628910.20_summits.bed INFO @ Sat, 11 Dec 2021 15:16:15: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (1112 records, 4 fields): 3 millis CompletedMACS2peakCalling