Job ID = 14168406 SRX = ERX3978861 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 56026590 spots for ERR3975930/ERR3975930.sra Written 56026590 spots for ERR3975930/ERR3975930.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169883 ("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: 02:37:00 56026590 reads; of these: 56026590 (100.00%) were paired; of these: 6886905 (12.29%) aligned concordantly 0 times 37655186 (67.21%) aligned concordantly exactly 1 time 11484499 (20.50%) aligned concordantly >1 times ---- 6886905 pairs aligned concordantly 0 times; of these: 1315954 (19.11%) aligned discordantly 1 time ---- 5570951 pairs aligned 0 times concordantly or discordantly; of these: 11141902 mates make up the pairs; of these: 5449471 (48.91%) aligned 0 times 2505977 (22.49%) aligned exactly 1 time 3186454 (28.60%) aligned >1 times 95.14% overall alignment rate Time searching: 02:37:01 Overall time: 02:37:01 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 44 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] 35933343 / 50210376 = 0.7157 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 21:25:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.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 21:25:00: #1 read tag files... INFO @ Fri, 10 Dec 2021 21:25:00: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 21:25:05: 1000000 INFO @ Fri, 10 Dec 2021 21:25:10: 2000000 INFO @ Fri, 10 Dec 2021 21:25:14: 3000000 INFO @ Fri, 10 Dec 2021 21:25:19: 4000000 INFO @ Fri, 10 Dec 2021 21:25:24: 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 21:25:28: 6000000 INFO @ Fri, 10 Dec 2021 21:25:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.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 21:25:29: #1 read tag files... INFO @ Fri, 10 Dec 2021 21:25:29: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 21:25:33: 7000000 INFO @ Fri, 10 Dec 2021 21:25:34: 1000000 INFO @ Fri, 10 Dec 2021 21:25:38: 8000000 INFO @ Fri, 10 Dec 2021 21:25:38: 2000000 INFO @ Fri, 10 Dec 2021 21:25:42: 9000000 INFO @ Fri, 10 Dec 2021 21:25:43: 3000000 INFO @ Fri, 10 Dec 2021 21:25:47: 10000000 INFO @ Fri, 10 Dec 2021 21:25:47: 4000000 INFO @ Fri, 10 Dec 2021 21:25:52: 11000000 INFO @ Fri, 10 Dec 2021 21:25:52: 5000000 INFO @ Fri, 10 Dec 2021 21:25:57: 12000000 INFO @ Fri, 10 Dec 2021 21:25:57: 6000000 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 21:25:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.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 21:25:59: #1 read tag files... INFO @ Fri, 10 Dec 2021 21:25:59: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 21:26:01: 7000000 INFO @ Fri, 10 Dec 2021 21:26:01: 13000000 INFO @ Fri, 10 Dec 2021 21:26:04: 1000000 INFO @ Fri, 10 Dec 2021 21:26:06: 8000000 INFO @ Fri, 10 Dec 2021 21:26:06: 14000000 INFO @ Fri, 10 Dec 2021 21:26:09: 2000000 INFO @ Fri, 10 Dec 2021 21:26:11: 9000000 INFO @ Fri, 10 Dec 2021 21:26:11: 15000000 INFO @ Fri, 10 Dec 2021 21:26:13: 3000000 INFO @ Fri, 10 Dec 2021 21:26:15: 10000000 INFO @ Fri, 10 Dec 2021 21:26:16: 16000000 INFO @ Fri, 10 Dec 2021 21:26:18: 4000000 INFO @ Fri, 10 Dec 2021 21:26:20: 11000000 INFO @ Fri, 10 Dec 2021 21:26:20: 17000000 INFO @ Fri, 10 Dec 2021 21:26:23: 5000000 INFO @ Fri, 10 Dec 2021 21:26:25: 12000000 INFO @ Fri, 10 Dec 2021 21:26:25: 18000000 INFO @ Fri, 10 Dec 2021 21:26:28: 6000000 INFO @ Fri, 10 Dec 2021 21:26:29: 13000000 INFO @ Fri, 10 Dec 2021 21:26:30: 19000000 INFO @ Fri, 10 Dec 2021 21:26:33: 7000000 INFO @ Fri, 10 Dec 2021 21:26:34: 14000000 INFO @ Fri, 10 Dec 2021 21:26:34: 20000000 INFO @ Fri, 10 Dec 2021 21:26:37: 8000000 INFO @ Fri, 10 Dec 2021 21:26:38: 15000000 INFO @ Fri, 10 Dec 2021 21:26:39: 21000000 INFO @ Fri, 10 Dec 2021 21:26:42: 9000000 INFO @ Fri, 10 Dec 2021 21:26:43: 16000000 INFO @ Fri, 10 Dec 2021 21:26:44: 22000000 INFO @ Fri, 10 Dec 2021 21:26:47: 10000000 INFO @ Fri, 10 Dec 2021 21:26:48: 17000000 INFO @ Fri, 10 Dec 2021 21:26:49: 23000000 INFO @ Fri, 10 Dec 2021 21:26:52: 11000000 INFO @ Fri, 10 Dec 2021 21:26:52: 18000000 INFO @ Fri, 10 Dec 2021 21:26:53: 24000000 INFO @ Fri, 10 Dec 2021 21:26:56: 12000000 INFO @ Fri, 10 Dec 2021 21:26:57: 19000000 INFO @ Fri, 10 Dec 2021 21:26:58: 25000000 INFO @ Fri, 10 Dec 2021 21:27:01: 13000000 INFO @ Fri, 10 Dec 2021 21:27:02: 20000000 INFO @ Fri, 10 Dec 2021 21:27:03: 26000000 INFO @ Fri, 10 Dec 2021 21:27:06: 14000000 INFO @ Fri, 10 Dec 2021 21:27:06: 21000000 INFO @ Fri, 10 Dec 2021 21:27:08: 27000000 INFO @ Fri, 10 Dec 2021 21:27:11: 15000000 INFO @ Fri, 10 Dec 2021 21:27:11: 22000000 INFO @ Fri, 10 Dec 2021 21:27:12: 28000000 INFO @ Fri, 10 Dec 2021 21:27:15: 16000000 INFO @ Fri, 10 Dec 2021 21:27:16: 23000000 INFO @ Fri, 10 Dec 2021 21:27:17: 29000000 INFO @ Fri, 10 Dec 2021 21:27:20: 17000000 INFO @ Fri, 10 Dec 2021 21:27:21: 24000000 INFO @ Fri, 10 Dec 2021 21:27:22: 30000000 INFO @ Fri, 10 Dec 2021 21:27:25: 18000000 INFO @ Fri, 10 Dec 2021 21:27:25: 25000000 INFO @ Fri, 10 Dec 2021 21:27:27: 31000000 INFO @ Fri, 10 Dec 2021 21:27:30: 19000000 INFO @ Fri, 10 Dec 2021 21:27:30: 26000000 INFO @ Fri, 10 Dec 2021 21:27:32: 32000000 INFO @ Fri, 10 Dec 2021 21:27:35: 20000000 INFO @ Fri, 10 Dec 2021 21:27:35: 27000000 INFO @ Fri, 10 Dec 2021 21:27:36: 33000000 INFO @ Fri, 10 Dec 2021 21:27:39: 28000000 INFO @ Fri, 10 Dec 2021 21:27:39: 21000000 INFO @ Fri, 10 Dec 2021 21:27:41: 34000000 INFO @ Fri, 10 Dec 2021 21:27:44: 22000000 INFO @ Fri, 10 Dec 2021 21:27:44: 29000000 INFO @ Fri, 10 Dec 2021 21:27:45: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 21:27:45: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 21:27:45: #1 total tags in treatment: 13917397 INFO @ Fri, 10 Dec 2021 21:27:45: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 21:27:45: #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 21:27:45: #1 tags after filtering in treatment: 12064826 INFO @ Fri, 10 Dec 2021 21:27:45: #1 Redundant rate of treatment: 0.13 INFO @ Fri, 10 Dec 2021 21:27:45: #1 finished! INFO @ Fri, 10 Dec 2021 21:27:45: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 21:27:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 21:27:46: #2 number of paired peaks: 2728 INFO @ Fri, 10 Dec 2021 21:27:46: start model_add_line... INFO @ Fri, 10 Dec 2021 21:27:46: start X-correlation... INFO @ Fri, 10 Dec 2021 21:27:46: end of X-cor INFO @ Fri, 10 Dec 2021 21:27:46: #2 finished! INFO @ Fri, 10 Dec 2021 21:27:46: #2 predicted fragment length is 200 bps INFO @ Fri, 10 Dec 2021 21:27:46: #2 alternative fragment length(s) may be 200 bps INFO @ Fri, 10 Dec 2021 21:27:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.05_model.r INFO @ Fri, 10 Dec 2021 21:27:46: #3 Call peaks... INFO @ Fri, 10 Dec 2021 21:27:46: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 21:27:49: 30000000 INFO @ Fri, 10 Dec 2021 21:27:49: 23000000 INFO @ Fri, 10 Dec 2021 21:27:54: 31000000 INFO @ Fri, 10 Dec 2021 21:27:54: 24000000 INFO @ Fri, 10 Dec 2021 21:27:59: 32000000 INFO @ Fri, 10 Dec 2021 21:27:59: 25000000 INFO @ Fri, 10 Dec 2021 21:28:03: 33000000 INFO @ Fri, 10 Dec 2021 21:28:04: 26000000 INFO @ Fri, 10 Dec 2021 21:28:08: 34000000 INFO @ Fri, 10 Dec 2021 21:28:09: 27000000 INFO @ Fri, 10 Dec 2021 21:28:11: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 21:28:11: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 21:28:11: #1 total tags in treatment: 13917397 INFO @ Fri, 10 Dec 2021 21:28:11: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 21:28:11: #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 21:28:12: #1 tags after filtering in treatment: 12064826 INFO @ Fri, 10 Dec 2021 21:28:12: #1 Redundant rate of treatment: 0.13 INFO @ Fri, 10 Dec 2021 21:28:12: #1 finished! INFO @ Fri, 10 Dec 2021 21:28:12: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 21:28:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 21:28:13: #2 number of paired peaks: 2728 INFO @ Fri, 10 Dec 2021 21:28:13: start model_add_line... INFO @ Fri, 10 Dec 2021 21:28:13: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 21:28:13: start X-correlation... INFO @ Fri, 10 Dec 2021 21:28:13: end of X-cor INFO @ Fri, 10 Dec 2021 21:28:13: #2 finished! INFO @ Fri, 10 Dec 2021 21:28:13: #2 predicted fragment length is 200 bps INFO @ Fri, 10 Dec 2021 21:28:13: #2 alternative fragment length(s) may be 200 bps INFO @ Fri, 10 Dec 2021 21:28:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.10_model.r INFO @ Fri, 10 Dec 2021 21:28:13: #3 Call peaks... INFO @ Fri, 10 Dec 2021 21:28:13: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 21:28:13: 28000000 INFO @ Fri, 10 Dec 2021 21:28:18: 29000000 INFO @ Fri, 10 Dec 2021 21:28:23: 30000000 INFO @ Fri, 10 Dec 2021 21:28:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.05_peaks.xls INFO @ Fri, 10 Dec 2021 21:28:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 21:28:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.05_summits.bed INFO @ Fri, 10 Dec 2021 21:28:26: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (13858 records, 4 fields): 36 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 21:28:28: 31000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 21:28:33: 32000000 INFO @ Fri, 10 Dec 2021 21:28:37: 33000000 INFO @ Fri, 10 Dec 2021 21:28:39: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 21:28:42: 34000000 INFO @ Fri, 10 Dec 2021 21:28:46: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 21:28:46: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 21:28:46: #1 total tags in treatment: 13917397 INFO @ Fri, 10 Dec 2021 21:28:46: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 21:28:46: #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 21:28:46: #1 tags after filtering in treatment: 12064826 INFO @ Fri, 10 Dec 2021 21:28:46: #1 Redundant rate of treatment: 0.13 INFO @ Fri, 10 Dec 2021 21:28:46: #1 finished! INFO @ Fri, 10 Dec 2021 21:28:46: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 21:28:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 21:28:47: #2 number of paired peaks: 2728 INFO @ Fri, 10 Dec 2021 21:28:47: start model_add_line... INFO @ Fri, 10 Dec 2021 21:28:47: start X-correlation... INFO @ Fri, 10 Dec 2021 21:28:47: end of X-cor INFO @ Fri, 10 Dec 2021 21:28:47: #2 finished! INFO @ Fri, 10 Dec 2021 21:28:47: #2 predicted fragment length is 200 bps INFO @ Fri, 10 Dec 2021 21:28:47: #2 alternative fragment length(s) may be 200 bps INFO @ Fri, 10 Dec 2021 21:28:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.20_model.r INFO @ Fri, 10 Dec 2021 21:28:47: #3 Call peaks... INFO @ Fri, 10 Dec 2021 21:28:47: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 21:28:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.10_peaks.xls INFO @ Fri, 10 Dec 2021 21:28:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 21:28:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.10_summits.bed INFO @ Fri, 10 Dec 2021 21:28:52: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (10126 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 21:29:14: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 21:29:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.20_peaks.xls INFO @ Fri, 10 Dec 2021 21:29:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 21:29:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978861/ERX3978861.20_summits.bed INFO @ Fri, 10 Dec 2021 21:29:27: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6511 records, 4 fields): 9 millis CompletedMACS2peakCalling