Job ID = 14172433 SRX = SRX7628886 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16249641 spots for SRR10963248/SRR10963248.sra Written 16249641 spots for SRR10963248/SRR10963248.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172986 ("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: 00:28:40 16249641 reads; of these: 16249641 (100.00%) were paired; of these: 800034 (4.92%) aligned concordantly 0 times 10905539 (67.11%) aligned concordantly exactly 1 time 4544068 (27.96%) aligned concordantly >1 times ---- 800034 pairs aligned concordantly 0 times; of these: 57326 (7.17%) aligned discordantly 1 time ---- 742708 pairs aligned 0 times concordantly or discordantly; of these: 1485416 mates make up the pairs; of these: 868421 (58.46%) aligned 0 times 359855 (24.23%) aligned exactly 1 time 257140 (17.31%) aligned >1 times 97.33% overall alignment rate Time searching: 00:28:40 Overall time: 00:28:40 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] 759120 / 15498879 = 0.0490 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 16:00:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.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 16:00:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:00:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:00:56: 1000000 INFO @ Sat, 11 Dec 2021 16:01:01: 2000000 INFO @ Sat, 11 Dec 2021 16:01:05: 3000000 INFO @ Sat, 11 Dec 2021 16:01:10: 4000000 INFO @ Sat, 11 Dec 2021 16:01:14: 5000000 INFO @ Sat, 11 Dec 2021 16:01:18: 6000000 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 16:01:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.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 16:01:21: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:01:22: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:01:23: 7000000 INFO @ Sat, 11 Dec 2021 16:01:26: 1000000 INFO @ Sat, 11 Dec 2021 16:01:27: 8000000 INFO @ Sat, 11 Dec 2021 16:01:31: 2000000 INFO @ Sat, 11 Dec 2021 16:01:32: 9000000 INFO @ Sat, 11 Dec 2021 16:01:35: 3000000 INFO @ Sat, 11 Dec 2021 16:01:36: 10000000 INFO @ Sat, 11 Dec 2021 16:01:39: 4000000 INFO @ Sat, 11 Dec 2021 16:01:40: 11000000 INFO @ Sat, 11 Dec 2021 16:01:44: 5000000 INFO @ Sat, 11 Dec 2021 16:01:45: 12000000 INFO @ Sat, 11 Dec 2021 16:01:48: 6000000 INFO @ Sat, 11 Dec 2021 16:01:49: 13000000 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 16:01:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.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 16:01:51: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:01:51: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:01:53: 7000000 INFO @ Sat, 11 Dec 2021 16:01:54: 14000000 INFO @ Sat, 11 Dec 2021 16:01:57: 1000000 INFO @ Sat, 11 Dec 2021 16:01:58: 8000000 INFO @ Sat, 11 Dec 2021 16:01:59: 15000000 INFO @ Sat, 11 Dec 2021 16:02:03: 9000000 INFO @ Sat, 11 Dec 2021 16:02:03: 2000000 INFO @ Sat, 11 Dec 2021 16:02:04: 16000000 INFO @ Sat, 11 Dec 2021 16:02:08: 10000000 INFO @ Sat, 11 Dec 2021 16:02:09: 3000000 INFO @ Sat, 11 Dec 2021 16:02:09: 17000000 INFO @ Sat, 11 Dec 2021 16:02:13: 11000000 INFO @ Sat, 11 Dec 2021 16:02:14: 18000000 INFO @ Sat, 11 Dec 2021 16:02:14: 4000000 INFO @ Sat, 11 Dec 2021 16:02:18: 12000000 INFO @ Sat, 11 Dec 2021 16:02:19: 19000000 INFO @ Sat, 11 Dec 2021 16:02:20: 5000000 INFO @ Sat, 11 Dec 2021 16:02:23: 13000000 INFO @ Sat, 11 Dec 2021 16:02:24: 20000000 INFO @ Sat, 11 Dec 2021 16:02:26: 6000000 INFO @ Sat, 11 Dec 2021 16:02:28: 14000000 INFO @ Sat, 11 Dec 2021 16:02:30: 21000000 INFO @ Sat, 11 Dec 2021 16:02:32: 7000000 INFO @ Sat, 11 Dec 2021 16:02:33: 15000000 INFO @ Sat, 11 Dec 2021 16:02:35: 22000000 INFO @ Sat, 11 Dec 2021 16:02:38: 8000000 INFO @ Sat, 11 Dec 2021 16:02:38: 16000000 INFO @ Sat, 11 Dec 2021 16:02:40: 23000000 INFO @ Sat, 11 Dec 2021 16:02:43: 17000000 INFO @ Sat, 11 Dec 2021 16:02:43: 9000000 INFO @ Sat, 11 Dec 2021 16:02:45: 24000000 INFO @ Sat, 11 Dec 2021 16:02:48: 18000000 INFO @ Sat, 11 Dec 2021 16:02:49: 10000000 INFO @ Sat, 11 Dec 2021 16:02:50: 25000000 INFO @ Sat, 11 Dec 2021 16:02:53: 19000000 INFO @ Sat, 11 Dec 2021 16:02:55: 11000000 INFO @ Sat, 11 Dec 2021 16:02:55: 26000000 INFO @ Sat, 11 Dec 2021 16:02:58: 20000000 INFO @ Sat, 11 Dec 2021 16:03:00: 27000000 INFO @ Sat, 11 Dec 2021 16:03:01: 12000000 INFO @ Sat, 11 Dec 2021 16:03:03: 21000000 INFO @ Sat, 11 Dec 2021 16:03:05: 28000000 INFO @ Sat, 11 Dec 2021 16:03:06: 13000000 INFO @ Sat, 11 Dec 2021 16:03:08: 22000000 INFO @ Sat, 11 Dec 2021 16:03:11: 29000000 INFO @ Sat, 11 Dec 2021 16:03:12: 14000000 INFO @ Sat, 11 Dec 2021 16:03:13: 23000000 INFO @ Sat, 11 Dec 2021 16:03:16: 30000000 INFO @ Sat, 11 Dec 2021 16:03:17: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 16:03:17: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 16:03:17: #1 total tags in treatment: 14691892 INFO @ Sat, 11 Dec 2021 16:03:17: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:03:17: #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 16:03:17: #1 tags after filtering in treatment: 13715046 INFO @ Sat, 11 Dec 2021 16:03:17: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 16:03:17: #1 finished! INFO @ Sat, 11 Dec 2021 16:03:17: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:03:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:03:18: #2 number of paired peaks: 1078 INFO @ Sat, 11 Dec 2021 16:03:18: start model_add_line... INFO @ Sat, 11 Dec 2021 16:03:18: 15000000 INFO @ Sat, 11 Dec 2021 16:03:18: start X-correlation... INFO @ Sat, 11 Dec 2021 16:03:18: end of X-cor INFO @ Sat, 11 Dec 2021 16:03:18: #2 finished! INFO @ Sat, 11 Dec 2021 16:03:18: #2 predicted fragment length is 150 bps INFO @ Sat, 11 Dec 2021 16:03:18: #2 alternative fragment length(s) may be 4,150 bps INFO @ Sat, 11 Dec 2021 16:03:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.05_model.r INFO @ Sat, 11 Dec 2021 16:03:18: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:03:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:03:18: 24000000 INFO @ Sat, 11 Dec 2021 16:03:23: 25000000 INFO @ Sat, 11 Dec 2021 16:03:24: 16000000 INFO @ Sat, 11 Dec 2021 16:03:28: 26000000 INFO @ Sat, 11 Dec 2021 16:03:30: 17000000 INFO @ Sat, 11 Dec 2021 16:03:33: 27000000 INFO @ Sat, 11 Dec 2021 16:03:35: 18000000 INFO @ Sat, 11 Dec 2021 16:03:38: 28000000 INFO @ Sat, 11 Dec 2021 16:03:41: 19000000 INFO @ Sat, 11 Dec 2021 16:03:43: 29000000 INFO @ Sat, 11 Dec 2021 16:03:47: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:03:47: 20000000 INFO @ Sat, 11 Dec 2021 16:03:48: 30000000 INFO @ Sat, 11 Dec 2021 16:03:48: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 16:03:48: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 16:03:48: #1 total tags in treatment: 14691892 INFO @ Sat, 11 Dec 2021 16:03:48: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:03:48: #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 16:03:49: #1 tags after filtering in treatment: 13715046 INFO @ Sat, 11 Dec 2021 16:03:49: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 16:03:49: #1 finished! INFO @ Sat, 11 Dec 2021 16:03:49: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:03:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:03:50: #2 number of paired peaks: 1078 INFO @ Sat, 11 Dec 2021 16:03:50: start model_add_line... INFO @ Sat, 11 Dec 2021 16:03:50: start X-correlation... INFO @ Sat, 11 Dec 2021 16:03:50: end of X-cor INFO @ Sat, 11 Dec 2021 16:03:50: #2 finished! INFO @ Sat, 11 Dec 2021 16:03:50: #2 predicted fragment length is 150 bps INFO @ Sat, 11 Dec 2021 16:03:50: #2 alternative fragment length(s) may be 4,150 bps INFO @ Sat, 11 Dec 2021 16:03:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.10_model.r INFO @ Sat, 11 Dec 2021 16:03:50: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:03:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:03:52: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 16:03:58: 22000000 INFO @ Sat, 11 Dec 2021 16:04:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.05_peaks.xls INFO @ Sat, 11 Dec 2021 16:04:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:04:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.05_summits.bed INFO @ Sat, 11 Dec 2021 16:04:00: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2666 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 16:04:03: 23000000 INFO @ Sat, 11 Dec 2021 16:04:09: 24000000 INFO @ Sat, 11 Dec 2021 16:04:14: 25000000 INFO @ Sat, 11 Dec 2021 16:04:19: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:04:20: 26000000 INFO @ Sat, 11 Dec 2021 16:04:25: 27000000 INFO @ Sat, 11 Dec 2021 16:04:31: 28000000 INFO @ Sat, 11 Dec 2021 16:04:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.10_peaks.xls INFO @ Sat, 11 Dec 2021 16:04:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:04:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.10_summits.bed INFO @ Sat, 11 Dec 2021 16:04:32: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (1636 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 16:04:36: 29000000 INFO @ Sat, 11 Dec 2021 16:04:42: 30000000 INFO @ Sat, 11 Dec 2021 16:04:43: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 16:04:43: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 16:04:43: #1 total tags in treatment: 14691892 INFO @ Sat, 11 Dec 2021 16:04:43: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:04:43: #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 16:04:43: #1 tags after filtering in treatment: 13715046 INFO @ Sat, 11 Dec 2021 16:04:43: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 16:04:43: #1 finished! INFO @ Sat, 11 Dec 2021 16:04:43: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:04:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:04:44: #2 number of paired peaks: 1078 INFO @ Sat, 11 Dec 2021 16:04:44: start model_add_line... INFO @ Sat, 11 Dec 2021 16:04:44: start X-correlation... INFO @ Sat, 11 Dec 2021 16:04:44: end of X-cor INFO @ Sat, 11 Dec 2021 16:04:44: #2 finished! INFO @ Sat, 11 Dec 2021 16:04:44: #2 predicted fragment length is 150 bps INFO @ Sat, 11 Dec 2021 16:04:44: #2 alternative fragment length(s) may be 4,150 bps INFO @ Sat, 11 Dec 2021 16:04:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.20_model.r INFO @ Sat, 11 Dec 2021 16:04:44: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:04:44: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 16:05:14: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:05:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.20_peaks.xls INFO @ Sat, 11 Dec 2021 16:05:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:05:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628886/SRX7628886.20_summits.bed INFO @ Sat, 11 Dec 2021 16:05:28: Done! pass1 - making usageList (14 chroms): 0 millis pass2 - checking and writing primary data (819 records, 4 fields): 3 millis CompletedMACS2peakCalling