Job ID = 14168144 SRX = SRX7175246 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 24167348 spots for SRR10485686/SRR10485686.sra Written 24167348 spots for SRR10485686/SRR10485686.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169063 ("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: 00:39:00 24167348 reads; of these: 24167348 (100.00%) were paired; of these: 4418139 (18.28%) aligned concordantly 0 times 17804651 (73.67%) aligned concordantly exactly 1 time 1944558 (8.05%) aligned concordantly >1 times ---- 4418139 pairs aligned concordantly 0 times; of these: 340582 (7.71%) aligned discordantly 1 time ---- 4077557 pairs aligned 0 times concordantly or discordantly; of these: 8155114 mates make up the pairs; of these: 7492749 (91.88%) aligned 0 times 458706 (5.62%) aligned exactly 1 time 203659 (2.50%) aligned >1 times 84.50% overall alignment rate Time searching: 00:39:00 Overall time: 00:39:00 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 20 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] 2974118 / 20031082 = 0.1485 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 16:37:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.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 16:37:05: #1 read tag files... INFO @ Fri, 10 Dec 2021 16:37:05: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 16:37:12: 1000000 INFO @ Fri, 10 Dec 2021 16:37:18: 2000000 INFO @ Fri, 10 Dec 2021 16:37:24: 3000000 INFO @ Fri, 10 Dec 2021 16:37:31: 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 @ Fri, 10 Dec 2021 16:37:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.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 16:37:35: #1 read tag files... INFO @ Fri, 10 Dec 2021 16:37:35: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 16:37:38: 5000000 INFO @ Fri, 10 Dec 2021 16:37:42: 1000000 INFO @ Fri, 10 Dec 2021 16:37:45: 6000000 INFO @ Fri, 10 Dec 2021 16:37:49: 2000000 INFO @ Fri, 10 Dec 2021 16:37:52: 7000000 INFO @ Fri, 10 Dec 2021 16:37:56: 3000000 INFO @ Fri, 10 Dec 2021 16:38:00: 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 @ Fri, 10 Dec 2021 16:38:03: 4000000 INFO @ Fri, 10 Dec 2021 16:38:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.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 16:38:05: #1 read tag files... INFO @ Fri, 10 Dec 2021 16:38:05: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 16:38:07: 9000000 INFO @ Fri, 10 Dec 2021 16:38:10: 5000000 INFO @ Fri, 10 Dec 2021 16:38:14: 1000000 INFO @ Fri, 10 Dec 2021 16:38:15: 10000000 INFO @ Fri, 10 Dec 2021 16:38:18: 6000000 INFO @ Fri, 10 Dec 2021 16:38:22: 11000000 INFO @ Fri, 10 Dec 2021 16:38:23: 2000000 INFO @ Fri, 10 Dec 2021 16:38:25: 7000000 INFO @ Fri, 10 Dec 2021 16:38:30: 12000000 INFO @ Fri, 10 Dec 2021 16:38:32: 3000000 INFO @ Fri, 10 Dec 2021 16:38:33: 8000000 INFO @ Fri, 10 Dec 2021 16:38:38: 13000000 INFO @ Fri, 10 Dec 2021 16:38:40: 9000000 INFO @ Fri, 10 Dec 2021 16:38:41: 4000000 INFO @ Fri, 10 Dec 2021 16:38:45: 14000000 INFO @ Fri, 10 Dec 2021 16:38:47: 10000000 INFO @ Fri, 10 Dec 2021 16:38:50: 5000000 INFO @ Fri, 10 Dec 2021 16:38:53: 15000000 INFO @ Fri, 10 Dec 2021 16:38:55: 11000000 INFO @ Fri, 10 Dec 2021 16:38:59: 6000000 INFO @ Fri, 10 Dec 2021 16:39:01: 16000000 INFO @ Fri, 10 Dec 2021 16:39:02: 12000000 INFO @ Fri, 10 Dec 2021 16:39:08: 7000000 INFO @ Fri, 10 Dec 2021 16:39:09: 17000000 INFO @ Fri, 10 Dec 2021 16:39:10: 13000000 INFO @ Fri, 10 Dec 2021 16:39:16: 18000000 INFO @ Fri, 10 Dec 2021 16:39:17: 8000000 INFO @ Fri, 10 Dec 2021 16:39:17: 14000000 INFO @ Fri, 10 Dec 2021 16:39:24: 19000000 INFO @ Fri, 10 Dec 2021 16:39:25: 15000000 INFO @ Fri, 10 Dec 2021 16:39:26: 9000000 INFO @ Fri, 10 Dec 2021 16:39:31: 20000000 INFO @ Fri, 10 Dec 2021 16:39:32: 16000000 INFO @ Fri, 10 Dec 2021 16:39:35: 10000000 INFO @ Fri, 10 Dec 2021 16:39:39: 21000000 INFO @ Fri, 10 Dec 2021 16:39:39: 17000000 INFO @ Fri, 10 Dec 2021 16:39:44: 11000000 INFO @ Fri, 10 Dec 2021 16:39:46: 22000000 INFO @ Fri, 10 Dec 2021 16:39:47: 18000000 INFO @ Fri, 10 Dec 2021 16:39:53: 12000000 INFO @ Fri, 10 Dec 2021 16:39:54: 23000000 INFO @ Fri, 10 Dec 2021 16:39:54: 19000000 INFO @ Fri, 10 Dec 2021 16:40:01: 24000000 INFO @ Fri, 10 Dec 2021 16:40:01: 20000000 INFO @ Fri, 10 Dec 2021 16:40:01: 13000000 INFO @ Fri, 10 Dec 2021 16:40:08: 25000000 INFO @ Fri, 10 Dec 2021 16:40:09: 21000000 INFO @ Fri, 10 Dec 2021 16:40:10: 14000000 INFO @ Fri, 10 Dec 2021 16:40:16: 22000000 INFO @ Fri, 10 Dec 2021 16:40:16: 26000000 INFO @ Fri, 10 Dec 2021 16:40:18: 15000000 INFO @ Fri, 10 Dec 2021 16:40:23: 23000000 INFO @ Fri, 10 Dec 2021 16:40:23: 27000000 INFO @ Fri, 10 Dec 2021 16:40:27: 16000000 INFO @ Fri, 10 Dec 2021 16:40:31: 24000000 INFO @ Fri, 10 Dec 2021 16:40:31: 28000000 INFO @ Fri, 10 Dec 2021 16:40:36: 17000000 INFO @ Fri, 10 Dec 2021 16:40:38: 25000000 INFO @ Fri, 10 Dec 2021 16:40:38: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 16:40:44: 18000000 INFO @ Fri, 10 Dec 2021 16:40:45: 26000000 INFO @ Fri, 10 Dec 2021 16:40:46: 30000000 INFO @ Fri, 10 Dec 2021 16:40:52: 27000000 INFO @ Fri, 10 Dec 2021 16:40:53: 19000000 INFO @ Fri, 10 Dec 2021 16:40:53: 31000000 INFO @ Fri, 10 Dec 2021 16:40:59: 28000000 INFO @ Fri, 10 Dec 2021 16:41:00: 32000000 INFO @ Fri, 10 Dec 2021 16:41:02: 20000000 INFO @ Fri, 10 Dec 2021 16:41:07: 29000000 INFO @ Fri, 10 Dec 2021 16:41:07: 33000000 INFO @ Fri, 10 Dec 2021 16:41:11: 21000000 INFO @ Fri, 10 Dec 2021 16:41:14: 30000000 INFO @ Fri, 10 Dec 2021 16:41:14: 34000000 INFO @ Fri, 10 Dec 2021 16:41:20: 22000000 INFO @ Fri, 10 Dec 2021 16:41:21: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 16:41:21: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 16:41:21: #1 total tags in treatment: 16791555 INFO @ Fri, 10 Dec 2021 16:41:21: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 16:41:21: #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 16:41:21: 31000000 INFO @ Fri, 10 Dec 2021 16:41:21: #1 tags after filtering in treatment: 9971833 INFO @ Fri, 10 Dec 2021 16:41:21: #1 Redundant rate of treatment: 0.41 INFO @ Fri, 10 Dec 2021 16:41:21: #1 finished! INFO @ Fri, 10 Dec 2021 16:41:21: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 16:41:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 16:41:23: #2 number of paired peaks: 9026 INFO @ Fri, 10 Dec 2021 16:41:23: start model_add_line... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 16:41:23: start X-correlation... INFO @ Fri, 10 Dec 2021 16:41:23: end of X-cor INFO @ Fri, 10 Dec 2021 16:41:23: #2 finished! INFO @ Fri, 10 Dec 2021 16:41:23: #2 predicted fragment length is 209 bps INFO @ Fri, 10 Dec 2021 16:41:23: #2 alternative fragment length(s) may be 209 bps INFO @ Fri, 10 Dec 2021 16:41:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.05_model.r INFO @ Fri, 10 Dec 2021 16:41:23: #3 Call peaks... INFO @ Fri, 10 Dec 2021 16:41:23: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 16:41:28: 32000000 INFO @ Fri, 10 Dec 2021 16:41:29: 23000000 INFO @ Fri, 10 Dec 2021 16:41:34: 33000000 INFO @ Fri, 10 Dec 2021 16:41:37: 24000000 INFO @ Fri, 10 Dec 2021 16:41:41: 34000000 INFO @ Fri, 10 Dec 2021 16:41:46: 25000000 INFO @ Fri, 10 Dec 2021 16:41:47: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 16:41:47: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 16:41:47: #1 total tags in treatment: 16791555 INFO @ Fri, 10 Dec 2021 16:41:47: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 16:41:47: #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 16:41:48: #1 tags after filtering in treatment: 9971833 INFO @ Fri, 10 Dec 2021 16:41:48: #1 Redundant rate of treatment: 0.41 INFO @ Fri, 10 Dec 2021 16:41:48: #1 finished! INFO @ Fri, 10 Dec 2021 16:41:48: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 16:41:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 16:41:49: #2 number of paired peaks: 9026 INFO @ Fri, 10 Dec 2021 16:41:49: start model_add_line... INFO @ Fri, 10 Dec 2021 16:41:49: start X-correlation... INFO @ Fri, 10 Dec 2021 16:41:49: end of X-cor INFO @ Fri, 10 Dec 2021 16:41:49: #2 finished! INFO @ Fri, 10 Dec 2021 16:41:49: #2 predicted fragment length is 209 bps INFO @ Fri, 10 Dec 2021 16:41:49: #2 alternative fragment length(s) may be 209 bps INFO @ Fri, 10 Dec 2021 16:41:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.10_model.r INFO @ Fri, 10 Dec 2021 16:41:49: #3 Call peaks... INFO @ Fri, 10 Dec 2021 16:41:49: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 16:41:55: 26000000 INFO @ Fri, 10 Dec 2021 16:42:02: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 16:42:03: 27000000 INFO @ Fri, 10 Dec 2021 16:42:12: 28000000 INFO @ Fri, 10 Dec 2021 16:42:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.05_peaks.xls INFO @ Fri, 10 Dec 2021 16:42:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 16:42:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.05_summits.bed INFO @ Fri, 10 Dec 2021 16:42:14: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6099 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 16:42:21: 29000000 INFO @ Fri, 10 Dec 2021 16:42:28: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 16:42:29: 30000000 INFO @ Fri, 10 Dec 2021 16:42:38: 31000000 INFO @ Fri, 10 Dec 2021 16:42:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.10_peaks.xls INFO @ Fri, 10 Dec 2021 16:42:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 16:42:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.10_summits.bed INFO @ Fri, 10 Dec 2021 16:42:40: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (5714 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 16:42:47: 32000000 INFO @ Fri, 10 Dec 2021 16:42:55: 33000000 INFO @ Fri, 10 Dec 2021 16:43:04: 34000000 INFO @ Fri, 10 Dec 2021 16:43:12: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 16:43:12: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 16:43:12: #1 total tags in treatment: 16791555 INFO @ Fri, 10 Dec 2021 16:43:12: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 16:43:12: #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 16:43:12: #1 tags after filtering in treatment: 9971833 INFO @ Fri, 10 Dec 2021 16:43:12: #1 Redundant rate of treatment: 0.41 INFO @ Fri, 10 Dec 2021 16:43:12: #1 finished! INFO @ Fri, 10 Dec 2021 16:43:12: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 16:43:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 16:43:13: #2 number of paired peaks: 9026 INFO @ Fri, 10 Dec 2021 16:43:13: start model_add_line... INFO @ Fri, 10 Dec 2021 16:43:14: start X-correlation... INFO @ Fri, 10 Dec 2021 16:43:14: end of X-cor INFO @ Fri, 10 Dec 2021 16:43:14: #2 finished! INFO @ Fri, 10 Dec 2021 16:43:14: #2 predicted fragment length is 209 bps INFO @ Fri, 10 Dec 2021 16:43:14: #2 alternative fragment length(s) may be 209 bps INFO @ Fri, 10 Dec 2021 16:43:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.20_model.r INFO @ Fri, 10 Dec 2021 16:43:14: #3 Call peaks... INFO @ Fri, 10 Dec 2021 16:43:14: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 16:43:53: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 16:44:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.20_peaks.xls INFO @ Fri, 10 Dec 2021 16:44:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 16:44:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7175246/SRX7175246.20_summits.bed INFO @ Fri, 10 Dec 2021 16:44:05: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (5211 records, 4 fields): 9 millis CompletedMACS2peakCalling