Job ID = 14170688 SRX = SRX9434486 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 19217213 spots for SRR12982884/SRR12982884.sra Written 19217213 spots for SRR12982884/SRR12982884.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171204 ("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: 00:25:36 19217213 reads; of these: 19217213 (100.00%) were paired; of these: 927935 (4.83%) aligned concordantly 0 times 15936689 (82.93%) aligned concordantly exactly 1 time 2352589 (12.24%) aligned concordantly >1 times ---- 927935 pairs aligned concordantly 0 times; of these: 98294 (10.59%) aligned discordantly 1 time ---- 829641 pairs aligned 0 times concordantly or discordantly; of these: 1659282 mates make up the pairs; of these: 926990 (55.87%) aligned 0 times 382016 (23.02%) aligned exactly 1 time 350276 (21.11%) aligned >1 times 97.59% overall alignment rate Time searching: 00:25:36 Overall time: 00:25:36 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] 1381633 / 18372454 = 0.0752 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 08:36:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.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 08:36:19: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:36:19: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:36:24: 1000000 INFO @ Sat, 11 Dec 2021 08:36:28: 2000000 INFO @ Sat, 11 Dec 2021 08:36:33: 3000000 INFO @ Sat, 11 Dec 2021 08:36:37: 4000000 INFO @ Sat, 11 Dec 2021 08:36:42: 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 08:36:47: 6000000 INFO @ Sat, 11 Dec 2021 08:36:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.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 08:36:51: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:36:51: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:36:51: 7000000 INFO @ Sat, 11 Dec 2021 08:36:56: 1000000 INFO @ Sat, 11 Dec 2021 08:36:56: 8000000 INFO @ Sat, 11 Dec 2021 08:37:00: 2000000 INFO @ Sat, 11 Dec 2021 08:37:01: 9000000 INFO @ Sat, 11 Dec 2021 08:37:04: 3000000 INFO @ Sat, 11 Dec 2021 08:37:06: 10000000 INFO @ Sat, 11 Dec 2021 08:37:09: 4000000 INFO @ Sat, 11 Dec 2021 08:37:10: 11000000 INFO @ Sat, 11 Dec 2021 08:37:13: 5000000 INFO @ Sat, 11 Dec 2021 08:37:15: 12000000 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 08:37:17: 6000000 INFO @ Sat, 11 Dec 2021 08:37:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.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 08:37:18: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:37:18: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:37:20: 13000000 INFO @ Sat, 11 Dec 2021 08:37:22: 7000000 INFO @ Sat, 11 Dec 2021 08:37:23: 1000000 INFO @ Sat, 11 Dec 2021 08:37:24: 14000000 INFO @ Sat, 11 Dec 2021 08:37:26: 8000000 INFO @ Sat, 11 Dec 2021 08:37:28: 2000000 INFO @ Sat, 11 Dec 2021 08:37:29: 15000000 INFO @ Sat, 11 Dec 2021 08:37:30: 9000000 INFO @ Sat, 11 Dec 2021 08:37:33: 3000000 INFO @ Sat, 11 Dec 2021 08:37:34: 16000000 INFO @ Sat, 11 Dec 2021 08:37:35: 10000000 INFO @ Sat, 11 Dec 2021 08:37:38: 4000000 INFO @ Sat, 11 Dec 2021 08:37:39: 17000000 INFO @ Sat, 11 Dec 2021 08:37:39: 11000000 INFO @ Sat, 11 Dec 2021 08:37:43: 5000000 INFO @ Sat, 11 Dec 2021 08:37:44: 12000000 INFO @ Sat, 11 Dec 2021 08:37:44: 18000000 INFO @ Sat, 11 Dec 2021 08:37:48: 6000000 INFO @ Sat, 11 Dec 2021 08:37:48: 13000000 INFO @ Sat, 11 Dec 2021 08:37:49: 19000000 INFO @ Sat, 11 Dec 2021 08:37:53: 14000000 INFO @ Sat, 11 Dec 2021 08:37:53: 7000000 INFO @ Sat, 11 Dec 2021 08:37:54: 20000000 INFO @ Sat, 11 Dec 2021 08:37:57: 15000000 INFO @ Sat, 11 Dec 2021 08:37:58: 8000000 INFO @ Sat, 11 Dec 2021 08:37:59: 21000000 INFO @ Sat, 11 Dec 2021 08:38:01: 16000000 INFO @ Sat, 11 Dec 2021 08:38:03: 9000000 INFO @ Sat, 11 Dec 2021 08:38:04: 22000000 INFO @ Sat, 11 Dec 2021 08:38:06: 17000000 INFO @ Sat, 11 Dec 2021 08:38:08: 10000000 INFO @ Sat, 11 Dec 2021 08:38:09: 23000000 INFO @ Sat, 11 Dec 2021 08:38:10: 18000000 INFO @ Sat, 11 Dec 2021 08:38:13: 11000000 INFO @ Sat, 11 Dec 2021 08:38:13: 24000000 INFO @ Sat, 11 Dec 2021 08:38:14: 19000000 INFO @ Sat, 11 Dec 2021 08:38:18: 12000000 INFO @ Sat, 11 Dec 2021 08:38:18: 25000000 INFO @ Sat, 11 Dec 2021 08:38:19: 20000000 INFO @ Sat, 11 Dec 2021 08:38:23: 13000000 INFO @ Sat, 11 Dec 2021 08:38:23: 26000000 INFO @ Sat, 11 Dec 2021 08:38:23: 21000000 INFO @ Sat, 11 Dec 2021 08:38:28: 22000000 INFO @ Sat, 11 Dec 2021 08:38:28: 14000000 INFO @ Sat, 11 Dec 2021 08:38:28: 27000000 INFO @ Sat, 11 Dec 2021 08:38:32: 23000000 INFO @ Sat, 11 Dec 2021 08:38:33: 15000000 INFO @ Sat, 11 Dec 2021 08:38:33: 28000000 INFO @ Sat, 11 Dec 2021 08:38:37: 24000000 INFO @ Sat, 11 Dec 2021 08:38:38: 16000000 INFO @ Sat, 11 Dec 2021 08:38:38: 29000000 INFO @ Sat, 11 Dec 2021 08:38:42: 25000000 INFO @ Sat, 11 Dec 2021 08:38:43: 17000000 INFO @ Sat, 11 Dec 2021 08:38:43: 30000000 INFO @ Sat, 11 Dec 2021 08:38:46: 26000000 INFO @ Sat, 11 Dec 2021 08:38:48: 18000000 INFO @ Sat, 11 Dec 2021 08:38:48: 31000000 INFO @ Sat, 11 Dec 2021 08:38:50: 27000000 INFO @ Sat, 11 Dec 2021 08:38:52: 19000000 INFO @ Sat, 11 Dec 2021 08:38:53: 32000000 INFO @ Sat, 11 Dec 2021 08:38:55: 28000000 INFO @ Sat, 11 Dec 2021 08:38:57: 20000000 INFO @ Sat, 11 Dec 2021 08:38:58: 33000000 INFO @ Sat, 11 Dec 2021 08:38:59: 29000000 INFO @ Sat, 11 Dec 2021 08:39:02: 21000000 INFO @ Sat, 11 Dec 2021 08:39:03: 34000000 INFO @ Sat, 11 Dec 2021 08:39:03: 30000000 INFO @ Sat, 11 Dec 2021 08:39:07: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:39:07: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:39:07: #1 total tags in treatment: 16914710 INFO @ Sat, 11 Dec 2021 08:39:07: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:39:07: #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 08:39:07: 22000000 INFO @ Sat, 11 Dec 2021 08:39:07: #1 tags after filtering in treatment: 12762640 INFO @ Sat, 11 Dec 2021 08:39:07: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 11 Dec 2021 08:39:07: #1 finished! INFO @ Sat, 11 Dec 2021 08:39:07: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:39:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:39:07: 31000000 INFO @ Sat, 11 Dec 2021 08:39:09: #2 number of paired peaks: 13756 INFO @ Sat, 11 Dec 2021 08:39:09: start model_add_line... INFO @ Sat, 11 Dec 2021 08:39:09: start X-correlation... INFO @ Sat, 11 Dec 2021 08:39:09: end of X-cor INFO @ Sat, 11 Dec 2021 08:39:09: #2 finished! INFO @ Sat, 11 Dec 2021 08:39:09: #2 predicted fragment length is 141 bps INFO @ Sat, 11 Dec 2021 08:39:09: #2 alternative fragment length(s) may be 141 bps INFO @ Sat, 11 Dec 2021 08:39:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.05_model.r INFO @ Sat, 11 Dec 2021 08:39:09: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:39:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:39:12: 23000000 INFO @ Sat, 11 Dec 2021 08:39:12: 32000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:39:16: 24000000 INFO @ Sat, 11 Dec 2021 08:39:16: 33000000 INFO @ Sat, 11 Dec 2021 08:39:20: 34000000 INFO @ Sat, 11 Dec 2021 08:39:21: 25000000 INFO @ Sat, 11 Dec 2021 08:39:24: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:39:24: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:39:24: #1 total tags in treatment: 16914710 INFO @ Sat, 11 Dec 2021 08:39:24: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:39:24: #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 08:39:24: #1 tags after filtering in treatment: 12762640 INFO @ Sat, 11 Dec 2021 08:39:24: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 11 Dec 2021 08:39:24: #1 finished! INFO @ Sat, 11 Dec 2021 08:39:24: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:39:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:39:25: 26000000 INFO @ Sat, 11 Dec 2021 08:39:26: #2 number of paired peaks: 13756 INFO @ Sat, 11 Dec 2021 08:39:26: start model_add_line... INFO @ Sat, 11 Dec 2021 08:39:26: start X-correlation... INFO @ Sat, 11 Dec 2021 08:39:26: end of X-cor INFO @ Sat, 11 Dec 2021 08:39:26: #2 finished! INFO @ Sat, 11 Dec 2021 08:39:26: #2 predicted fragment length is 141 bps INFO @ Sat, 11 Dec 2021 08:39:26: #2 alternative fragment length(s) may be 141 bps INFO @ Sat, 11 Dec 2021 08:39:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.10_model.r INFO @ Sat, 11 Dec 2021 08:39:26: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:39:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:39:30: 27000000 INFO @ Sat, 11 Dec 2021 08:39:34: 28000000 INFO @ Sat, 11 Dec 2021 08:39:39: 29000000 INFO @ Sat, 11 Dec 2021 08:39:41: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:39:44: 30000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:39:48: 31000000 INFO @ Sat, 11 Dec 2021 08:39:53: 32000000 INFO @ Sat, 11 Dec 2021 08:39:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:39:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:39:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.05_summits.bed INFO @ Sat, 11 Dec 2021 08:39:55: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (12406 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:39:58: 33000000 INFO @ Sat, 11 Dec 2021 08:40:00: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:40:03: 34000000 INFO @ Sat, 11 Dec 2021 08:40:06: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:40:06: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:40:06: #1 total tags in treatment: 16914710 INFO @ Sat, 11 Dec 2021 08:40:06: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:40:06: #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 08:40:07: #1 tags after filtering in treatment: 12762640 INFO @ Sat, 11 Dec 2021 08:40:07: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 11 Dec 2021 08:40:07: #1 finished! INFO @ Sat, 11 Dec 2021 08:40:07: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:40:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:40:08: #2 number of paired peaks: 13756 INFO @ Sat, 11 Dec 2021 08:40:08: start model_add_line... INFO @ Sat, 11 Dec 2021 08:40:09: start X-correlation... INFO @ Sat, 11 Dec 2021 08:40:09: end of X-cor INFO @ Sat, 11 Dec 2021 08:40:09: #2 finished! INFO @ Sat, 11 Dec 2021 08:40:09: #2 predicted fragment length is 141 bps INFO @ Sat, 11 Dec 2021 08:40:09: #2 alternative fragment length(s) may be 141 bps INFO @ Sat, 11 Dec 2021 08:40:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.20_model.r INFO @ Sat, 11 Dec 2021 08:40:09: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:40:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:40:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:40:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:40:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.10_summits.bed INFO @ Sat, 11 Dec 2021 08:40:14: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (10461 records, 4 fields): 58 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:40:40: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:40:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:40:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:40:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434486/SRX9434486.20_summits.bed INFO @ Sat, 11 Dec 2021 08:40:54: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (7758 records, 4 fields): 8 millis CompletedMACS2peakCalling