Job ID = 14170584 SRX = SRX8497042 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15765719 spots for SRR11952641/SRR11952641.sra Written 15765719 spots for SRR11952641/SRR11952641.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171162 ("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: 00:55:38 15765719 reads; of these: 15765719 (100.00%) were paired; of these: 2313038 (14.67%) aligned concordantly 0 times 7301301 (46.31%) aligned concordantly exactly 1 time 6151380 (39.02%) aligned concordantly >1 times ---- 2313038 pairs aligned concordantly 0 times; of these: 626848 (27.10%) aligned discordantly 1 time ---- 1686190 pairs aligned 0 times concordantly or discordantly; of these: 3372380 mates make up the pairs; of these: 1967403 (58.34%) aligned 0 times 313887 (9.31%) aligned exactly 1 time 1091090 (32.35%) aligned >1 times 93.76% overall alignment rate Time searching: 00:55:38 Overall time: 00:55:38 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] 823711 / 14045615 = 0.0586 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 08:25:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.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 08:25:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:25:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:25:50: 1000000 INFO @ Sat, 11 Dec 2021 08:25:57: 2000000 INFO @ Sat, 11 Dec 2021 08:26:03: 3000000 INFO @ Sat, 11 Dec 2021 08:26:09: 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 08:26:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.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 08:26:13: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:26:13: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:26:16: 5000000 INFO @ Sat, 11 Dec 2021 08:26:21: 1000000 INFO @ Sat, 11 Dec 2021 08:26:24: 6000000 INFO @ Sat, 11 Dec 2021 08:26:29: 2000000 INFO @ Sat, 11 Dec 2021 08:26:31: 7000000 INFO @ Sat, 11 Dec 2021 08:26:36: 3000000 INFO @ Sat, 11 Dec 2021 08:26:39: 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 08:26:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.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 08:26:43: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:26:43: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:26:44: 4000000 INFO @ Sat, 11 Dec 2021 08:26:46: 9000000 INFO @ Sat, 11 Dec 2021 08:26:51: 1000000 INFO @ Sat, 11 Dec 2021 08:26:51: 5000000 INFO @ Sat, 11 Dec 2021 08:26:54: 10000000 INFO @ Sat, 11 Dec 2021 08:26:59: 2000000 INFO @ Sat, 11 Dec 2021 08:26:59: 6000000 INFO @ Sat, 11 Dec 2021 08:27:02: 11000000 INFO @ Sat, 11 Dec 2021 08:27:06: 3000000 INFO @ Sat, 11 Dec 2021 08:27:07: 7000000 INFO @ Sat, 11 Dec 2021 08:27:09: 12000000 INFO @ Sat, 11 Dec 2021 08:27:14: 4000000 INFO @ Sat, 11 Dec 2021 08:27:15: 8000000 INFO @ Sat, 11 Dec 2021 08:27:17: 13000000 INFO @ Sat, 11 Dec 2021 08:27:22: 5000000 INFO @ Sat, 11 Dec 2021 08:27:23: 9000000 INFO @ Sat, 11 Dec 2021 08:27:25: 14000000 INFO @ Sat, 11 Dec 2021 08:27:29: 6000000 INFO @ Sat, 11 Dec 2021 08:27:30: 10000000 INFO @ Sat, 11 Dec 2021 08:27:33: 15000000 INFO @ Sat, 11 Dec 2021 08:27:37: 7000000 INFO @ Sat, 11 Dec 2021 08:27:38: 11000000 INFO @ Sat, 11 Dec 2021 08:27:40: 16000000 INFO @ Sat, 11 Dec 2021 08:27:44: 8000000 INFO @ Sat, 11 Dec 2021 08:27:46: 12000000 INFO @ Sat, 11 Dec 2021 08:27:48: 17000000 INFO @ Sat, 11 Dec 2021 08:27:52: 9000000 INFO @ Sat, 11 Dec 2021 08:27:54: 13000000 INFO @ Sat, 11 Dec 2021 08:27:56: 18000000 INFO @ Sat, 11 Dec 2021 08:28:00: 10000000 INFO @ Sat, 11 Dec 2021 08:28:01: 14000000 INFO @ Sat, 11 Dec 2021 08:28:04: 19000000 INFO @ Sat, 11 Dec 2021 08:28:07: 11000000 INFO @ Sat, 11 Dec 2021 08:28:09: 15000000 INFO @ Sat, 11 Dec 2021 08:28:11: 20000000 INFO @ Sat, 11 Dec 2021 08:28:15: 12000000 INFO @ Sat, 11 Dec 2021 08:28:17: 16000000 INFO @ Sat, 11 Dec 2021 08:28:19: 21000000 INFO @ Sat, 11 Dec 2021 08:28:23: 13000000 INFO @ Sat, 11 Dec 2021 08:28:25: 17000000 INFO @ Sat, 11 Dec 2021 08:28:27: 22000000 INFO @ Sat, 11 Dec 2021 08:28:30: 14000000 INFO @ Sat, 11 Dec 2021 08:28:32: 18000000 INFO @ Sat, 11 Dec 2021 08:28:35: 23000000 INFO @ Sat, 11 Dec 2021 08:28:38: 15000000 INFO @ Sat, 11 Dec 2021 08:28:40: 19000000 INFO @ Sat, 11 Dec 2021 08:28:43: 24000000 INFO @ Sat, 11 Dec 2021 08:28:46: 16000000 INFO @ Sat, 11 Dec 2021 08:28:48: 20000000 INFO @ Sat, 11 Dec 2021 08:28:50: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:28:53: 17000000 INFO @ Sat, 11 Dec 2021 08:28:56: 21000000 INFO @ Sat, 11 Dec 2021 08:28:58: 26000000 INFO @ Sat, 11 Dec 2021 08:29:01: 18000000 INFO @ Sat, 11 Dec 2021 08:29:04: 22000000 INFO @ Sat, 11 Dec 2021 08:29:06: 27000000 INFO @ Sat, 11 Dec 2021 08:29:09: 19000000 INFO @ Sat, 11 Dec 2021 08:29:12: 23000000 INFO @ Sat, 11 Dec 2021 08:29:13: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 08:29:13: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 08:29:13: #1 total tags in treatment: 12674328 INFO @ Sat, 11 Dec 2021 08:29:13: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:29:13: #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 08:29:13: #1 tags after filtering in treatment: 11775026 INFO @ Sat, 11 Dec 2021 08:29:13: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 08:29:13: #1 finished! INFO @ Sat, 11 Dec 2021 08:29:13: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:29:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:29:14: #2 number of paired peaks: 1024 INFO @ Sat, 11 Dec 2021 08:29:14: start model_add_line... INFO @ Sat, 11 Dec 2021 08:29:14: start X-correlation... INFO @ Sat, 11 Dec 2021 08:29:14: end of X-cor INFO @ Sat, 11 Dec 2021 08:29:14: #2 finished! INFO @ Sat, 11 Dec 2021 08:29:14: #2 predicted fragment length is 237 bps INFO @ Sat, 11 Dec 2021 08:29:14: #2 alternative fragment length(s) may be 237 bps INFO @ Sat, 11 Dec 2021 08:29:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.05_model.r INFO @ Sat, 11 Dec 2021 08:29:14: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:29:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:29:17: 20000000 INFO @ Sat, 11 Dec 2021 08:29:19: 24000000 INFO @ Sat, 11 Dec 2021 08:29:24: 21000000 INFO @ Sat, 11 Dec 2021 08:29:27: 25000000 INFO @ Sat, 11 Dec 2021 08:29:32: 22000000 INFO @ Sat, 11 Dec 2021 08:29:35: 26000000 INFO @ Sat, 11 Dec 2021 08:29:40: 23000000 INFO @ Sat, 11 Dec 2021 08:29:41: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:29:43: 27000000 INFO @ Sat, 11 Dec 2021 08:29:47: 24000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:29:50: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 08:29:50: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 08:29:50: #1 total tags in treatment: 12674328 INFO @ Sat, 11 Dec 2021 08:29:50: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:29:50: #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 08:29:50: #1 tags after filtering in treatment: 11775026 INFO @ Sat, 11 Dec 2021 08:29:50: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 08:29:50: #1 finished! INFO @ Sat, 11 Dec 2021 08:29:50: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:29:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:29:51: #2 number of paired peaks: 1024 INFO @ Sat, 11 Dec 2021 08:29:51: start model_add_line... INFO @ Sat, 11 Dec 2021 08:29:51: start X-correlation... INFO @ Sat, 11 Dec 2021 08:29:51: end of X-cor INFO @ Sat, 11 Dec 2021 08:29:51: #2 finished! INFO @ Sat, 11 Dec 2021 08:29:51: #2 predicted fragment length is 237 bps INFO @ Sat, 11 Dec 2021 08:29:51: #2 alternative fragment length(s) may be 237 bps INFO @ Sat, 11 Dec 2021 08:29:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.10_model.r INFO @ Sat, 11 Dec 2021 08:29:51: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:29:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:29:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:29:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:29:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.05_summits.bed INFO @ Sat, 11 Dec 2021 08:29:53: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8992 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:29:55: 25000000 INFO @ Sat, 11 Dec 2021 08:30:02: 26000000 INFO @ Sat, 11 Dec 2021 08:30:09: 27000000 INFO @ Sat, 11 Dec 2021 08:30:15: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 08:30:15: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 08:30:15: #1 total tags in treatment: 12674328 INFO @ Sat, 11 Dec 2021 08:30:15: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:30:15: #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 08:30:16: #1 tags after filtering in treatment: 11775026 INFO @ Sat, 11 Dec 2021 08:30:16: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 08:30:16: #1 finished! INFO @ Sat, 11 Dec 2021 08:30:16: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:30:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:30:16: #2 number of paired peaks: 1024 INFO @ Sat, 11 Dec 2021 08:30:16: start model_add_line... INFO @ Sat, 11 Dec 2021 08:30:17: start X-correlation... INFO @ Sat, 11 Dec 2021 08:30:17: end of X-cor INFO @ Sat, 11 Dec 2021 08:30:17: #2 finished! INFO @ Sat, 11 Dec 2021 08:30:17: #2 predicted fragment length is 237 bps INFO @ Sat, 11 Dec 2021 08:30:17: #2 alternative fragment length(s) may be 237 bps INFO @ Sat, 11 Dec 2021 08:30:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.20_model.r INFO @ Sat, 11 Dec 2021 08:30:17: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:30:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:30:18: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:30:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:30:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:30:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.10_summits.bed INFO @ Sat, 11 Dec 2021 08:30:30: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (5590 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:30:42: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:30:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:30:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:30:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8497042/SRX8497042.20_summits.bed INFO @ Sat, 11 Dec 2021 08:30:54: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2817 records, 4 fields): 5 millis CompletedMACS2peakCalling