Job ID = 14170554 SRX = SRX9372355 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16733021 spots for SRR12907632/SRR12907632.sra Written 16733021 spots for SRR12907632/SRR12907632.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171012 ("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: 00:18:18 16733021 reads; of these: 16733021 (100.00%) were paired; of these: 7288706 (43.56%) aligned concordantly 0 times 8269948 (49.42%) aligned concordantly exactly 1 time 1174367 (7.02%) aligned concordantly >1 times ---- 7288706 pairs aligned concordantly 0 times; of these: 862411 (11.83%) aligned discordantly 1 time ---- 6426295 pairs aligned 0 times concordantly or discordantly; of these: 12852590 mates make up the pairs; of these: 11913306 (92.69%) aligned 0 times 650318 (5.06%) aligned exactly 1 time 288966 (2.25%) aligned >1 times 64.40% overall alignment rate Time searching: 00:18:18 Overall time: 00:18:18 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 12 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] 1501026 / 10294314 = 0.1458 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 07:37:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.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 07:37:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:37:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:38:00: 1000000 INFO @ Sat, 11 Dec 2021 07:38:08: 2000000 INFO @ Sat, 11 Dec 2021 07:38:16: 3000000 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 07:38:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.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 07:38:23: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:38:23: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:38:24: 4000000 INFO @ Sat, 11 Dec 2021 07:38:32: 5000000 INFO @ Sat, 11 Dec 2021 07:38:34: 1000000 INFO @ Sat, 11 Dec 2021 07:38:40: 6000000 INFO @ Sat, 11 Dec 2021 07:38:46: 2000000 INFO @ Sat, 11 Dec 2021 07:38:49: 7000000 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 07:38:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.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 07:38:53: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:38:53: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:38:57: 8000000 INFO @ Sat, 11 Dec 2021 07:38:58: 3000000 INFO @ Sat, 11 Dec 2021 07:39:02: 1000000 INFO @ Sat, 11 Dec 2021 07:39:05: 9000000 INFO @ Sat, 11 Dec 2021 07:39:09: 4000000 INFO @ Sat, 11 Dec 2021 07:39:11: 2000000 INFO @ Sat, 11 Dec 2021 07:39:13: 10000000 INFO @ Sat, 11 Dec 2021 07:39:20: 3000000 INFO @ Sat, 11 Dec 2021 07:39:20: 11000000 INFO @ Sat, 11 Dec 2021 07:39:21: 5000000 INFO @ Sat, 11 Dec 2021 07:39:29: 12000000 INFO @ Sat, 11 Dec 2021 07:39:30: 4000000 INFO @ Sat, 11 Dec 2021 07:39:33: 6000000 INFO @ Sat, 11 Dec 2021 07:39:37: 13000000 INFO @ Sat, 11 Dec 2021 07:39:40: 5000000 INFO @ Sat, 11 Dec 2021 07:39:45: 7000000 INFO @ Sat, 11 Dec 2021 07:39:45: 14000000 INFO @ Sat, 11 Dec 2021 07:39:49: 6000000 INFO @ Sat, 11 Dec 2021 07:39:54: 15000000 INFO @ Sat, 11 Dec 2021 07:39:56: 8000000 INFO @ Sat, 11 Dec 2021 07:39:59: 7000000 INFO @ Sat, 11 Dec 2021 07:40:02: 16000000 INFO @ Sat, 11 Dec 2021 07:40:08: 8000000 INFO @ Sat, 11 Dec 2021 07:40:08: 9000000 INFO @ Sat, 11 Dec 2021 07:40:11: 17000000 INFO @ Sat, 11 Dec 2021 07:40:18: 9000000 INFO @ Sat, 11 Dec 2021 07:40:19: 18000000 INFO @ Sat, 11 Dec 2021 07:40:20: 10000000 INFO @ Sat, 11 Dec 2021 07:40:24: #1 tag size is determined as 43 bps INFO @ Sat, 11 Dec 2021 07:40:24: #1 tag size = 43 INFO @ Sat, 11 Dec 2021 07:40:24: #1 total tags in treatment: 8030054 INFO @ Sat, 11 Dec 2021 07:40:24: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:40:24: #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 07:40:24: #1 tags after filtering in treatment: 7539566 INFO @ Sat, 11 Dec 2021 07:40:24: #1 Redundant rate of treatment: 0.06 INFO @ Sat, 11 Dec 2021 07:40:24: #1 finished! INFO @ Sat, 11 Dec 2021 07:40:24: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:40:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:40:25: #2 number of paired peaks: 6582 INFO @ Sat, 11 Dec 2021 07:40:25: start model_add_line... INFO @ Sat, 11 Dec 2021 07:40:25: start X-correlation... INFO @ Sat, 11 Dec 2021 07:40:25: end of X-cor INFO @ Sat, 11 Dec 2021 07:40:25: #2 finished! INFO @ Sat, 11 Dec 2021 07:40:25: #2 predicted fragment length is 246 bps INFO @ Sat, 11 Dec 2021 07:40:25: #2 alternative fragment length(s) may be 4,246 bps INFO @ Sat, 11 Dec 2021 07:40:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.05_model.r INFO @ Sat, 11 Dec 2021 07:40:25: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:40:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:40:27: 10000000 INFO @ Sat, 11 Dec 2021 07:40:31: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 07:40:36: 11000000 INFO @ Sat, 11 Dec 2021 07:40:43: 12000000 INFO @ Sat, 11 Dec 2021 07:40:45: 12000000 INFO @ Sat, 11 Dec 2021 07:40:53: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:40:55: 13000000 INFO @ Sat, 11 Dec 2021 07:40:55: 13000000 INFO @ Sat, 11 Dec 2021 07:41:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.05_peaks.xls INFO @ Sat, 11 Dec 2021 07:41:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:41:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.05_summits.bed INFO @ Sat, 11 Dec 2021 07:41:04: Done! pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (1305 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:41:04: 14000000 INFO @ Sat, 11 Dec 2021 07:41:06: 14000000 INFO @ Sat, 11 Dec 2021 07:41:14: 15000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 07:41:18: 15000000 INFO @ Sat, 11 Dec 2021 07:41:24: 16000000 INFO @ Sat, 11 Dec 2021 07:41:30: 16000000 INFO @ Sat, 11 Dec 2021 07:41:34: 17000000 INFO @ Sat, 11 Dec 2021 07:41:41: 17000000 INFO @ Sat, 11 Dec 2021 07:41:44: 18000000 INFO @ Sat, 11 Dec 2021 07:41:49: #1 tag size is determined as 43 bps INFO @ Sat, 11 Dec 2021 07:41:49: #1 tag size = 43 INFO @ Sat, 11 Dec 2021 07:41:49: #1 total tags in treatment: 8030054 INFO @ Sat, 11 Dec 2021 07:41:49: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:41:49: #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 07:41:49: #1 tags after filtering in treatment: 7539566 INFO @ Sat, 11 Dec 2021 07:41:49: #1 Redundant rate of treatment: 0.06 INFO @ Sat, 11 Dec 2021 07:41:49: #1 finished! INFO @ Sat, 11 Dec 2021 07:41:49: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:41:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:41:50: #2 number of paired peaks: 6582 INFO @ Sat, 11 Dec 2021 07:41:50: start model_add_line... INFO @ Sat, 11 Dec 2021 07:41:50: start X-correlation... INFO @ Sat, 11 Dec 2021 07:41:50: end of X-cor INFO @ Sat, 11 Dec 2021 07:41:50: #2 finished! INFO @ Sat, 11 Dec 2021 07:41:50: #2 predicted fragment length is 246 bps INFO @ Sat, 11 Dec 2021 07:41:50: #2 alternative fragment length(s) may be 4,246 bps INFO @ Sat, 11 Dec 2021 07:41:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.20_model.r INFO @ Sat, 11 Dec 2021 07:41:50: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:41:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:41:53: 18000000 INFO @ Sat, 11 Dec 2021 07:41:59: #1 tag size is determined as 43 bps INFO @ Sat, 11 Dec 2021 07:41:59: #1 tag size = 43 INFO @ Sat, 11 Dec 2021 07:41:59: #1 total tags in treatment: 8030054 INFO @ Sat, 11 Dec 2021 07:41:59: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:41:59: #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 07:41:59: #1 tags after filtering in treatment: 7539566 INFO @ Sat, 11 Dec 2021 07:41:59: #1 Redundant rate of treatment: 0.06 INFO @ Sat, 11 Dec 2021 07:41:59: #1 finished! INFO @ Sat, 11 Dec 2021 07:41:59: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:41:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:42:00: #2 number of paired peaks: 6582 INFO @ Sat, 11 Dec 2021 07:42:00: start model_add_line... INFO @ Sat, 11 Dec 2021 07:42:00: start X-correlation... INFO @ Sat, 11 Dec 2021 07:42:00: end of X-cor INFO @ Sat, 11 Dec 2021 07:42:00: #2 finished! INFO @ Sat, 11 Dec 2021 07:42:00: #2 predicted fragment length is 246 bps INFO @ Sat, 11 Dec 2021 07:42:00: #2 alternative fragment length(s) may be 4,246 bps INFO @ Sat, 11 Dec 2021 07:42:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.10_model.r INFO @ Sat, 11 Dec 2021 07:42:00: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:42:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:42:19: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:42:28: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:42:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.20_peaks.xls INFO @ Sat, 11 Dec 2021 07:42:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:42:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.20_summits.bed INFO @ Sat, 11 Dec 2021 07:42:31: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (160 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:42:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.10_peaks.xls INFO @ Sat, 11 Dec 2021 07:42:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:42:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9372355/SRX9372355.10_summits.bed INFO @ Sat, 11 Dec 2021 07:42:39: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (504 records, 4 fields): 2 millis CompletedMACS2peakCalling