Job ID = 14172204 SRX = SRX9281731 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8256583 spots for SRR12813213/SRR12813213.sra Written 8256583 spots for SRR12813213/SRR12813213.sra Read 8117737 spots for SRR12813214/SRR12813214.sra Written 8117737 spots for SRR12813214/SRR12813214.sra Read 8446174 spots for SRR12813215/SRR12813215.sra Written 8446174 spots for SRR12813215/SRR12813215.sra Read 8271011 spots for SRR12813216/SRR12813216.sra Written 8271011 spots for SRR12813216/SRR12813216.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172747 ("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: 00:13:22 33091505 reads; of these: 33091505 (100.00%) were paired; of these: 25648184 (77.51%) aligned concordantly 0 times 6091301 (18.41%) aligned concordantly exactly 1 time 1352020 (4.09%) aligned concordantly >1 times ---- 25648184 pairs aligned concordantly 0 times; of these: 57631 (0.22%) aligned discordantly 1 time ---- 25590553 pairs aligned 0 times concordantly or discordantly; of these: 51181106 mates make up the pairs; of these: 49840302 (97.38%) aligned 0 times 778313 (1.52%) aligned exactly 1 time 562491 (1.10%) aligned >1 times 24.69% overall alignment rate Time searching: 00:13:22 Overall time: 00:13:22 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 8 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] 378152 / 7460937 = 0.0507 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 15:07:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.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 15:07:59: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:07:59: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:08:05: 1000000 INFO @ Sat, 11 Dec 2021 15:08:11: 2000000 INFO @ Sat, 11 Dec 2021 15:08:16: 3000000 INFO @ Sat, 11 Dec 2021 15:08:22: 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 15:08:28: 5000000 INFO @ Sat, 11 Dec 2021 15:08:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.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 15:08:29: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:08:29: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:08:34: 6000000 INFO @ Sat, 11 Dec 2021 15:08:36: 1000000 INFO @ Sat, 11 Dec 2021 15:08:41: 7000000 INFO @ Sat, 11 Dec 2021 15:08:42: 2000000 INFO @ Sat, 11 Dec 2021 15:08:47: 8000000 INFO @ Sat, 11 Dec 2021 15:08:49: 3000000 INFO @ Sat, 11 Dec 2021 15:08:53: 9000000 INFO @ Sat, 11 Dec 2021 15:08:56: 4000000 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 15:08:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.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 15:08:59: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:08:59: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:09:00: 10000000 INFO @ Sat, 11 Dec 2021 15:09:02: 5000000 INFO @ Sat, 11 Dec 2021 15:09:05: 1000000 INFO @ Sat, 11 Dec 2021 15:09:06: 11000000 INFO @ Sat, 11 Dec 2021 15:09:09: 6000000 INFO @ Sat, 11 Dec 2021 15:09:11: 2000000 INFO @ Sat, 11 Dec 2021 15:09:13: 12000000 INFO @ Sat, 11 Dec 2021 15:09:16: 7000000 INFO @ Sat, 11 Dec 2021 15:09:17: 3000000 INFO @ Sat, 11 Dec 2021 15:09:20: 13000000 INFO @ Sat, 11 Dec 2021 15:09:23: 8000000 INFO @ Sat, 11 Dec 2021 15:09:23: 4000000 INFO @ Sat, 11 Dec 2021 15:09:26: 14000000 INFO @ Sat, 11 Dec 2021 15:09:30: 5000000 INFO @ Sat, 11 Dec 2021 15:09:30: 9000000 INFO @ Sat, 11 Dec 2021 15:09:33: 15000000 INFO @ Sat, 11 Dec 2021 15:09:36: 6000000 INFO @ Sat, 11 Dec 2021 15:09:36: 10000000 INFO @ Sat, 11 Dec 2021 15:09:36: #1 tag size is determined as 39 bps INFO @ Sat, 11 Dec 2021 15:09:36: #1 tag size = 39 INFO @ Sat, 11 Dec 2021 15:09:36: #1 total tags in treatment: 7065601 INFO @ Sat, 11 Dec 2021 15:09:36: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:09:36: #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 15:09:37: #1 tags after filtering in treatment: 6365003 INFO @ Sat, 11 Dec 2021 15:09:37: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 11 Dec 2021 15:09:37: #1 finished! INFO @ Sat, 11 Dec 2021 15:09:37: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:09:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:09:37: #2 number of paired peaks: 1006 INFO @ Sat, 11 Dec 2021 15:09:37: start model_add_line... INFO @ Sat, 11 Dec 2021 15:09:37: start X-correlation... INFO @ Sat, 11 Dec 2021 15:09:37: end of X-cor INFO @ Sat, 11 Dec 2021 15:09:37: #2 finished! INFO @ Sat, 11 Dec 2021 15:09:37: #2 predicted fragment length is 138 bps INFO @ Sat, 11 Dec 2021 15:09:37: #2 alternative fragment length(s) may be 4,138,589 bps INFO @ Sat, 11 Dec 2021 15:09:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.05_model.r INFO @ Sat, 11 Dec 2021 15:09:37: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:09:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:09:42: 7000000 INFO @ Sat, 11 Dec 2021 15:09:43: 11000000 INFO @ Sat, 11 Dec 2021 15:09:48: 8000000 INFO @ Sat, 11 Dec 2021 15:09:50: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:09:50: 12000000 INFO @ Sat, 11 Dec 2021 15:09:53: 9000000 INFO @ Sat, 11 Dec 2021 15:09:57: 13000000 INFO @ Sat, 11 Dec 2021 15:09:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:09:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:09:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.05_summits.bed INFO @ Sat, 11 Dec 2021 15:09:57: Done! pass1 - making usageList (14 chroms): 0 millis pass2 - checking and writing primary data (1018 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:09:59: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:10:03: 14000000 INFO @ Sat, 11 Dec 2021 15:10:05: 11000000 INFO @ Sat, 11 Dec 2021 15:10:10: 15000000 INFO @ Sat, 11 Dec 2021 15:10:11: 12000000 INFO @ Sat, 11 Dec 2021 15:10:14: #1 tag size is determined as 39 bps INFO @ Sat, 11 Dec 2021 15:10:14: #1 tag size = 39 INFO @ Sat, 11 Dec 2021 15:10:14: #1 total tags in treatment: 7065601 INFO @ Sat, 11 Dec 2021 15:10:14: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:10:14: #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 15:10:14: #1 tags after filtering in treatment: 6365003 INFO @ Sat, 11 Dec 2021 15:10:14: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 11 Dec 2021 15:10:14: #1 finished! INFO @ Sat, 11 Dec 2021 15:10:14: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:10:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:10:15: #2 number of paired peaks: 1006 INFO @ Sat, 11 Dec 2021 15:10:15: start model_add_line... INFO @ Sat, 11 Dec 2021 15:10:15: start X-correlation... INFO @ Sat, 11 Dec 2021 15:10:15: end of X-cor INFO @ Sat, 11 Dec 2021 15:10:15: #2 finished! INFO @ Sat, 11 Dec 2021 15:10:15: #2 predicted fragment length is 138 bps INFO @ Sat, 11 Dec 2021 15:10:15: #2 alternative fragment length(s) may be 4,138,589 bps INFO @ Sat, 11 Dec 2021 15:10:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.10_model.r INFO @ Sat, 11 Dec 2021 15:10:15: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:10:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:10:17: 13000000 INFO @ Sat, 11 Dec 2021 15:10:22: 14000000 INFO @ Sat, 11 Dec 2021 15:10:28: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:10:28: 15000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:10:31: #1 tag size is determined as 39 bps INFO @ Sat, 11 Dec 2021 15:10:31: #1 tag size = 39 INFO @ Sat, 11 Dec 2021 15:10:31: #1 total tags in treatment: 7065601 INFO @ Sat, 11 Dec 2021 15:10:31: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:10:31: #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 15:10:31: #1 tags after filtering in treatment: 6365003 INFO @ Sat, 11 Dec 2021 15:10:31: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 11 Dec 2021 15:10:31: #1 finished! INFO @ Sat, 11 Dec 2021 15:10:31: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:10:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:10:31: #2 number of paired peaks: 1006 INFO @ Sat, 11 Dec 2021 15:10:31: start model_add_line... INFO @ Sat, 11 Dec 2021 15:10:31: start X-correlation... INFO @ Sat, 11 Dec 2021 15:10:31: end of X-cor INFO @ Sat, 11 Dec 2021 15:10:31: #2 finished! INFO @ Sat, 11 Dec 2021 15:10:31: #2 predicted fragment length is 138 bps INFO @ Sat, 11 Dec 2021 15:10:31: #2 alternative fragment length(s) may be 4,138,589 bps INFO @ Sat, 11 Dec 2021 15:10:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.20_model.r INFO @ Sat, 11 Dec 2021 15:10:31: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:10:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:10:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:10:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:10:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.10_summits.bed INFO @ Sat, 11 Dec 2021 15:10:34: Done! pass1 - making usageList (13 chroms): 0 millis pass2 - checking and writing primary data (601 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:10:45: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:10:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:10:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:10:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9281731/SRX9281731.20_summits.bed INFO @ Sat, 11 Dec 2021 15:10:51: Done! pass1 - making usageList (9 chroms): 1 millis pass2 - checking and writing primary data (282 records, 4 fields): 8 millis CompletedMACS2peakCalling