Job ID = 14167188 SRX = SRX9090279 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 29477032 spots for SRR12606612/SRR12606612.sra Written 29477032 spots for SRR12606612/SRR12606612.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167744 ("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: 00:08:44 29477032 reads; of these: 29477032 (100.00%) were unpaired; of these: 1334009 (4.53%) aligned 0 times 20100012 (68.19%) aligned exactly 1 time 8043011 (27.29%) aligned >1 times 95.47% overall alignment rate Time searching: 00:08:44 Overall time: 00:08:44 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_rmdupse_core] 11672083 / 28143023 = 0.4147 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 11:06:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.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 11:06:22: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:06:22: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:06:27: 1000000 INFO @ Fri, 10 Dec 2021 11:06:32: 2000000 INFO @ Fri, 10 Dec 2021 11:06:37: 3000000 INFO @ Fri, 10 Dec 2021 11:06:41: 4000000 INFO @ Fri, 10 Dec 2021 11:06:46: 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 @ Fri, 10 Dec 2021 11:06:51: 6000000 INFO @ Fri, 10 Dec 2021 11:06:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.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 11:06:52: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:06:52: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:06:56: 7000000 INFO @ Fri, 10 Dec 2021 11:06:57: 1000000 INFO @ Fri, 10 Dec 2021 11:07:01: 8000000 INFO @ Fri, 10 Dec 2021 11:07:02: 2000000 INFO @ Fri, 10 Dec 2021 11:07:06: 9000000 INFO @ Fri, 10 Dec 2021 11:07:08: 3000000 INFO @ Fri, 10 Dec 2021 11:07:12: 10000000 INFO @ Fri, 10 Dec 2021 11:07:13: 4000000 INFO @ Fri, 10 Dec 2021 11:07:17: 11000000 INFO @ Fri, 10 Dec 2021 11:07:18: 5000000 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 11:07:22: 12000000 INFO @ Fri, 10 Dec 2021 11:07:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.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 11:07:22: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:07:22: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:07:23: 6000000 INFO @ Fri, 10 Dec 2021 11:07:27: 1000000 INFO @ Fri, 10 Dec 2021 11:07:27: 13000000 INFO @ Fri, 10 Dec 2021 11:07:29: 7000000 INFO @ Fri, 10 Dec 2021 11:07:32: 2000000 INFO @ Fri, 10 Dec 2021 11:07:32: 14000000 INFO @ Fri, 10 Dec 2021 11:07:34: 8000000 INFO @ Fri, 10 Dec 2021 11:07:37: 3000000 INFO @ Fri, 10 Dec 2021 11:07:38: 15000000 INFO @ Fri, 10 Dec 2021 11:07:39: 9000000 INFO @ Fri, 10 Dec 2021 11:07:43: 4000000 INFO @ Fri, 10 Dec 2021 11:07:43: 16000000 INFO @ Fri, 10 Dec 2021 11:07:44: 10000000 INFO @ Fri, 10 Dec 2021 11:07:45: #1 tag size is determined as 49 bps INFO @ Fri, 10 Dec 2021 11:07:45: #1 tag size = 49 INFO @ Fri, 10 Dec 2021 11:07:45: #1 total tags in treatment: 16470940 INFO @ Fri, 10 Dec 2021 11:07:45: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:07:45: #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 11:07:46: #1 tags after filtering in treatment: 16470940 INFO @ Fri, 10 Dec 2021 11:07:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:07:46: #1 finished! INFO @ Fri, 10 Dec 2021 11:07:46: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:07:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:07:47: #2 number of paired peaks: 3610 INFO @ Fri, 10 Dec 2021 11:07:47: start model_add_line... INFO @ Fri, 10 Dec 2021 11:07:47: start X-correlation... INFO @ Fri, 10 Dec 2021 11:07:47: end of X-cor INFO @ Fri, 10 Dec 2021 11:07:47: #2 finished! INFO @ Fri, 10 Dec 2021 11:07:47: #2 predicted fragment length is 122 bps INFO @ Fri, 10 Dec 2021 11:07:47: #2 alternative fragment length(s) may be 122 bps INFO @ Fri, 10 Dec 2021 11:07:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.05_model.r INFO @ Fri, 10 Dec 2021 11:07:47: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:07:47: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:07:48: 5000000 INFO @ Fri, 10 Dec 2021 11:07:50: 11000000 INFO @ Fri, 10 Dec 2021 11:07:53: 6000000 INFO @ Fri, 10 Dec 2021 11:07:55: 12000000 INFO @ Fri, 10 Dec 2021 11:07:58: 7000000 INFO @ Fri, 10 Dec 2021 11:08:00: 13000000 INFO @ Fri, 10 Dec 2021 11:08:03: 8000000 INFO @ Fri, 10 Dec 2021 11:08:05: 14000000 INFO @ Fri, 10 Dec 2021 11:08:08: 9000000 INFO @ Fri, 10 Dec 2021 11:08:10: 15000000 INFO @ Fri, 10 Dec 2021 11:08:13: 10000000 INFO @ Fri, 10 Dec 2021 11:08:16: 16000000 INFO @ Fri, 10 Dec 2021 11:08:18: #1 tag size is determined as 49 bps INFO @ Fri, 10 Dec 2021 11:08:18: #1 tag size = 49 INFO @ Fri, 10 Dec 2021 11:08:18: #1 total tags in treatment: 16470940 INFO @ Fri, 10 Dec 2021 11:08:18: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:08:18: #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 11:08:18: #1 tags after filtering in treatment: 16470940 INFO @ Fri, 10 Dec 2021 11:08:18: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:08:18: #1 finished! INFO @ Fri, 10 Dec 2021 11:08:18: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:08:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:08:19: 11000000 INFO @ Fri, 10 Dec 2021 11:08:20: #2 number of paired peaks: 3610 INFO @ Fri, 10 Dec 2021 11:08:20: start model_add_line... INFO @ Fri, 10 Dec 2021 11:08:20: start X-correlation... INFO @ Fri, 10 Dec 2021 11:08:20: end of X-cor INFO @ Fri, 10 Dec 2021 11:08:20: #2 finished! INFO @ Fri, 10 Dec 2021 11:08:20: #2 predicted fragment length is 122 bps INFO @ Fri, 10 Dec 2021 11:08:20: #2 alternative fragment length(s) may be 122 bps INFO @ Fri, 10 Dec 2021 11:08:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.10_model.r INFO @ Fri, 10 Dec 2021 11:08:20: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:08:20: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:08:21: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:08:24: 12000000 INFO @ Fri, 10 Dec 2021 11:08:28: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 11:08:33: 14000000 INFO @ Fri, 10 Dec 2021 11:08:38: 15000000 INFO @ Fri, 10 Dec 2021 11:08:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.05_peaks.xls INFO @ Fri, 10 Dec 2021 11:08:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:08:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.05_summits.bed INFO @ Fri, 10 Dec 2021 11:08:39: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (9444 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:08:43: 16000000 INFO @ Fri, 10 Dec 2021 11:08:45: #1 tag size is determined as 49 bps INFO @ Fri, 10 Dec 2021 11:08:45: #1 tag size = 49 INFO @ Fri, 10 Dec 2021 11:08:45: #1 total tags in treatment: 16470940 INFO @ Fri, 10 Dec 2021 11:08:45: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:08:45: #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 11:08:46: #1 tags after filtering in treatment: 16470940 INFO @ Fri, 10 Dec 2021 11:08:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:08:46: #1 finished! INFO @ Fri, 10 Dec 2021 11:08:46: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:08:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:08:47: #2 number of paired peaks: 3610 INFO @ Fri, 10 Dec 2021 11:08:47: start model_add_line... INFO @ Fri, 10 Dec 2021 11:08:47: start X-correlation... INFO @ Fri, 10 Dec 2021 11:08:47: end of X-cor INFO @ Fri, 10 Dec 2021 11:08:47: #2 finished! INFO @ Fri, 10 Dec 2021 11:08:47: #2 predicted fragment length is 122 bps INFO @ Fri, 10 Dec 2021 11:08:47: #2 alternative fragment length(s) may be 122 bps INFO @ Fri, 10 Dec 2021 11:08:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.20_model.r INFO @ Fri, 10 Dec 2021 11:08:47: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:08:47: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:08:55: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 11:09:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.10_peaks.xls INFO @ Fri, 10 Dec 2021 11:09:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:09:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.10_summits.bed INFO @ Fri, 10 Dec 2021 11:09:13: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (7567 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:09:21: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:09:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.20_peaks.xls INFO @ Fri, 10 Dec 2021 11:09:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:09:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9090279/SRX9090279.20_summits.bed INFO @ Fri, 10 Dec 2021 11:09:38: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (5252 records, 4 fields): 6 millis CompletedMACS2peakCalling