Job ID = 14166961 SRX = SRX7541129 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 17194149 spots for SRR10871141/SRR10871141.sra Written 17194149 spots for SRR10871141/SRR10871141.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167203 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:17 17194149 reads; of these: 17194149 (100.00%) were unpaired; of these: 7445590 (43.30%) aligned 0 times 8267055 (48.08%) aligned exactly 1 time 1481504 (8.62%) aligned >1 times 56.70% overall alignment rate Time searching: 00:03:18 Overall time: 00:03:18 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_rmdupse_core] 2058113 / 9748559 = 0.2111 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 08:10:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.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 08:10:59: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:10:59: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:11:05: 1000000 INFO @ Fri, 10 Dec 2021 08:11:12: 2000000 INFO @ Fri, 10 Dec 2021 08:11:19: 3000000 INFO @ Fri, 10 Dec 2021 08:11:26: 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 @ Fri, 10 Dec 2021 08:11:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.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 08:11:29: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:11:29: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:11:33: 5000000 INFO @ Fri, 10 Dec 2021 08:11:36: 1000000 INFO @ Fri, 10 Dec 2021 08:11:40: 6000000 INFO @ Fri, 10 Dec 2021 08:11:42: 2000000 INFO @ Fri, 10 Dec 2021 08:11:47: 7000000 INFO @ Fri, 10 Dec 2021 08:11:49: 3000000 INFO @ Fri, 10 Dec 2021 08:11:52: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:11:52: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:11:52: #1 total tags in treatment: 7690446 INFO @ Fri, 10 Dec 2021 08:11:52: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:11:52: #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 08:11:53: #1 tags after filtering in treatment: 7690446 INFO @ Fri, 10 Dec 2021 08:11:53: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:11:53: #1 finished! INFO @ Fri, 10 Dec 2021 08:11:53: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:11:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:11:53: #2 number of paired peaks: 3004 INFO @ Fri, 10 Dec 2021 08:11:53: start model_add_line... INFO @ Fri, 10 Dec 2021 08:11:53: start X-correlation... INFO @ Fri, 10 Dec 2021 08:11:53: end of X-cor INFO @ Fri, 10 Dec 2021 08:11:53: #2 finished! INFO @ Fri, 10 Dec 2021 08:11:53: #2 predicted fragment length is 245 bps INFO @ Fri, 10 Dec 2021 08:11:53: #2 alternative fragment length(s) may be 245 bps INFO @ Fri, 10 Dec 2021 08:11:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.05_model.r INFO @ Fri, 10 Dec 2021 08:11:53: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:11:53: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:11:55: 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 @ Fri, 10 Dec 2021 08:12:01: 5000000 INFO @ Fri, 10 Dec 2021 08:12:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.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 08:12:02: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:12:02: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:12:07: 6000000 INFO @ Fri, 10 Dec 2021 08:12:08: 1000000 INFO @ Fri, 10 Dec 2021 08:12:11: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:12:13: 7000000 INFO @ Fri, 10 Dec 2021 08:12:14: 2000000 INFO @ Fri, 10 Dec 2021 08:12:17: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:12:17: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:12:17: #1 total tags in treatment: 7690446 INFO @ Fri, 10 Dec 2021 08:12:17: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:12:17: #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 08:12:17: #1 tags after filtering in treatment: 7690446 INFO @ Fri, 10 Dec 2021 08:12:17: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:12:17: #1 finished! INFO @ Fri, 10 Dec 2021 08:12:17: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:12:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:12:18: #2 number of paired peaks: 3004 INFO @ Fri, 10 Dec 2021 08:12:18: start model_add_line... INFO @ Fri, 10 Dec 2021 08:12:18: start X-correlation... INFO @ Fri, 10 Dec 2021 08:12:18: end of X-cor INFO @ Fri, 10 Dec 2021 08:12:18: #2 finished! INFO @ Fri, 10 Dec 2021 08:12:18: #2 predicted fragment length is 245 bps INFO @ Fri, 10 Dec 2021 08:12:18: #2 alternative fragment length(s) may be 245 bps INFO @ Fri, 10 Dec 2021 08:12:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.10_model.r INFO @ Fri, 10 Dec 2021 08:12:18: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:12:18: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:12:20: 3000000 INFO @ Fri, 10 Dec 2021 08:12:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.05_peaks.xls INFO @ Fri, 10 Dec 2021 08:12:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:12:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.05_summits.bed INFO @ Fri, 10 Dec 2021 08:12:21: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (6226 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:12:25: 4000000 INFO @ Fri, 10 Dec 2021 08:12:31: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 08:12:37: 6000000 INFO @ Fri, 10 Dec 2021 08:12:37: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:12:42: 7000000 INFO @ Fri, 10 Dec 2021 08:12:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.10_peaks.xls INFO @ Fri, 10 Dec 2021 08:12:46: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:12:46: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:12:46: #1 total tags in treatment: 7690446 INFO @ Fri, 10 Dec 2021 08:12:46: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:12:46: #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 08:12:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:12:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.10_summits.bed INFO @ Fri, 10 Dec 2021 08:12:46: Done! INFO @ Fri, 10 Dec 2021 08:12:46: #1 tags after filtering in treatment: 7690446 INFO @ Fri, 10 Dec 2021 08:12:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:12:46: #1 finished! INFO @ Fri, 10 Dec 2021 08:12:46: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:12:46: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (4513 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:12:47: #2 number of paired peaks: 3004 INFO @ Fri, 10 Dec 2021 08:12:47: start model_add_line... INFO @ Fri, 10 Dec 2021 08:12:47: start X-correlation... INFO @ Fri, 10 Dec 2021 08:12:47: end of X-cor INFO @ Fri, 10 Dec 2021 08:12:47: #2 finished! INFO @ Fri, 10 Dec 2021 08:12:47: #2 predicted fragment length is 245 bps INFO @ Fri, 10 Dec 2021 08:12:47: #2 alternative fragment length(s) may be 245 bps INFO @ Fri, 10 Dec 2021 08:12:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.20_model.r INFO @ Fri, 10 Dec 2021 08:12:47: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:12:47: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 08:13:05: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:13:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.20_peaks.xls INFO @ Fri, 10 Dec 2021 08:13:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:13:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541129/SRX7541129.20_summits.bed INFO @ Fri, 10 Dec 2021 08:13:14: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (2599 records, 4 fields): 4 millis CompletedMACS2peakCalling