Job ID = 14167215 SRX = SRX8491177 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22323781 spots for SRR11946769/SRR11946769.sra Written 22323781 spots for SRR11946769/SRR11946769.sra fastq に変換しました。 bowtie でマッピング中... Your job 14168006 ("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: 00:02:48 22323781 reads; of these: 22323781 (100.00%) were unpaired; of these: 17834855 (79.89%) aligned 0 times 4474284 (20.04%) aligned exactly 1 time 14642 (0.07%) aligned >1 times 20.11% overall alignment rate Time searching: 00:02:49 Overall time: 00:02:49 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] 840404 / 4488926 = 0.1872 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 12:10:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.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 12:10:18: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:10:18: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:10:26: 1000000 INFO @ Fri, 10 Dec 2021 12:10:34: 2000000 INFO @ Fri, 10 Dec 2021 12:10:41: 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 @ Fri, 10 Dec 2021 12:10:46: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 12:10:46: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 12:10:46: #1 total tags in treatment: 3648522 INFO @ Fri, 10 Dec 2021 12:10:46: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:10:46: #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 12:10:46: #1 tags after filtering in treatment: 3648522 INFO @ Fri, 10 Dec 2021 12:10:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:10:46: #1 finished! INFO @ Fri, 10 Dec 2021 12:10:46: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:10:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:10:47: #2 number of paired peaks: 1656 INFO @ Fri, 10 Dec 2021 12:10:47: start model_add_line... INFO @ Fri, 10 Dec 2021 12:10:47: start X-correlation... INFO @ Fri, 10 Dec 2021 12:10:47: end of X-cor INFO @ Fri, 10 Dec 2021 12:10:47: #2 finished! INFO @ Fri, 10 Dec 2021 12:10:47: #2 predicted fragment length is 172 bps INFO @ Fri, 10 Dec 2021 12:10:47: #2 alternative fragment length(s) may be 3,172 bps INFO @ Fri, 10 Dec 2021 12:10:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.05_model.r INFO @ Fri, 10 Dec 2021 12:10:47: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:10:47: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:10:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.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 12:10:48: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:10:48: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:10:56: 1000000 INFO @ Fri, 10 Dec 2021 12:10:59: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:11:03: 2000000 INFO @ Fri, 10 Dec 2021 12:11:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:11:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:11:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.05_summits.bed INFO @ Fri, 10 Dec 2021 12:11:04: Done! pass1 - making usageList (8 chroms): 0 millis pass2 - checking and writing primary data (177 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:11:11: 3000000 INFO @ Fri, 10 Dec 2021 12:11:15: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 12:11:15: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 12:11:15: #1 total tags in treatment: 3648522 INFO @ Fri, 10 Dec 2021 12:11:15: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:11:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換中... INFO @ Fri, 10 Dec 2021 12:11:15: #1 tags after filtering in treatment: 3648522 INFO @ Fri, 10 Dec 2021 12:11:15: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:11:15: #1 finished! INFO @ Fri, 10 Dec 2021 12:11:15: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:11:15: #2 looking for paired plus/minus strand peaks... 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 12:11:16: #2 number of paired peaks: 1656 INFO @ Fri, 10 Dec 2021 12:11:16: start model_add_line... INFO @ Fri, 10 Dec 2021 12:11:16: start X-correlation... INFO @ Fri, 10 Dec 2021 12:11:16: end of X-cor INFO @ Fri, 10 Dec 2021 12:11:16: #2 finished! INFO @ Fri, 10 Dec 2021 12:11:16: #2 predicted fragment length is 172 bps INFO @ Fri, 10 Dec 2021 12:11:16: #2 alternative fragment length(s) may be 3,172 bps INFO @ Fri, 10 Dec 2021 12:11:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.10_model.r INFO @ Fri, 10 Dec 2021 12:11:16: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:11:16: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:11:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.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 12:11:18: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:11:18: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:11:26: 1000000 INFO @ Fri, 10 Dec 2021 12:11:28: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:11:34: 2000000 INFO @ Fri, 10 Dec 2021 12:11:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:11:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:11:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.10_summits.bed INFO @ Fri, 10 Dec 2021 12:11:34: Done! pass1 - making usageList (4 chroms): 1 millis pass2 - checking and writing primary data (5 records, 4 fields): 2 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:11:42: 3000000 INFO @ Fri, 10 Dec 2021 12:11:47: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 12:11:47: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 12:11:47: #1 total tags in treatment: 3648522 INFO @ Fri, 10 Dec 2021 12:11:47: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:11:47: #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 12:11:47: #1 tags after filtering in treatment: 3648522 INFO @ Fri, 10 Dec 2021 12:11:47: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:11:47: #1 finished! INFO @ Fri, 10 Dec 2021 12:11:47: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:11:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:11:47: #2 number of paired peaks: 1656 INFO @ Fri, 10 Dec 2021 12:11:47: start model_add_line... INFO @ Fri, 10 Dec 2021 12:11:48: start X-correlation... INFO @ Fri, 10 Dec 2021 12:11:48: end of X-cor INFO @ Fri, 10 Dec 2021 12:11:48: #2 finished! INFO @ Fri, 10 Dec 2021 12:11:48: #2 predicted fragment length is 172 bps INFO @ Fri, 10 Dec 2021 12:11:48: #2 alternative fragment length(s) may be 3,172 bps INFO @ Fri, 10 Dec 2021 12:11:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.20_model.r INFO @ Fri, 10 Dec 2021 12:11:48: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:11:48: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:12:00: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:12:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:12:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:12:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8491177/SRX8491177.20_summits.bed INFO @ Fri, 10 Dec 2021 12:12:06: Done! pass1 - making usageList (1 chroms): 0 millis pass2 - checking and writing primary data (1 records, 4 fields): 2 millis CompletedMACS2peakCalling