Job ID = 14167216 SRX = SRX8491178 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 10400528 spots for SRR11946770/SRR11946770.sra Written 10400528 spots for SRR11946770/SRR11946770.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167957 ("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: 00:01:20 10400528 reads; of these: 10400528 (100.00%) were unpaired; of these: 6270644 (60.29%) aligned 0 times 4116991 (39.58%) aligned exactly 1 time 12893 (0.12%) aligned >1 times 39.71% overall alignment rate Time searching: 00:01:20 Overall time: 00:01:20 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] 701913 / 4129884 = 0.1700 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 11:56:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.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 11:56:48: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:56:48: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:56:53: 1000000 INFO @ Fri, 10 Dec 2021 11:56:59: 2000000 INFO @ Fri, 10 Dec 2021 11:57:04: 3000000 INFO @ Fri, 10 Dec 2021 11:57:07: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 11:57:07: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 11:57:07: #1 total tags in treatment: 3427971 INFO @ Fri, 10 Dec 2021 11:57:07: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:57:07: #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 11:57:07: #1 tags after filtering in treatment: 3427970 INFO @ Fri, 10 Dec 2021 11:57:07: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:57:07: #1 finished! INFO @ Fri, 10 Dec 2021 11:57:07: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:57:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:57:07: #2 number of paired peaks: 1356 INFO @ Fri, 10 Dec 2021 11:57:07: start model_add_line... INFO @ Fri, 10 Dec 2021 11:57:07: start X-correlation... INFO @ Fri, 10 Dec 2021 11:57:07: end of X-cor INFO @ Fri, 10 Dec 2021 11:57:07: #2 finished! INFO @ Fri, 10 Dec 2021 11:57:07: #2 predicted fragment length is 177 bps INFO @ Fri, 10 Dec 2021 11:57:07: #2 alternative fragment length(s) may be 3,177 bps INFO @ Fri, 10 Dec 2021 11:57:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.05_model.r INFO @ Fri, 10 Dec 2021 11:57:07: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:57:07: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:57:14: #3 Call peaks for each chromosome... 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 11:57:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.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 11:57:18: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:57:18: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:57:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.05_peaks.xls INFO @ Fri, 10 Dec 2021 11:57:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:57:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.05_summits.bed INFO @ Fri, 10 Dec 2021 11:57:18: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (176 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:57:25: 1000000 INFO @ Fri, 10 Dec 2021 11:57:31: 2000000 INFO @ Fri, 10 Dec 2021 11:57:38: 3000000 INFO @ Fri, 10 Dec 2021 11:57:41: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 11:57:41: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 11:57:41: #1 total tags in treatment: 3427971 INFO @ Fri, 10 Dec 2021 11:57:41: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:57:41: #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 11:57:41: #1 tags after filtering in treatment: 3427970 INFO @ Fri, 10 Dec 2021 11:57:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:57:41: #1 finished! INFO @ Fri, 10 Dec 2021 11:57:41: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:57:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:57:41: #2 number of paired peaks: 1356 INFO @ Fri, 10 Dec 2021 11:57:41: start model_add_line... INFO @ Fri, 10 Dec 2021 11:57:41: start X-correlation... INFO @ Fri, 10 Dec 2021 11:57:41: end of X-cor INFO @ Fri, 10 Dec 2021 11:57:41: #2 finished! INFO @ Fri, 10 Dec 2021 11:57:41: #2 predicted fragment length is 177 bps INFO @ Fri, 10 Dec 2021 11:57:41: #2 alternative fragment length(s) may be 3,177 bps INFO @ Fri, 10 Dec 2021 11:57:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.10_model.r INFO @ Fri, 10 Dec 2021 11:57:41: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:57:41: #3 Pre-compute pvalue-qvalue table... 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 11:57:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.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 11:57:48: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:57:48: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:57:49: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:57:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.10_peaks.xls INFO @ Fri, 10 Dec 2021 11:57:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:57:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.10_summits.bed INFO @ Fri, 10 Dec 2021 11:57:53: Done! pass1 - making usageList (3 chroms): 1 millis pass2 - checking and writing primary data (5 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:57:53: 1000000 INFO @ Fri, 10 Dec 2021 11:57:59: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 11:58:04: 3000000 INFO @ Fri, 10 Dec 2021 11:58:07: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 11:58:07: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 11:58:07: #1 total tags in treatment: 3427971 INFO @ Fri, 10 Dec 2021 11:58:07: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:58:07: #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 11:58:07: #1 tags after filtering in treatment: 3427970 INFO @ Fri, 10 Dec 2021 11:58:07: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:58:07: #1 finished! INFO @ Fri, 10 Dec 2021 11:58:07: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:58:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:58:07: #2 number of paired peaks: 1356 INFO @ Fri, 10 Dec 2021 11:58:07: start model_add_line... INFO @ Fri, 10 Dec 2021 11:58:07: start X-correlation... INFO @ Fri, 10 Dec 2021 11:58:07: end of X-cor INFO @ Fri, 10 Dec 2021 11:58:07: #2 finished! INFO @ Fri, 10 Dec 2021 11:58:07: #2 predicted fragment length is 177 bps INFO @ Fri, 10 Dec 2021 11:58:07: #2 alternative fragment length(s) may be 3,177 bps INFO @ Fri, 10 Dec 2021 11:58:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.20_model.r INFO @ Fri, 10 Dec 2021 11:58:07: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:58:07: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 11:58:14: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:58:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.20_peaks.xls INFO @ Fri, 10 Dec 2021 11:58:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:58:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8491178/SRX8491178.20_summits.bed INFO @ Fri, 10 Dec 2021 11:58:18: Done! pass1 - making usageList (1 chroms): 1 millis pass2 - checking and writing primary data (1 records, 4 fields): 0 millis CompletedMACS2peakCalling