Job ID = 14166972 SRX = SRX7541130 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 16200594 spots for SRR10871140/SRR10871140.sra Written 16200594 spots for SRR10871140/SRR10871140.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167290 ("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: 00:03:43 16200594 reads; of these: 16200594 (100.00%) were unpaired; of these: 10272900 (63.41%) aligned 0 times 5365330 (33.12%) aligned exactly 1 time 562364 (3.47%) aligned >1 times 36.59% overall alignment rate Time searching: 00:03:43 Overall time: 00:03:43 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] 3576637 / 5927694 = 0.6034 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 08:21:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.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 08:21:49: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:21:49: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:22:00: 1000000 INFO @ Fri, 10 Dec 2021 08:22:12: 2000000 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 08:22:16: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:22:16: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:22:16: #1 total tags in treatment: 2351057 INFO @ Fri, 10 Dec 2021 08:22:16: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:22:16: #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 08:22:16: #1 tags after filtering in treatment: 2351057 INFO @ Fri, 10 Dec 2021 08:22:16: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:22:16: #1 finished! INFO @ Fri, 10 Dec 2021 08:22:16: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:22:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:22:17: #2 number of paired peaks: 3906 INFO @ Fri, 10 Dec 2021 08:22:17: start model_add_line... INFO @ Fri, 10 Dec 2021 08:22:17: start X-correlation... INFO @ Fri, 10 Dec 2021 08:22:17: end of X-cor INFO @ Fri, 10 Dec 2021 08:22:17: #2 finished! INFO @ Fri, 10 Dec 2021 08:22:17: #2 predicted fragment length is 271 bps INFO @ Fri, 10 Dec 2021 08:22:17: #2 alternative fragment length(s) may be 271 bps INFO @ Fri, 10 Dec 2021 08:22:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.05_model.r INFO @ Fri, 10 Dec 2021 08:22:17: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:22:17: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:22:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.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 08:22:19: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:22:19: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:22:25: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:22:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.05_peaks.xls INFO @ Fri, 10 Dec 2021 08:22:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:22:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.05_summits.bed INFO @ Fri, 10 Dec 2021 08:22:30: Done! pass1 - making usageList (12 chroms): 2 millis pass2 - checking and writing primary data (3390 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:22:37: 1000000 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 08:22:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.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 08:22:49: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:22:49: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:22:57: 2000000 INFO @ Fri, 10 Dec 2021 08:23:05: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:23:05: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:23:05: #1 total tags in treatment: 2351057 INFO @ Fri, 10 Dec 2021 08:23:05: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:23:05: #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 08:23:05: #1 tags after filtering in treatment: 2351057 INFO @ Fri, 10 Dec 2021 08:23:05: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:23:05: #1 finished! INFO @ Fri, 10 Dec 2021 08:23:05: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:23:05: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:23:05: #2 number of paired peaks: 3906 INFO @ Fri, 10 Dec 2021 08:23:05: start model_add_line... INFO @ Fri, 10 Dec 2021 08:23:05: start X-correlation... INFO @ Fri, 10 Dec 2021 08:23:05: end of X-cor INFO @ Fri, 10 Dec 2021 08:23:05: #2 finished! INFO @ Fri, 10 Dec 2021 08:23:05: #2 predicted fragment length is 271 bps INFO @ Fri, 10 Dec 2021 08:23:05: #2 alternative fragment length(s) may be 271 bps INFO @ Fri, 10 Dec 2021 08:23:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.10_model.r INFO @ Fri, 10 Dec 2021 08:23:05: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:23:05: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:23:12: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 08:23:15: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:23:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.10_peaks.xls INFO @ Fri, 10 Dec 2021 08:23:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:23:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.10_summits.bed INFO @ Fri, 10 Dec 2021 08:23:23: Done! pass1 - making usageList (9 chroms): 3 millis pass2 - checking and writing primary data (1830 records, 4 fields): 29 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 08:23:34: 2000000 INFO @ Fri, 10 Dec 2021 08:23:42: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:23:42: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:23:42: #1 total tags in treatment: 2351057 INFO @ Fri, 10 Dec 2021 08:23:42: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:23:42: #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 08:23:42: #1 tags after filtering in treatment: 2351057 INFO @ Fri, 10 Dec 2021 08:23:42: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:23:42: #1 finished! INFO @ Fri, 10 Dec 2021 08:23:42: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:23:42: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:23:43: #2 number of paired peaks: 3906 INFO @ Fri, 10 Dec 2021 08:23:43: start model_add_line... INFO @ Fri, 10 Dec 2021 08:23:43: start X-correlation... INFO @ Fri, 10 Dec 2021 08:23:43: end of X-cor INFO @ Fri, 10 Dec 2021 08:23:43: #2 finished! INFO @ Fri, 10 Dec 2021 08:23:43: #2 predicted fragment length is 271 bps INFO @ Fri, 10 Dec 2021 08:23:43: #2 alternative fragment length(s) may be 271 bps INFO @ Fri, 10 Dec 2021 08:23:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.20_model.r INFO @ Fri, 10 Dec 2021 08:23:43: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:23:43: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:23:52: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:23:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.20_peaks.xls INFO @ Fri, 10 Dec 2021 08:23:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:23:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541130/SRX7541130.20_summits.bed INFO @ Fri, 10 Dec 2021 08:23:57: Done! pass1 - making usageList (8 chroms): 3 millis pass2 - checking and writing primary data (616 records, 4 fields): 5 millis CompletedMACS2peakCalling