Job ID = 14172402 SRX = SRX7434124 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13055603 spots for SRR10759890/SRR10759890.sra Written 13055603 spots for SRR10759890/SRR10759890.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172838 ("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: 00:02:51 13055603 reads; of these: 13055603 (100.00%) were unpaired; of these: 2660799 (20.38%) aligned 0 times 8763079 (67.12%) aligned exactly 1 time 1631725 (12.50%) aligned >1 times 79.62% overall alignment rate Time searching: 00:02:51 Overall time: 00:02:51 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 8 files... [bam_rmdupse_core] 4680581 / 10394804 = 0.4503 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 @ Sat, 11 Dec 2021 15:22:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.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 @ Sat, 11 Dec 2021 15:22:23: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:22:23: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:22:28: 1000000 INFO @ Sat, 11 Dec 2021 15:22:33: 2000000 INFO @ Sat, 11 Dec 2021 15:22:39: 3000000 INFO @ Sat, 11 Dec 2021 15:22:44: 4000000 INFO @ Sat, 11 Dec 2021 15:22:49: 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 @ Sat, 11 Dec 2021 15:22:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.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 @ Sat, 11 Dec 2021 15:22:53: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:22:53: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:22:53: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:22:53: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:22:53: #1 total tags in treatment: 5714223 INFO @ Sat, 11 Dec 2021 15:22:53: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:22:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:22:53: #1 tags after filtering in treatment: 5714223 INFO @ Sat, 11 Dec 2021 15:22:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:22:53: #1 finished! INFO @ Sat, 11 Dec 2021 15:22:53: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:22:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:22:54: #2 number of paired peaks: 5313 INFO @ Sat, 11 Dec 2021 15:22:54: start model_add_line... INFO @ Sat, 11 Dec 2021 15:22:54: start X-correlation... INFO @ Sat, 11 Dec 2021 15:22:54: end of X-cor INFO @ Sat, 11 Dec 2021 15:22:54: #2 finished! INFO @ Sat, 11 Dec 2021 15:22:54: #2 predicted fragment length is 244 bps INFO @ Sat, 11 Dec 2021 15:22:54: #2 alternative fragment length(s) may be 244 bps INFO @ Sat, 11 Dec 2021 15:22:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.05_model.r INFO @ Sat, 11 Dec 2021 15:22:54: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:22:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:22:58: 1000000 INFO @ Sat, 11 Dec 2021 15:23:04: 2000000 INFO @ Sat, 11 Dec 2021 15:23:09: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:23:10: 3000000 INFO @ Sat, 11 Dec 2021 15:23:15: 4000000 INFO @ Sat, 11 Dec 2021 15:23:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:23:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:23:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.05_summits.bed INFO @ Sat, 11 Dec 2021 15:23:16: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (7842 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:23:21: 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 @ Sat, 11 Dec 2021 15:23:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.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 @ Sat, 11 Dec 2021 15:23:23: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:23:23: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:23:24: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:23:24: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:23:24: #1 total tags in treatment: 5714223 INFO @ Sat, 11 Dec 2021 15:23:24: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:23:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:23:25: #1 tags after filtering in treatment: 5714223 INFO @ Sat, 11 Dec 2021 15:23:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:23:25: #1 finished! INFO @ Sat, 11 Dec 2021 15:23:25: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:23:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:23:25: #2 number of paired peaks: 5313 INFO @ Sat, 11 Dec 2021 15:23:25: start model_add_line... INFO @ Sat, 11 Dec 2021 15:23:25: start X-correlation... INFO @ Sat, 11 Dec 2021 15:23:25: end of X-cor INFO @ Sat, 11 Dec 2021 15:23:25: #2 finished! INFO @ Sat, 11 Dec 2021 15:23:25: #2 predicted fragment length is 244 bps INFO @ Sat, 11 Dec 2021 15:23:25: #2 alternative fragment length(s) may be 244 bps INFO @ Sat, 11 Dec 2021 15:23:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.10_model.r INFO @ Sat, 11 Dec 2021 15:23:25: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:23:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:23:28: 1000000 INFO @ Sat, 11 Dec 2021 15:23:34: 2000000 INFO @ Sat, 11 Dec 2021 15:23:40: 3000000 INFO @ Sat, 11 Dec 2021 15:23:40: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:23:45: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:23:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:23:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:23:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.10_summits.bed INFO @ Sat, 11 Dec 2021 15:23:47: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6259 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:23:51: 5000000 INFO @ Sat, 11 Dec 2021 15:23:55: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:23:55: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:23:55: #1 total tags in treatment: 5714223 INFO @ Sat, 11 Dec 2021 15:23:55: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:23:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:23:55: #1 tags after filtering in treatment: 5714223 INFO @ Sat, 11 Dec 2021 15:23:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:23:55: #1 finished! INFO @ Sat, 11 Dec 2021 15:23:55: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:23:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:23:56: #2 number of paired peaks: 5313 INFO @ Sat, 11 Dec 2021 15:23:56: start model_add_line... INFO @ Sat, 11 Dec 2021 15:23:56: start X-correlation... INFO @ Sat, 11 Dec 2021 15:23:56: end of X-cor INFO @ Sat, 11 Dec 2021 15:23:56: #2 finished! INFO @ Sat, 11 Dec 2021 15:23:56: #2 predicted fragment length is 244 bps INFO @ Sat, 11 Dec 2021 15:23:56: #2 alternative fragment length(s) may be 244 bps INFO @ Sat, 11 Dec 2021 15:23:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.20_model.r INFO @ Sat, 11 Dec 2021 15:23:56: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:23:56: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:24:11: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:24:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:24:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:24:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434124/SRX7434124.20_summits.bed INFO @ Sat, 11 Dec 2021 15:24:17: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (4679 records, 4 fields): 6 millis CompletedMACS2peakCalling