Job ID = 14172328 SRX = SRX7434113 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 11465006 spots for SRR10759879/SRR10759879.sra Written 11465006 spots for SRR10759879/SRR10759879.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172794 ("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: 00:03:02 11465006 reads; of these: 11465006 (100.00%) were unpaired; of these: 1179814 (10.29%) aligned 0 times 8024145 (69.99%) aligned exactly 1 time 2261047 (19.72%) aligned >1 times 89.71% overall alignment rate Time searching: 00:03:02 Overall time: 00:03:02 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] 4525620 / 10285192 = 0.4400 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 15:13:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.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 15:13:40: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:13:40: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:13:45: 1000000 INFO @ Sat, 11 Dec 2021 15:13:51: 2000000 INFO @ Sat, 11 Dec 2021 15:13:56: 3000000 INFO @ Sat, 11 Dec 2021 15:14:01: 4000000 INFO @ Sat, 11 Dec 2021 15:14:07: 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 15:14:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.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 15:14:10: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:14:10: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:14:11: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:14:11: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:14:11: #1 total tags in treatment: 5759572 INFO @ Sat, 11 Dec 2021 15:14:11: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:14:11: #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 15:14:11: #1 tags after filtering in treatment: 5759572 INFO @ Sat, 11 Dec 2021 15:14:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:14:11: #1 finished! INFO @ Sat, 11 Dec 2021 15:14:11: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:14:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:14:11: #2 number of paired peaks: 3403 INFO @ Sat, 11 Dec 2021 15:14:11: start model_add_line... INFO @ Sat, 11 Dec 2021 15:14:11: start X-correlation... INFO @ Sat, 11 Dec 2021 15:14:11: end of X-cor INFO @ Sat, 11 Dec 2021 15:14:11: #2 finished! INFO @ Sat, 11 Dec 2021 15:14:11: #2 predicted fragment length is 217 bps INFO @ Sat, 11 Dec 2021 15:14:11: #2 alternative fragment length(s) may be 217 bps INFO @ Sat, 11 Dec 2021 15:14:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.05_model.r INFO @ Sat, 11 Dec 2021 15:14:11: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:14:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:14:16: 1000000 INFO @ Sat, 11 Dec 2021 15:14:21: 2000000 INFO @ Sat, 11 Dec 2021 15:14:25: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:14:27: 3000000 INFO @ Sat, 11 Dec 2021 15:14:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:14:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:14:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.05_summits.bed INFO @ Sat, 11 Dec 2021 15:14:32: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5131 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:14:32: 4000000 INFO @ Sat, 11 Dec 2021 15:14:38: 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 15:14:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.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 15:14:40: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:14:40: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:14:42: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:14:42: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:14:42: #1 total tags in treatment: 5759572 INFO @ Sat, 11 Dec 2021 15:14:42: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:14:42: #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 15:14:42: #1 tags after filtering in treatment: 5759572 INFO @ Sat, 11 Dec 2021 15:14:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:14:42: #1 finished! INFO @ Sat, 11 Dec 2021 15:14:42: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:14:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:14:43: #2 number of paired peaks: 3403 INFO @ Sat, 11 Dec 2021 15:14:43: start model_add_line... INFO @ Sat, 11 Dec 2021 15:14:43: start X-correlation... INFO @ Sat, 11 Dec 2021 15:14:43: end of X-cor INFO @ Sat, 11 Dec 2021 15:14:43: #2 finished! INFO @ Sat, 11 Dec 2021 15:14:43: #2 predicted fragment length is 217 bps INFO @ Sat, 11 Dec 2021 15:14:43: #2 alternative fragment length(s) may be 217 bps INFO @ Sat, 11 Dec 2021 15:14:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.10_model.r INFO @ Sat, 11 Dec 2021 15:14:43: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:14:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:14:46: 1000000 INFO @ Sat, 11 Dec 2021 15:14:51: 2000000 INFO @ Sat, 11 Dec 2021 15:14:57: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:14:57: 3000000 INFO @ Sat, 11 Dec 2021 15:15:03: 4000000 INFO @ Sat, 11 Dec 2021 15:15:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:15:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:15:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.10_summits.bed INFO @ Sat, 11 Dec 2021 15:15:03: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (4284 records, 4 fields): 6 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:15:08: 5000000 INFO @ Sat, 11 Dec 2021 15:15:12: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:15:12: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:15:12: #1 total tags in treatment: 5759572 INFO @ Sat, 11 Dec 2021 15:15:12: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:15:12: #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 15:15:12: #1 tags after filtering in treatment: 5759572 INFO @ Sat, 11 Dec 2021 15:15:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:15:12: #1 finished! INFO @ Sat, 11 Dec 2021 15:15:12: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:15:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:15:13: #2 number of paired peaks: 3403 INFO @ Sat, 11 Dec 2021 15:15:13: start model_add_line... INFO @ Sat, 11 Dec 2021 15:15:13: start X-correlation... INFO @ Sat, 11 Dec 2021 15:15:13: end of X-cor INFO @ Sat, 11 Dec 2021 15:15:13: #2 finished! INFO @ Sat, 11 Dec 2021 15:15:13: #2 predicted fragment length is 217 bps INFO @ Sat, 11 Dec 2021 15:15:13: #2 alternative fragment length(s) may be 217 bps INFO @ Sat, 11 Dec 2021 15:15:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.20_model.r INFO @ Sat, 11 Dec 2021 15:15:13: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:15:13: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:15:28: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:15:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:15:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:15:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434113/SRX7434113.20_summits.bed INFO @ Sat, 11 Dec 2021 15:15:34: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3395 records, 4 fields): 5 millis CompletedMACS2peakCalling