Job ID = 14172412 SRX = SRX7434128 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 18030708 spots for SRR10759894/SRR10759894.sra Written 18030708 spots for SRR10759894/SRR10759894.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172854 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:05:26 18030708 reads; of these: 18030708 (100.00%) were unpaired; of these: 3090892 (17.14%) aligned 0 times 11969684 (66.38%) aligned exactly 1 time 2970132 (16.47%) aligned >1 times 82.86% overall alignment rate Time searching: 00:05:27 Overall time: 00:05:27 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] 5737509 / 14939816 = 0.3840 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 15:30:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.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 15:30:00: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:30:00: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:30:08: 1000000 INFO @ Sat, 11 Dec 2021 15:30:16: 2000000 INFO @ Sat, 11 Dec 2021 15:30:24: 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 @ Sat, 11 Dec 2021 15:30:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.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 15:30:29: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:30:29: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:30:31: 4000000 INFO @ Sat, 11 Dec 2021 15:30:37: 1000000 INFO @ Sat, 11 Dec 2021 15:30:39: 5000000 INFO @ Sat, 11 Dec 2021 15:30:45: 2000000 INFO @ Sat, 11 Dec 2021 15:30:46: 6000000 INFO @ Sat, 11 Dec 2021 15:30:53: 3000000 INFO @ Sat, 11 Dec 2021 15:30:54: 7000000 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 15:30:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.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 15:30:59: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:30:59: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:31:01: 4000000 INFO @ Sat, 11 Dec 2021 15:31:02: 8000000 INFO @ Sat, 11 Dec 2021 15:31:07: 1000000 INFO @ Sat, 11 Dec 2021 15:31:09: 5000000 INFO @ Sat, 11 Dec 2021 15:31:10: 9000000 INFO @ Sat, 11 Dec 2021 15:31:12: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:31:12: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:31:12: #1 total tags in treatment: 9202307 INFO @ Sat, 11 Dec 2021 15:31:12: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:31:12: #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 15:31:12: #1 tags after filtering in treatment: 9202307 INFO @ Sat, 11 Dec 2021 15:31:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:31:12: #1 finished! INFO @ Sat, 11 Dec 2021 15:31:12: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:31:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:31:13: #2 number of paired peaks: 3920 INFO @ Sat, 11 Dec 2021 15:31:13: start model_add_line... INFO @ Sat, 11 Dec 2021 15:31:13: start X-correlation... INFO @ Sat, 11 Dec 2021 15:31:13: end of X-cor INFO @ Sat, 11 Dec 2021 15:31:13: #2 finished! INFO @ Sat, 11 Dec 2021 15:31:13: #2 predicted fragment length is 274 bps INFO @ Sat, 11 Dec 2021 15:31:13: #2 alternative fragment length(s) may be 274 bps INFO @ Sat, 11 Dec 2021 15:31:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.05_model.r INFO @ Sat, 11 Dec 2021 15:31:13: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:31:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:31:15: 2000000 INFO @ Sat, 11 Dec 2021 15:31:17: 6000000 INFO @ Sat, 11 Dec 2021 15:31:22: 3000000 INFO @ Sat, 11 Dec 2021 15:31:24: 7000000 INFO @ Sat, 11 Dec 2021 15:31:30: 4000000 INFO @ Sat, 11 Dec 2021 15:31:33: 8000000 INFO @ Sat, 11 Dec 2021 15:31:38: 5000000 INFO @ Sat, 11 Dec 2021 15:31:41: 9000000 INFO @ Sat, 11 Dec 2021 15:31:43: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:31:43: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:31:43: #1 total tags in treatment: 9202307 INFO @ Sat, 11 Dec 2021 15:31:43: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:31:43: #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 15:31:43: #1 tags after filtering in treatment: 9202307 INFO @ Sat, 11 Dec 2021 15:31:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:31:43: #1 finished! INFO @ Sat, 11 Dec 2021 15:31:43: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:31:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:31:44: #2 number of paired peaks: 3920 INFO @ Sat, 11 Dec 2021 15:31:44: start model_add_line... INFO @ Sat, 11 Dec 2021 15:31:44: start X-correlation... INFO @ Sat, 11 Dec 2021 15:31:44: end of X-cor INFO @ Sat, 11 Dec 2021 15:31:44: #2 finished! INFO @ Sat, 11 Dec 2021 15:31:44: #2 predicted fragment length is 274 bps INFO @ Sat, 11 Dec 2021 15:31:44: #2 alternative fragment length(s) may be 274 bps INFO @ Sat, 11 Dec 2021 15:31:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.10_model.r INFO @ Sat, 11 Dec 2021 15:31:44: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:31:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:31:45: 6000000 INFO @ Sat, 11 Dec 2021 15:31:48: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:31:53: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:32:01: 8000000 INFO @ Sat, 11 Dec 2021 15:32:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:32:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:32:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.05_summits.bed INFO @ Sat, 11 Dec 2021 15:32:03: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (5692 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:32:09: 9000000 INFO @ Sat, 11 Dec 2021 15:32:11: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:32:11: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:32:11: #1 total tags in treatment: 9202307 INFO @ Sat, 11 Dec 2021 15:32:11: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:32:11: #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 15:32:11: #1 tags after filtering in treatment: 9202307 INFO @ Sat, 11 Dec 2021 15:32:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:32:11: #1 finished! INFO @ Sat, 11 Dec 2021 15:32:11: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:32:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:32:12: #2 number of paired peaks: 3920 INFO @ Sat, 11 Dec 2021 15:32:12: start model_add_line... INFO @ Sat, 11 Dec 2021 15:32:13: start X-correlation... INFO @ Sat, 11 Dec 2021 15:32:13: end of X-cor INFO @ Sat, 11 Dec 2021 15:32:13: #2 finished! INFO @ Sat, 11 Dec 2021 15:32:13: #2 predicted fragment length is 274 bps INFO @ Sat, 11 Dec 2021 15:32:13: #2 alternative fragment length(s) may be 274 bps INFO @ Sat, 11 Dec 2021 15:32:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.20_model.r INFO @ Sat, 11 Dec 2021 15:32:13: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:32:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:32:19: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:32:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:32:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:32:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.10_summits.bed INFO @ Sat, 11 Dec 2021 15:32:34: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (4738 records, 4 fields): 2274 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:32:47: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:33:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:33:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:33:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434128/SRX7434128.20_summits.bed INFO @ Sat, 11 Dec 2021 15:33:02: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (3863 records, 4 fields): 7 millis CompletedMACS2peakCalling