Job ID = 14172331 SRX = SRX7434115 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 8841729 spots for SRR10759881/SRR10759881.sra Written 8841729 spots for SRR10759881/SRR10759881.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172797 ("srTdm6") has been submitted Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:19 8841729 reads; of these: 8841729 (100.00%) were unpaired; of these: 1321107 (14.94%) aligned 0 times 5801007 (65.61%) aligned exactly 1 time 1719615 (19.45%) aligned >1 times 85.06% overall alignment rate Time searching: 00:03:20 Overall time: 00:03:20 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] 3463297 / 7520622 = 0.4605 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 15:14:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.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 15:14:32: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:14:32: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:14:42: 1000000 INFO @ Sat, 11 Dec 2021 15:14:51: 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 @ Sat, 11 Dec 2021 15:15:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.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 15:15:02: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:15:02: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:15:02: 3000000 INFO @ Sat, 11 Dec 2021 15:15:12: 4000000 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: 4057325 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: 4057325 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: 2030 INFO @ Sat, 11 Dec 2021 15:15:13: start model_add_line... INFO @ Sat, 11 Dec 2021 15:15:13: 1000000 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 213 bps INFO @ Sat, 11 Dec 2021 15:15:13: #2 alternative fragment length(s) may be 213 bps INFO @ Sat, 11 Dec 2021 15:15:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.05_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... INFO @ Sat, 11 Dec 2021 15:15:24: 2000000 INFO @ Sat, 11 Dec 2021 15:15:27: #3 Call peaks for each chromosome... 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 15:15:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.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 15:15:32: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:15:32: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:15:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:15:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:15:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.05_summits.bed INFO @ Sat, 11 Dec 2021 15:15:34: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (3135 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:15:36: 3000000 INFO @ Sat, 11 Dec 2021 15:15:42: 1000000 INFO @ Sat, 11 Dec 2021 15:15:48: 4000000 INFO @ Sat, 11 Dec 2021 15:15:48: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:15:48: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:15:48: #1 total tags in treatment: 4057325 INFO @ Sat, 11 Dec 2021 15:15:48: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:15:48: #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 15:15:48: #1 tags after filtering in treatment: 4057325 INFO @ Sat, 11 Dec 2021 15:15:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:15:48: #1 finished! INFO @ Sat, 11 Dec 2021 15:15:48: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:15:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:15:49: #2 number of paired peaks: 2030 INFO @ Sat, 11 Dec 2021 15:15:49: start model_add_line... INFO @ Sat, 11 Dec 2021 15:15:49: start X-correlation... INFO @ Sat, 11 Dec 2021 15:15:49: end of X-cor INFO @ Sat, 11 Dec 2021 15:15:49: #2 finished! INFO @ Sat, 11 Dec 2021 15:15:49: #2 predicted fragment length is 213 bps INFO @ Sat, 11 Dec 2021 15:15:49: #2 alternative fragment length(s) may be 213 bps INFO @ Sat, 11 Dec 2021 15:15:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.10_model.r INFO @ Sat, 11 Dec 2021 15:15:49: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:15:49: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:15:52: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:16:02: 3000000 INFO @ Sat, 11 Dec 2021 15:16:03: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:16:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:16:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:16:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.10_summits.bed INFO @ Sat, 11 Dec 2021 15:16:10: Done! BigWig に変換しました。 pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (2247 records, 4 fields): 685 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:16:11: 4000000 INFO @ Sat, 11 Dec 2021 15:16:12: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:16:12: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:16:12: #1 total tags in treatment: 4057325 INFO @ Sat, 11 Dec 2021 15:16:12: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:16:12: #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 15:16:12: #1 tags after filtering in treatment: 4057325 INFO @ Sat, 11 Dec 2021 15:16:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:16:12: #1 finished! INFO @ Sat, 11 Dec 2021 15:16:12: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:16:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:16:12: #2 number of paired peaks: 2030 INFO @ Sat, 11 Dec 2021 15:16:12: start model_add_line... INFO @ Sat, 11 Dec 2021 15:16:12: start X-correlation... INFO @ Sat, 11 Dec 2021 15:16:12: end of X-cor INFO @ Sat, 11 Dec 2021 15:16:12: #2 finished! INFO @ Sat, 11 Dec 2021 15:16:12: #2 predicted fragment length is 213 bps INFO @ Sat, 11 Dec 2021 15:16:12: #2 alternative fragment length(s) may be 213 bps INFO @ Sat, 11 Dec 2021 15:16:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.20_model.r INFO @ Sat, 11 Dec 2021 15:16:12: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:16:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:16:26: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:16:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:16:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:16:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434115/SRX7434115.20_summits.bed INFO @ Sat, 11 Dec 2021 15:16:33: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (1426 records, 4 fields): 21 millis CompletedMACS2peakCalling