Job ID = 14167122 SRX = SRX4712944 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 36891685 spots for SRR7874074/SRR7874074.sra Written 36891685 spots for SRR7874074/SRR7874074.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167568 ("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: 00:09:47 36891685 reads; of these: 36891685 (100.00%) were unpaired; of these: 3752021 (10.17%) aligned 0 times 26970246 (73.11%) aligned exactly 1 time 6169418 (16.72%) aligned >1 times 89.83% overall alignment rate Time searching: 00:09:48 Overall time: 00:09:48 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 16 files... [bam_rmdupse_core] 26689675 / 33139664 = 0.8054 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 10:22:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.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 10:22:13: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:22:13: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:22:17: 1000000 INFO @ Fri, 10 Dec 2021 10:22:21: 2000000 INFO @ Fri, 10 Dec 2021 10:22:26: 3000000 INFO @ Fri, 10 Dec 2021 10:22:30: 4000000 INFO @ Fri, 10 Dec 2021 10:22:35: 5000000 INFO @ Fri, 10 Dec 2021 10:22:39: 6000000 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 10:22:41: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:22:41: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:22:41: #1 total tags in treatment: 6449989 INFO @ Fri, 10 Dec 2021 10:22:41: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:22:41: #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 10:22:41: #1 tags after filtering in treatment: 6449989 INFO @ Fri, 10 Dec 2021 10:22:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:22:41: #1 finished! INFO @ Fri, 10 Dec 2021 10:22:41: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:22:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:22:42: #2 number of paired peaks: 2292 INFO @ Fri, 10 Dec 2021 10:22:42: start model_add_line... INFO @ Fri, 10 Dec 2021 10:22:42: start X-correlation... INFO @ Fri, 10 Dec 2021 10:22:42: end of X-cor INFO @ Fri, 10 Dec 2021 10:22:42: #2 finished! INFO @ Fri, 10 Dec 2021 10:22:42: #2 predicted fragment length is 128 bps INFO @ Fri, 10 Dec 2021 10:22:42: #2 alternative fragment length(s) may be 128 bps INFO @ Fri, 10 Dec 2021 10:22:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.05_model.r INFO @ Fri, 10 Dec 2021 10:22:42: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:22:42: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:22:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.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 10:22:42: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:22:42: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:22:47: 1000000 INFO @ Fri, 10 Dec 2021 10:22:51: 2000000 INFO @ Fri, 10 Dec 2021 10:22:56: 3000000 INFO @ Fri, 10 Dec 2021 10:22:56: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:23:00: 4000000 INFO @ Fri, 10 Dec 2021 10:23:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.05_peaks.xls INFO @ Fri, 10 Dec 2021 10:23:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:23:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.05_summits.bed INFO @ Fri, 10 Dec 2021 10:23:04: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8600 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 10:23:04: 5000000 INFO @ Fri, 10 Dec 2021 10:23:09: 6000000 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 10:23:11: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:23:11: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:23:11: #1 total tags in treatment: 6449989 INFO @ Fri, 10 Dec 2021 10:23:11: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:23:11: #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 10:23:11: #1 tags after filtering in treatment: 6449989 INFO @ Fri, 10 Dec 2021 10:23:11: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:23:11: #1 finished! INFO @ Fri, 10 Dec 2021 10:23:11: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:23:11: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:23:12: #2 number of paired peaks: 2292 INFO @ Fri, 10 Dec 2021 10:23:12: start model_add_line... INFO @ Fri, 10 Dec 2021 10:23:12: start X-correlation... INFO @ Fri, 10 Dec 2021 10:23:12: end of X-cor INFO @ Fri, 10 Dec 2021 10:23:12: #2 finished! INFO @ Fri, 10 Dec 2021 10:23:12: #2 predicted fragment length is 128 bps INFO @ Fri, 10 Dec 2021 10:23:12: #2 alternative fragment length(s) may be 128 bps INFO @ Fri, 10 Dec 2021 10:23:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.10_model.r INFO @ Fri, 10 Dec 2021 10:23:12: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:23:12: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:23:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.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 10:23:12: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:23:12: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:23:17: 1000000 INFO @ Fri, 10 Dec 2021 10:23:21: 2000000 INFO @ Fri, 10 Dec 2021 10:23:25: 3000000 INFO @ Fri, 10 Dec 2021 10:23:26: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:23:30: 4000000 INFO @ Fri, 10 Dec 2021 10:23:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.10_peaks.xls INFO @ Fri, 10 Dec 2021 10:23:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:23:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.10_summits.bed INFO @ Fri, 10 Dec 2021 10:23:34: Done! INFO @ Fri, 10 Dec 2021 10:23:34: 5000000 pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5596 records, 4 fields): 8 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 10:23:39: 6000000 INFO @ Fri, 10 Dec 2021 10:23:41: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:23:41: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:23:41: #1 total tags in treatment: 6449989 INFO @ Fri, 10 Dec 2021 10:23:41: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:23:41: #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 10:23:41: #1 tags after filtering in treatment: 6449989 INFO @ Fri, 10 Dec 2021 10:23:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:23:41: #1 finished! INFO @ Fri, 10 Dec 2021 10:23:41: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:23:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:23:41: #2 number of paired peaks: 2292 INFO @ Fri, 10 Dec 2021 10:23:41: start model_add_line... INFO @ Fri, 10 Dec 2021 10:23:41: start X-correlation... INFO @ Fri, 10 Dec 2021 10:23:41: end of X-cor INFO @ Fri, 10 Dec 2021 10:23:41: #2 finished! INFO @ Fri, 10 Dec 2021 10:23:41: #2 predicted fragment length is 128 bps INFO @ Fri, 10 Dec 2021 10:23:41: #2 alternative fragment length(s) may be 128 bps INFO @ Fri, 10 Dec 2021 10:23:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.20_model.r INFO @ Fri, 10 Dec 2021 10:23:42: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:23:42: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 10:23:56: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:24:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.20_peaks.xls INFO @ Fri, 10 Dec 2021 10:24:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:24:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712944/SRX4712944.20_summits.bed INFO @ Fri, 10 Dec 2021 10:24:03: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3567 records, 4 fields): 5 millis CompletedMACS2peakCalling