Job ID = 14168684 SRX = SRX9910768 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 25659929 spots for SRR13498839/SRR13498839.sra Written 25659929 spots for SRR13498839/SRR13498839.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169776 ("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: 00:11:29 25659929 reads; of these: 25659929 (100.00%) were unpaired; of these: 5933953 (23.13%) aligned 0 times 13758694 (53.62%) aligned exactly 1 time 5967282 (23.26%) aligned >1 times 76.87% overall alignment rate Time searching: 00:11:29 Overall time: 00:11:29 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 12 files... [bam_rmdupse_core] 6454801 / 19725976 = 0.3272 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 19:37:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.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 19:37:23: #1 read tag files... INFO @ Fri, 10 Dec 2021 19:37:23: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 19:37:31: 1000000 INFO @ Fri, 10 Dec 2021 19:37:38: 2000000 INFO @ Fri, 10 Dec 2021 19:37:46: 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 @ Fri, 10 Dec 2021 19:37:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.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 19:37:53: #1 read tag files... INFO @ Fri, 10 Dec 2021 19:37:53: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 19:37:54: 4000000 INFO @ Fri, 10 Dec 2021 19:38:01: 1000000 INFO @ Fri, 10 Dec 2021 19:38:03: 5000000 INFO @ Fri, 10 Dec 2021 19:38:10: 2000000 INFO @ Fri, 10 Dec 2021 19:38:12: 6000000 INFO @ Fri, 10 Dec 2021 19:38:19: 3000000 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 19:38:21: 7000000 INFO @ Fri, 10 Dec 2021 19:38:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.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 19:38:23: #1 read tag files... INFO @ Fri, 10 Dec 2021 19:38:23: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 19:38:28: 4000000 INFO @ Fri, 10 Dec 2021 19:38:30: 8000000 INFO @ Fri, 10 Dec 2021 19:38:32: 1000000 INFO @ Fri, 10 Dec 2021 19:38:37: 5000000 INFO @ Fri, 10 Dec 2021 19:38:40: 9000000 INFO @ Fri, 10 Dec 2021 19:38:41: 2000000 INFO @ Fri, 10 Dec 2021 19:38:46: 6000000 INFO @ Fri, 10 Dec 2021 19:38:49: 10000000 INFO @ Fri, 10 Dec 2021 19:38:50: 3000000 INFO @ Fri, 10 Dec 2021 19:38:55: 7000000 INFO @ Fri, 10 Dec 2021 19:38:59: 11000000 INFO @ Fri, 10 Dec 2021 19:38:59: 4000000 INFO @ Fri, 10 Dec 2021 19:39:04: 8000000 INFO @ Fri, 10 Dec 2021 19:39:08: 12000000 INFO @ Fri, 10 Dec 2021 19:39:08: 5000000 INFO @ Fri, 10 Dec 2021 19:39:13: 9000000 INFO @ Fri, 10 Dec 2021 19:39:17: 13000000 INFO @ Fri, 10 Dec 2021 19:39:18: 6000000 INFO @ Fri, 10 Dec 2021 19:39:20: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:39:20: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:39:20: #1 total tags in treatment: 13271175 INFO @ Fri, 10 Dec 2021 19:39:20: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:39:20: #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 19:39:20: #1 tags after filtering in treatment: 13271175 INFO @ Fri, 10 Dec 2021 19:39:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:39:20: #1 finished! INFO @ Fri, 10 Dec 2021 19:39:20: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:39:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:39:21: #2 number of paired peaks: 2028 INFO @ Fri, 10 Dec 2021 19:39:21: start model_add_line... INFO @ Fri, 10 Dec 2021 19:39:21: start X-correlation... INFO @ Fri, 10 Dec 2021 19:39:21: end of X-cor INFO @ Fri, 10 Dec 2021 19:39:21: #2 finished! INFO @ Fri, 10 Dec 2021 19:39:21: #2 predicted fragment length is 212 bps INFO @ Fri, 10 Dec 2021 19:39:21: #2 alternative fragment length(s) may be 212 bps INFO @ Fri, 10 Dec 2021 19:39:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.05_model.r INFO @ Fri, 10 Dec 2021 19:39:21: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:39:21: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 19:39:23: 10000000 INFO @ Fri, 10 Dec 2021 19:39:26: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 19:39:32: 11000000 INFO @ Fri, 10 Dec 2021 19:39:36: 8000000 INFO @ Fri, 10 Dec 2021 19:39:41: 12000000 INFO @ Fri, 10 Dec 2021 19:39:45: 9000000 INFO @ Fri, 10 Dec 2021 19:39:50: 13000000 INFO @ Fri, 10 Dec 2021 19:39:53: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:39:53: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:39:53: #1 total tags in treatment: 13271175 INFO @ Fri, 10 Dec 2021 19:39:53: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:39:53: #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 19:39:53: #1 tags after filtering in treatment: 13271175 INFO @ Fri, 10 Dec 2021 19:39:53: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:39:53: #1 finished! INFO @ Fri, 10 Dec 2021 19:39:53: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:39:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:39:53: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:39:54: 10000000 INFO @ Fri, 10 Dec 2021 19:39:54: #2 number of paired peaks: 2028 INFO @ Fri, 10 Dec 2021 19:39:54: start model_add_line... INFO @ Fri, 10 Dec 2021 19:39:54: start X-correlation... INFO @ Fri, 10 Dec 2021 19:39:54: end of X-cor INFO @ Fri, 10 Dec 2021 19:39:54: #2 finished! INFO @ Fri, 10 Dec 2021 19:39:54: #2 predicted fragment length is 212 bps INFO @ Fri, 10 Dec 2021 19:39:54: #2 alternative fragment length(s) may be 212 bps INFO @ Fri, 10 Dec 2021 19:39:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.10_model.r INFO @ Fri, 10 Dec 2021 19:39:54: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:39:54: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 19:40:02: 11000000 INFO @ Fri, 10 Dec 2021 19:40:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.05_peaks.xls INFO @ Fri, 10 Dec 2021 19:40:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:40:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.05_summits.bed INFO @ Fri, 10 Dec 2021 19:40:09: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (7562 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 19:40:11: 12000000 INFO @ Fri, 10 Dec 2021 19:40:19: 13000000 INFO @ Fri, 10 Dec 2021 19:40:21: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:40:21: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:40:21: #1 total tags in treatment: 13271175 INFO @ Fri, 10 Dec 2021 19:40:21: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:40:21: #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 19:40:21: #1 tags after filtering in treatment: 13271175 INFO @ Fri, 10 Dec 2021 19:40:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:40:21: #1 finished! INFO @ Fri, 10 Dec 2021 19:40:21: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:40:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:40:22: #2 number of paired peaks: 2028 INFO @ Fri, 10 Dec 2021 19:40:22: start model_add_line... INFO @ Fri, 10 Dec 2021 19:40:23: start X-correlation... INFO @ Fri, 10 Dec 2021 19:40:23: end of X-cor INFO @ Fri, 10 Dec 2021 19:40:23: #2 finished! INFO @ Fri, 10 Dec 2021 19:40:23: #2 predicted fragment length is 212 bps INFO @ Fri, 10 Dec 2021 19:40:23: #2 alternative fragment length(s) may be 212 bps INFO @ Fri, 10 Dec 2021 19:40:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.20_model.r INFO @ Fri, 10 Dec 2021 19:40:23: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:40:23: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 19:40:26: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:40:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.10_peaks.xls INFO @ Fri, 10 Dec 2021 19:40:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:40:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.10_summits.bed INFO @ Fri, 10 Dec 2021 19:40:41: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5693 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 19:40:54: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:41:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.20_peaks.xls INFO @ Fri, 10 Dec 2021 19:41:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:41:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9910768/SRX9910768.20_summits.bed INFO @ Fri, 10 Dec 2021 19:41:10: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3858 records, 4 fields): 5 millis CompletedMACS2peakCalling