Job ID = 12266581 SRX = SRX7282923 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 9821907 spots for SRR10603282/SRR10603282.sra Written 9821907 spots for SRR10603282/SRR10603282.sra fastq に変換しました。 bowtie でマッピング中... Your job 12266783 ("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: 00:02:27 9821907 reads; of these: 9821907 (100.00%) were unpaired; of these: 1488442 (15.15%) aligned 0 times 7023403 (71.51%) aligned exactly 1 time 1310062 (13.34%) aligned >1 times 84.85% overall alignment rate Time searching: 00:02:27 Overall time: 00:02:27 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_rmdupse_core] 2290777 / 8333465 = 0.2749 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:07:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.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, 03 Apr 2021 09:07:56: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:07:56: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:08:03: 1000000 INFO @ Sat, 03 Apr 2021 09:08:09: 2000000 INFO @ Sat, 03 Apr 2021 09:08:15: 3000000 INFO @ Sat, 03 Apr 2021 09:08:21: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:08:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.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, 03 Apr 2021 09:08:26: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:08:26: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:08:28: 5000000 INFO @ Sat, 03 Apr 2021 09:08:32: 1000000 INFO @ Sat, 03 Apr 2021 09:08:34: 6000000 INFO @ Sat, 03 Apr 2021 09:08:34: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:08:34: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:08:34: #1 total tags in treatment: 6042688 INFO @ Sat, 03 Apr 2021 09:08:34: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:08:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:08:34: #1 tags after filtering in treatment: 6042688 INFO @ Sat, 03 Apr 2021 09:08:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:08:34: #1 finished! INFO @ Sat, 03 Apr 2021 09:08:34: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:08:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:08:35: #2 number of paired peaks: 2476 INFO @ Sat, 03 Apr 2021 09:08:35: start model_add_line... INFO @ Sat, 03 Apr 2021 09:08:35: start X-correlation... INFO @ Sat, 03 Apr 2021 09:08:35: end of X-cor INFO @ Sat, 03 Apr 2021 09:08:35: #2 finished! INFO @ Sat, 03 Apr 2021 09:08:35: #2 predicted fragment length is 102 bps INFO @ Sat, 03 Apr 2021 09:08:35: #2 alternative fragment length(s) may be 102 bps INFO @ Sat, 03 Apr 2021 09:08:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.05_model.r INFO @ Sat, 03 Apr 2021 09:08:35: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:08:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:08:38: 2000000 INFO @ Sat, 03 Apr 2021 09:08:44: 3000000 INFO @ Sat, 03 Apr 2021 09:08:50: 4000000 INFO @ Sat, 03 Apr 2021 09:08:51: #3 Call peaks for each chromosome... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:08:55: 5000000 INFO @ Sat, 03 Apr 2021 09:08:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.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, 03 Apr 2021 09:08:56: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:08:56: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:08:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.05_peaks.xls INFO @ Sat, 03 Apr 2021 09:08:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:08:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.05_summits.bed INFO @ Sat, 03 Apr 2021 09:08:59: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (10904 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 09:09:01: 6000000 INFO @ Sat, 03 Apr 2021 09:09:02: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:09:02: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:09:02: #1 total tags in treatment: 6042688 INFO @ Sat, 03 Apr 2021 09:09:02: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:09:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:09:02: #1 tags after filtering in treatment: 6042688 INFO @ Sat, 03 Apr 2021 09:09:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:09:02: #1 finished! INFO @ Sat, 03 Apr 2021 09:09:02: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:09:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:09:02: #2 number of paired peaks: 2476 INFO @ Sat, 03 Apr 2021 09:09:02: start model_add_line... INFO @ Sat, 03 Apr 2021 09:09:02: start X-correlation... INFO @ Sat, 03 Apr 2021 09:09:02: end of X-cor INFO @ Sat, 03 Apr 2021 09:09:02: #2 finished! INFO @ Sat, 03 Apr 2021 09:09:02: #2 predicted fragment length is 102 bps INFO @ Sat, 03 Apr 2021 09:09:02: #2 alternative fragment length(s) may be 102 bps INFO @ Sat, 03 Apr 2021 09:09:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.10_model.r INFO @ Sat, 03 Apr 2021 09:09:02: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:09:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:09:02: 1000000 INFO @ Sat, 03 Apr 2021 09:09:08: 2000000 INFO @ Sat, 03 Apr 2021 09:09:15: 3000000 INFO @ Sat, 03 Apr 2021 09:09:18: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:09:21: 4000000 INFO @ Sat, 03 Apr 2021 09:09:27: 5000000 INFO @ Sat, 03 Apr 2021 09:09:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.10_peaks.xls INFO @ Sat, 03 Apr 2021 09:09:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:09:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.10_summits.bed INFO @ Sat, 03 Apr 2021 09:09:27: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (6321 records, 4 fields): 9 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 09:09:32: 6000000 INFO @ Sat, 03 Apr 2021 09:09:33: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:09:33: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:09:33: #1 total tags in treatment: 6042688 INFO @ Sat, 03 Apr 2021 09:09:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:09:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:09:33: #1 tags after filtering in treatment: 6042688 INFO @ Sat, 03 Apr 2021 09:09:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:09:33: #1 finished! INFO @ Sat, 03 Apr 2021 09:09:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:09:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:09:33: #2 number of paired peaks: 2476 INFO @ Sat, 03 Apr 2021 09:09:33: start model_add_line... INFO @ Sat, 03 Apr 2021 09:09:33: start X-correlation... INFO @ Sat, 03 Apr 2021 09:09:33: end of X-cor INFO @ Sat, 03 Apr 2021 09:09:33: #2 finished! INFO @ Sat, 03 Apr 2021 09:09:33: #2 predicted fragment length is 102 bps INFO @ Sat, 03 Apr 2021 09:09:33: #2 alternative fragment length(s) may be 102 bps INFO @ Sat, 03 Apr 2021 09:09:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.20_model.r INFO @ Sat, 03 Apr 2021 09:09:33: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:09:33: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 09:09:49: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:09:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.20_peaks.xls INFO @ Sat, 03 Apr 2021 09:09:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:09:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282923/SRX7282923.20_summits.bed INFO @ Sat, 03 Apr 2021 09:09:58: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (2560 records, 4 fields): 4 millis CompletedMACS2peakCalling