Job ID = 6626600 SRX = SRX7262534 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 27396299 spots for SRR10582161/SRR10582161.sra Written 27396299 spots for SRR10582161/SRR10582161.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626728 ("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: 00:04:03 27396299 reads; of these: 27396299 (100.00%) were unpaired; of these: 26354388 (96.20%) aligned 0 times 891597 (3.25%) aligned exactly 1 time 150314 (0.55%) aligned >1 times 3.80% overall alignment rate Time searching: 00:04:03 Overall time: 00:04:03 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] 325300 / 1041911 = 0.3122 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:54:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.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 @ Tue, 14 Jul 2020 07:54:28: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:54:28: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:54:32: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:54:32: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:54:32: #1 total tags in treatment: 716611 INFO @ Tue, 14 Jul 2020 07:54:32: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:54:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:54:32: #1 tags after filtering in treatment: 716611 INFO @ Tue, 14 Jul 2020 07:54:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:54:32: #1 finished! INFO @ Tue, 14 Jul 2020 07:54:32: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:54:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:54:32: #2 number of paired peaks: 7674 INFO @ Tue, 14 Jul 2020 07:54:32: start model_add_line... INFO @ Tue, 14 Jul 2020 07:54:32: start X-correlation... INFO @ Tue, 14 Jul 2020 07:54:32: end of X-cor INFO @ Tue, 14 Jul 2020 07:54:32: #2 finished! INFO @ Tue, 14 Jul 2020 07:54:32: #2 predicted fragment length is 248 bps INFO @ Tue, 14 Jul 2020 07:54:32: #2 alternative fragment length(s) may be 248 bps INFO @ Tue, 14 Jul 2020 07:54:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.05_model.r INFO @ Tue, 14 Jul 2020 07:54:32: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:54:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:54:34: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:54:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:54:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:54:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.05_summits.bed INFO @ Tue, 14 Jul 2020 07:54:35: Done! pass1 - making usageList (13 chroms): 0 millis pass2 - checking and writing primary data (1883 records, 4 fields): 12 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:54:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.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 @ Tue, 14 Jul 2020 07:54:58: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:54:58: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:55:02: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:55:02: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:55:02: #1 total tags in treatment: 716611 INFO @ Tue, 14 Jul 2020 07:55:02: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:55:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:55:02: #1 tags after filtering in treatment: 716611 INFO @ Tue, 14 Jul 2020 07:55:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:55:02: #1 finished! INFO @ Tue, 14 Jul 2020 07:55:02: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:55:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:55:02: #2 number of paired peaks: 7674 INFO @ Tue, 14 Jul 2020 07:55:02: start model_add_line... INFO @ Tue, 14 Jul 2020 07:55:02: start X-correlation... INFO @ Tue, 14 Jul 2020 07:55:02: end of X-cor INFO @ Tue, 14 Jul 2020 07:55:02: #2 finished! INFO @ Tue, 14 Jul 2020 07:55:02: #2 predicted fragment length is 248 bps INFO @ Tue, 14 Jul 2020 07:55:02: #2 alternative fragment length(s) may be 248 bps INFO @ Tue, 14 Jul 2020 07:55:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.10_model.r INFO @ Tue, 14 Jul 2020 07:55:02: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:55:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:55:04: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:55:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:55:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:55:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.10_summits.bed INFO @ Tue, 14 Jul 2020 07:55:05: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (804 records, 4 fields): 18 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:55:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.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 @ Tue, 14 Jul 2020 07:55:28: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:55:28: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:55:32: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:55:32: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:55:32: #1 total tags in treatment: 716611 INFO @ Tue, 14 Jul 2020 07:55:32: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:55:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:55:32: #1 tags after filtering in treatment: 716611 INFO @ Tue, 14 Jul 2020 07:55:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:55:32: #1 finished! INFO @ Tue, 14 Jul 2020 07:55:32: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:55:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:55:32: #2 number of paired peaks: 7674 INFO @ Tue, 14 Jul 2020 07:55:32: start model_add_line... INFO @ Tue, 14 Jul 2020 07:55:32: start X-correlation... INFO @ Tue, 14 Jul 2020 07:55:32: end of X-cor INFO @ Tue, 14 Jul 2020 07:55:32: #2 finished! INFO @ Tue, 14 Jul 2020 07:55:32: #2 predicted fragment length is 248 bps INFO @ Tue, 14 Jul 2020 07:55:32: #2 alternative fragment length(s) may be 248 bps INFO @ Tue, 14 Jul 2020 07:55:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.20_model.r INFO @ Tue, 14 Jul 2020 07:55:32: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:55:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:55:34: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:55:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:55:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:55:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262534/SRX7262534.20_summits.bed INFO @ Tue, 14 Jul 2020 07:55:35: Done! pass1 - making usageList (9 chroms): 1 millis pass2 - checking and writing primary data (281 records, 4 fields): 2 millis CompletedMACS2peakCalling