Job ID = 6626748 SRX = SRX7262539 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:06:42 41103148 reads; of these: 41103148 (100.00%) were unpaired; of these: 36571303 (88.97%) aligned 0 times 3816507 (9.29%) aligned exactly 1 time 715338 (1.74%) aligned >1 times 11.03% overall alignment rate Time searching: 00:06:42 Overall time: 00:06:42 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_rmdupse_core] 651757 / 4531845 = 0.1438 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 08:44:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.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 08:44:03: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:44:03: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:44:10: 1000000 INFO @ Tue, 14 Jul 2020 08:44:17: 2000000 INFO @ Tue, 14 Jul 2020 08:44:24: 3000000 INFO @ Tue, 14 Jul 2020 08:44:31: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:44:31: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:44:31: #1 total tags in treatment: 3880088 INFO @ Tue, 14 Jul 2020 08:44:31: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:44:31: #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 08:44:31: #1 tags after filtering in treatment: 3879500 INFO @ Tue, 14 Jul 2020 08:44:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:44:31: #1 finished! INFO @ Tue, 14 Jul 2020 08:44:31: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:44:31: #2 looking for paired plus/minus strand peaks... 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 08:44:32: #2 number of paired peaks: 9597 INFO @ Tue, 14 Jul 2020 08:44:32: start model_add_line... INFO @ Tue, 14 Jul 2020 08:44:32: start X-correlation... INFO @ Tue, 14 Jul 2020 08:44:32: end of X-cor INFO @ Tue, 14 Jul 2020 08:44:32: #2 finished! INFO @ Tue, 14 Jul 2020 08:44:32: #2 predicted fragment length is 224 bps INFO @ Tue, 14 Jul 2020 08:44:32: #2 alternative fragment length(s) may be 224 bps INFO @ Tue, 14 Jul 2020 08:44:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.05_model.r INFO @ Tue, 14 Jul 2020 08:44:32: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:44:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:44:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.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 08:44:33: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:44:33: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:44:41: 1000000 INFO @ Tue, 14 Jul 2020 08:44:45: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:44:49: 2000000 INFO @ Tue, 14 Jul 2020 08:44:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:44:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:44:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.05_summits.bed INFO @ Tue, 14 Jul 2020 08:44:51: Done! pass1 - making usageList (126 chroms): 2 millis pass2 - checking and writing primary data (5124 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:44:57: 3000000 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 08:45:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.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 08:45:03: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:45:03: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:45:05: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:45:05: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:45:05: #1 total tags in treatment: 3880088 INFO @ Tue, 14 Jul 2020 08:45:05: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:45:05: #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 08:45:05: #1 tags after filtering in treatment: 3879500 INFO @ Tue, 14 Jul 2020 08:45:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:45:05: #1 finished! INFO @ Tue, 14 Jul 2020 08:45:05: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:45:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:45:06: #2 number of paired peaks: 9597 INFO @ Tue, 14 Jul 2020 08:45:06: start model_add_line... INFO @ Tue, 14 Jul 2020 08:45:06: start X-correlation... INFO @ Tue, 14 Jul 2020 08:45:06: end of X-cor INFO @ Tue, 14 Jul 2020 08:45:06: #2 finished! INFO @ Tue, 14 Jul 2020 08:45:06: #2 predicted fragment length is 224 bps INFO @ Tue, 14 Jul 2020 08:45:06: #2 alternative fragment length(s) may be 224 bps INFO @ Tue, 14 Jul 2020 08:45:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.10_model.r INFO @ Tue, 14 Jul 2020 08:45:06: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:45:06: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:45:12: 1000000 INFO @ Tue, 14 Jul 2020 08:45:20: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:45:21: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:45:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:45:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:45:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.10_summits.bed INFO @ Tue, 14 Jul 2020 08:45:25: Done! pass1 - making usageList (103 chroms): 1 millis pass2 - checking and writing primary data (3445 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:45:29: 3000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:45:37: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:45:37: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:45:37: #1 total tags in treatment: 3880088 INFO @ Tue, 14 Jul 2020 08:45:37: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:45:37: #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 08:45:37: #1 tags after filtering in treatment: 3879500 INFO @ Tue, 14 Jul 2020 08:45:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:45:37: #1 finished! INFO @ Tue, 14 Jul 2020 08:45:37: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:45:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:45:38: #2 number of paired peaks: 9597 INFO @ Tue, 14 Jul 2020 08:45:38: start model_add_line... INFO @ Tue, 14 Jul 2020 08:45:38: start X-correlation... INFO @ Tue, 14 Jul 2020 08:45:38: end of X-cor INFO @ Tue, 14 Jul 2020 08:45:38: #2 finished! INFO @ Tue, 14 Jul 2020 08:45:38: #2 predicted fragment length is 224 bps INFO @ Tue, 14 Jul 2020 08:45:38: #2 alternative fragment length(s) may be 224 bps INFO @ Tue, 14 Jul 2020 08:45:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.20_model.r INFO @ Tue, 14 Jul 2020 08:45:38: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:45:38: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:45:51: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:45:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:45:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:45:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262539/SRX7262539.20_summits.bed INFO @ Tue, 14 Jul 2020 08:45:57: Done! pass1 - making usageList (80 chroms): 1 millis pass2 - checking and writing primary data (1883 records, 4 fields): 19 millis CompletedMACS2peakCalling