Job ID = 6626667 SRX = SRX6813083 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: 00:01:16 8439690 reads; of these: 8439690 (100.00%) were unpaired; of these: 5485265 (64.99%) aligned 0 times 2114717 (25.06%) aligned exactly 1 time 839708 (9.95%) aligned >1 times 35.01% overall alignment rate Time searching: 00:01:16 Overall time: 00:01:16 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] 588490 / 2954425 = 0.1992 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 08:14:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.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 08:14:43: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:14:43: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:14:51: 1000000 INFO @ Tue, 14 Jul 2020 08:14:59: 2000000 INFO @ Tue, 14 Jul 2020 08:15:02: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:15:02: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:15:02: #1 total tags in treatment: 2365935 INFO @ Tue, 14 Jul 2020 08:15:02: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:15:02: #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 08:15:02: #1 tags after filtering in treatment: 2365766 INFO @ Tue, 14 Jul 2020 08:15:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:15:02: #1 finished! INFO @ Tue, 14 Jul 2020 08:15:02: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:15:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:15:02: #2 number of paired peaks: 2040 INFO @ Tue, 14 Jul 2020 08:15:02: start model_add_line... INFO @ Tue, 14 Jul 2020 08:15:02: start X-correlation... INFO @ Tue, 14 Jul 2020 08:15:02: end of X-cor INFO @ Tue, 14 Jul 2020 08:15:02: #2 finished! INFO @ Tue, 14 Jul 2020 08:15:02: #2 predicted fragment length is 167 bps INFO @ Tue, 14 Jul 2020 08:15:02: #2 alternative fragment length(s) may be 167 bps INFO @ Tue, 14 Jul 2020 08:15:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.05_model.r INFO @ Tue, 14 Jul 2020 08:15:02: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:15:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:15:08: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:15:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:15:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:15:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.05_summits.bed INFO @ Tue, 14 Jul 2020 08:15:11: Done! pass1 - making usageList (338 chroms): 1 millis pass2 - checking and writing primary data (1780 records, 4 fields): 10 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 08:15:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.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 08:15:13: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:15:13: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:15:21: 1000000 INFO @ Tue, 14 Jul 2020 08:15:29: 2000000 INFO @ Tue, 14 Jul 2020 08:15:31: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:15:31: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:15:31: #1 total tags in treatment: 2365935 INFO @ Tue, 14 Jul 2020 08:15:31: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:15:31: #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 08:15:32: #1 tags after filtering in treatment: 2365766 INFO @ Tue, 14 Jul 2020 08:15:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:15:32: #1 finished! INFO @ Tue, 14 Jul 2020 08:15:32: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:15:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:15:32: #2 number of paired peaks: 2040 INFO @ Tue, 14 Jul 2020 08:15:32: start model_add_line... INFO @ Tue, 14 Jul 2020 08:15:32: start X-correlation... INFO @ Tue, 14 Jul 2020 08:15:32: end of X-cor INFO @ Tue, 14 Jul 2020 08:15:32: #2 finished! INFO @ Tue, 14 Jul 2020 08:15:32: #2 predicted fragment length is 167 bps INFO @ Tue, 14 Jul 2020 08:15:32: #2 alternative fragment length(s) may be 167 bps INFO @ Tue, 14 Jul 2020 08:15:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.10_model.r INFO @ Tue, 14 Jul 2020 08:15:32: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:15:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:15:38: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:15:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:15:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:15:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.10_summits.bed INFO @ Tue, 14 Jul 2020 08:15:41: Done! pass1 - making usageList (270 chroms): 1 millis pass2 - checking and writing primary data (1171 records, 4 fields): 22 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 08:15:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.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 08:15:43: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:15:43: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:15:50: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:15:56: 2000000 INFO @ Tue, 14 Jul 2020 08:15:58: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:15:58: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:15:58: #1 total tags in treatment: 2365935 INFO @ Tue, 14 Jul 2020 08:15:58: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:15:58: #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 08:15:59: #1 tags after filtering in treatment: 2365766 INFO @ Tue, 14 Jul 2020 08:15:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:15:59: #1 finished! INFO @ Tue, 14 Jul 2020 08:15:59: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:15:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:15:59: #2 number of paired peaks: 2040 INFO @ Tue, 14 Jul 2020 08:15:59: start model_add_line... INFO @ Tue, 14 Jul 2020 08:15:59: start X-correlation... INFO @ Tue, 14 Jul 2020 08:15:59: end of X-cor INFO @ Tue, 14 Jul 2020 08:15:59: #2 finished! INFO @ Tue, 14 Jul 2020 08:15:59: #2 predicted fragment length is 167 bps INFO @ Tue, 14 Jul 2020 08:15:59: #2 alternative fragment length(s) may be 167 bps INFO @ Tue, 14 Jul 2020 08:15:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.20_model.r INFO @ Tue, 14 Jul 2020 08:15:59: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:15:59: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:16:05: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:16:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:16:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:16:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813083/SRX6813083.20_summits.bed INFO @ Tue, 14 Jul 2020 08:16:07: Done! pass1 - making usageList (170 chroms): 0 millis pass2 - checking and writing primary data (662 records, 4 fields): 7 millis CompletedMACS2peakCalling