Job ID = 6626685 SRX = SRX6813091 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: 00:02:00 13087458 reads; of these: 13087458 (100.00%) were unpaired; of these: 4676422 (35.73%) aligned 0 times 7609161 (58.14%) aligned exactly 1 time 801875 (6.13%) aligned >1 times 64.27% overall alignment rate Time searching: 00:02:00 Overall time: 00:02:00 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] 1185874 / 8411036 = 0.1410 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 08:22:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.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 08:22:51: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:22:51: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:22:57: 1000000 INFO @ Tue, 14 Jul 2020 08:23:02: 2000000 INFO @ Tue, 14 Jul 2020 08:23:08: 3000000 INFO @ Tue, 14 Jul 2020 08:23:13: 4000000 INFO @ Tue, 14 Jul 2020 08:23:18: 5000000 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 08:23:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.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 08:23:21: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:23:21: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:23:24: 6000000 INFO @ Tue, 14 Jul 2020 08:23:26: 1000000 INFO @ Tue, 14 Jul 2020 08:23:30: 7000000 INFO @ Tue, 14 Jul 2020 08:23:31: 2000000 INFO @ Tue, 14 Jul 2020 08:23:31: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:23:31: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:23:31: #1 total tags in treatment: 7225162 INFO @ Tue, 14 Jul 2020 08:23:31: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:23:31: #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 08:23:32: #1 tags after filtering in treatment: 7225057 INFO @ Tue, 14 Jul 2020 08:23:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:23:32: #1 finished! INFO @ Tue, 14 Jul 2020 08:23:32: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:23:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:23:33: #2 number of paired peaks: 10052 INFO @ Tue, 14 Jul 2020 08:23:33: start model_add_line... INFO @ Tue, 14 Jul 2020 08:23:33: start X-correlation... INFO @ Tue, 14 Jul 2020 08:23:33: end of X-cor INFO @ Tue, 14 Jul 2020 08:23:33: #2 finished! INFO @ Tue, 14 Jul 2020 08:23:33: #2 predicted fragment length is 243 bps INFO @ Tue, 14 Jul 2020 08:23:33: #2 alternative fragment length(s) may be 243 bps INFO @ Tue, 14 Jul 2020 08:23:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.05_model.r INFO @ Tue, 14 Jul 2020 08:23:33: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:23:33: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:23:36: 3000000 INFO @ Tue, 14 Jul 2020 08:23:41: 4000000 INFO @ Tue, 14 Jul 2020 08:23:46: 5000000 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 08:23:51: 6000000 INFO @ Tue, 14 Jul 2020 08:23:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.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 08:23:51: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:23:51: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:23:53: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:23:56: 7000000 INFO @ Tue, 14 Jul 2020 08:23:56: 1000000 INFO @ Tue, 14 Jul 2020 08:23:57: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:23:57: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:23:57: #1 total tags in treatment: 7225162 INFO @ Tue, 14 Jul 2020 08:23:57: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:23:57: #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 08:23:57: #1 tags after filtering in treatment: 7225057 INFO @ Tue, 14 Jul 2020 08:23:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:23:57: #1 finished! INFO @ Tue, 14 Jul 2020 08:23:57: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:23:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:23:59: #2 number of paired peaks: 10052 INFO @ Tue, 14 Jul 2020 08:23:59: start model_add_line... INFO @ Tue, 14 Jul 2020 08:23:59: start X-correlation... INFO @ Tue, 14 Jul 2020 08:23:59: end of X-cor INFO @ Tue, 14 Jul 2020 08:23:59: #2 finished! INFO @ Tue, 14 Jul 2020 08:23:59: #2 predicted fragment length is 243 bps INFO @ Tue, 14 Jul 2020 08:23:59: #2 alternative fragment length(s) may be 243 bps INFO @ Tue, 14 Jul 2020 08:23:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.10_model.r INFO @ Tue, 14 Jul 2020 08:23:59: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:23:59: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:24:01: 2000000 INFO @ Tue, 14 Jul 2020 08:24:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:24:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:24:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.05_summits.bed INFO @ Tue, 14 Jul 2020 08:24:02: Done! pass1 - making usageList (140 chroms): 2 millis pass2 - checking and writing primary data (7795 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:24:06: 3000000 INFO @ Tue, 14 Jul 2020 08:24:10: 4000000 INFO @ Tue, 14 Jul 2020 08:24:15: 5000000 INFO @ Tue, 14 Jul 2020 08:24:18: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:24:20: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:24:25: 7000000 INFO @ Tue, 14 Jul 2020 08:24:27: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:24:27: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:24:27: #1 total tags in treatment: 7225162 INFO @ Tue, 14 Jul 2020 08:24:27: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:24:27: #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 08:24:27: #1 tags after filtering in treatment: 7225057 INFO @ Tue, 14 Jul 2020 08:24:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:24:27: #1 finished! INFO @ Tue, 14 Jul 2020 08:24:27: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:24:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:24:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:24:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:24:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.10_summits.bed INFO @ Tue, 14 Jul 2020 08:24:27: Done! pass1 - making usageList (82 chroms): 1 millis pass2 - checking and writing primary data (5612 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:24:28: #2 number of paired peaks: 10052 INFO @ Tue, 14 Jul 2020 08:24:28: start model_add_line... INFO @ Tue, 14 Jul 2020 08:24:28: start X-correlation... INFO @ Tue, 14 Jul 2020 08:24:28: end of X-cor INFO @ Tue, 14 Jul 2020 08:24:28: #2 finished! INFO @ Tue, 14 Jul 2020 08:24:28: #2 predicted fragment length is 243 bps INFO @ Tue, 14 Jul 2020 08:24:28: #2 alternative fragment length(s) may be 243 bps INFO @ Tue, 14 Jul 2020 08:24:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.20_model.r INFO @ Tue, 14 Jul 2020 08:24:28: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:24:28: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:24:48: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:24:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:24:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:24:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813091/SRX6813091.20_summits.bed INFO @ Tue, 14 Jul 2020 08:24:57: Done! pass1 - making usageList (64 chroms): 1 millis pass2 - checking and writing primary data (2774 records, 4 fields): 6 millis CompletedMACS2peakCalling