Job ID = 6626653 SRX = SRX6813071 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: 00:03:12 14070723 reads; of these: 14070723 (100.00%) were unpaired; of these: 2552487 (18.14%) aligned 0 times 10508385 (74.68%) aligned exactly 1 time 1009851 (7.18%) aligned >1 times 81.86% overall alignment rate Time searching: 00:03:12 Overall time: 00:03:12 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_sort_core] merging from 8 files... [bam_rmdupse_core] 4311874 / 11518236 = 0.3744 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 08:15:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.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 08:15:35: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:15:35: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:15:41: 1000000 INFO @ Tue, 14 Jul 2020 08:15:47: 2000000 INFO @ Tue, 14 Jul 2020 08:15:53: 3000000 INFO @ Tue, 14 Jul 2020 08:15:58: 4000000 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 08:16:04: 5000000 INFO @ Tue, 14 Jul 2020 08:16:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.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 08:16:05: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:16:05: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:16:11: 6000000 INFO @ Tue, 14 Jul 2020 08:16:12: 1000000 INFO @ Tue, 14 Jul 2020 08:16:17: 7000000 INFO @ Tue, 14 Jul 2020 08:16:19: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:16:19: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:16:19: #1 total tags in treatment: 7206362 INFO @ Tue, 14 Jul 2020 08:16:19: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:16:19: #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 08:16:19: #1 tags after filtering in treatment: 7206150 INFO @ Tue, 14 Jul 2020 08:16:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:16:19: #1 finished! INFO @ Tue, 14 Jul 2020 08:16:19: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:16:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:16:19: 2000000 INFO @ Tue, 14 Jul 2020 08:16:20: #2 number of paired peaks: 6846 INFO @ Tue, 14 Jul 2020 08:16:20: start model_add_line... INFO @ Tue, 14 Jul 2020 08:16:20: start X-correlation... INFO @ Tue, 14 Jul 2020 08:16:20: end of X-cor INFO @ Tue, 14 Jul 2020 08:16:20: #2 finished! INFO @ Tue, 14 Jul 2020 08:16:20: #2 predicted fragment length is 231 bps INFO @ Tue, 14 Jul 2020 08:16:20: #2 alternative fragment length(s) may be 231 bps INFO @ Tue, 14 Jul 2020 08:16:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.05_model.r INFO @ Tue, 14 Jul 2020 08:16:20: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:16:20: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:16:26: 3000000 INFO @ Tue, 14 Jul 2020 08:16:32: 4000000 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 08:16:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.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 08:16:35: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:16:35: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:16:39: 5000000 INFO @ Tue, 14 Jul 2020 08:16:42: 1000000 INFO @ Tue, 14 Jul 2020 08:16:45: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:16:46: 6000000 INFO @ Tue, 14 Jul 2020 08:16:49: 2000000 INFO @ Tue, 14 Jul 2020 08:16:53: 7000000 INFO @ Tue, 14 Jul 2020 08:16:55: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:16:55: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:16:55: #1 total tags in treatment: 7206362 INFO @ Tue, 14 Jul 2020 08:16:55: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:16:55: #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 08:16:55: #1 tags after filtering in treatment: 7206150 INFO @ Tue, 14 Jul 2020 08:16:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:16:55: #1 finished! INFO @ Tue, 14 Jul 2020 08:16:55: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:16:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:16:55: 3000000 INFO @ Tue, 14 Jul 2020 08:16:56: #2 number of paired peaks: 6846 INFO @ Tue, 14 Jul 2020 08:16:56: start model_add_line... INFO @ Tue, 14 Jul 2020 08:16:56: start X-correlation... INFO @ Tue, 14 Jul 2020 08:16:56: end of X-cor INFO @ Tue, 14 Jul 2020 08:16:56: #2 finished! INFO @ Tue, 14 Jul 2020 08:16:56: #2 predicted fragment length is 231 bps INFO @ Tue, 14 Jul 2020 08:16:56: #2 alternative fragment length(s) may be 231 bps INFO @ Tue, 14 Jul 2020 08:16:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.10_model.r INFO @ Tue, 14 Jul 2020 08:16:56: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:16:56: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:16:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:16:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:16:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.05_summits.bed INFO @ Tue, 14 Jul 2020 08:16:57: Done! pass1 - making usageList (177 chroms): 2 millis pass2 - checking and writing primary data (9629 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:17:02: 4000000 INFO @ Tue, 14 Jul 2020 08:17:08: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:17:14: 6000000 INFO @ Tue, 14 Jul 2020 08:17:19: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:17:20: 7000000 INFO @ Tue, 14 Jul 2020 08:17:21: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:17:21: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:17:21: #1 total tags in treatment: 7206362 INFO @ Tue, 14 Jul 2020 08:17:21: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:17:21: #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 08:17:21: #1 tags after filtering in treatment: 7206150 INFO @ Tue, 14 Jul 2020 08:17:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:17:21: #1 finished! INFO @ Tue, 14 Jul 2020 08:17:21: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:17:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:17:22: #2 number of paired peaks: 6846 INFO @ Tue, 14 Jul 2020 08:17:22: start model_add_line... INFO @ Tue, 14 Jul 2020 08:17:23: start X-correlation... INFO @ Tue, 14 Jul 2020 08:17:23: end of X-cor INFO @ Tue, 14 Jul 2020 08:17:23: #2 finished! INFO @ Tue, 14 Jul 2020 08:17:23: #2 predicted fragment length is 231 bps INFO @ Tue, 14 Jul 2020 08:17:23: #2 alternative fragment length(s) may be 231 bps INFO @ Tue, 14 Jul 2020 08:17:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.20_model.r INFO @ Tue, 14 Jul 2020 08:17:23: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:17:23: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:17:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:17:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:17:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.10_summits.bed INFO @ Tue, 14 Jul 2020 08:17:29: Done! pass1 - making usageList (147 chroms): 2 millis pass2 - checking and writing primary data (7963 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:17:47: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:17:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:17:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:17:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813071/SRX6813071.20_summits.bed INFO @ Tue, 14 Jul 2020 08:17:57: Done! pass1 - making usageList (123 chroms): 2 millis pass2 - checking and writing primary data (6252 records, 4 fields): 22 millis CompletedMACS2peakCalling