Job ID = 6626687 SRX = SRX6813092 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: 00:02:49 12810227 reads; of these: 12810227 (100.00%) were unpaired; of these: 527212 (4.12%) aligned 0 times 10235215 (79.90%) aligned exactly 1 time 2047800 (15.99%) aligned >1 times 95.88% overall alignment rate Time searching: 00:02:49 Overall time: 00:02:49 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] 1134868 / 12283015 = 0.0924 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 08:24:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.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 08:24:35: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:24:35: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:24:40: 1000000 INFO @ Tue, 14 Jul 2020 08:24:44: 2000000 INFO @ Tue, 14 Jul 2020 08:24:49: 3000000 INFO @ Tue, 14 Jul 2020 08:24:54: 4000000 INFO @ Tue, 14 Jul 2020 08:24:59: 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 08:25:04: 6000000 INFO @ Tue, 14 Jul 2020 08:25:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.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 08:25:05: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:25:05: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:25:09: 7000000 INFO @ Tue, 14 Jul 2020 08:25:10: 1000000 INFO @ Tue, 14 Jul 2020 08:25:14: 8000000 INFO @ Tue, 14 Jul 2020 08:25:16: 2000000 INFO @ Tue, 14 Jul 2020 08:25:19: 9000000 INFO @ Tue, 14 Jul 2020 08:25:21: 3000000 INFO @ Tue, 14 Jul 2020 08:25:24: 10000000 INFO @ Tue, 14 Jul 2020 08:25:27: 4000000 INFO @ Tue, 14 Jul 2020 08:25:29: 11000000 INFO @ Tue, 14 Jul 2020 08:25:30: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:25:30: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:25:30: #1 total tags in treatment: 11148147 INFO @ Tue, 14 Jul 2020 08:25:30: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:25:30: #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 08:25:31: #1 tags after filtering in treatment: 11148092 INFO @ Tue, 14 Jul 2020 08:25:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:25:31: #1 finished! INFO @ Tue, 14 Jul 2020 08:25:31: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:25:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:25:32: #2 number of paired peaks: 2862 INFO @ Tue, 14 Jul 2020 08:25:32: start model_add_line... INFO @ Tue, 14 Jul 2020 08:25:32: start X-correlation... INFO @ Tue, 14 Jul 2020 08:25:32: end of X-cor INFO @ Tue, 14 Jul 2020 08:25:32: #2 finished! INFO @ Tue, 14 Jul 2020 08:25:32: #2 predicted fragment length is 194 bps INFO @ Tue, 14 Jul 2020 08:25:32: #2 alternative fragment length(s) may be 194 bps INFO @ Tue, 14 Jul 2020 08:25:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.05_model.r INFO @ Tue, 14 Jul 2020 08:25:32: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:25:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:25:32: 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 08:25:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.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 08:25:35: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:25:35: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:25:37: 6000000 INFO @ Tue, 14 Jul 2020 08:25:40: 1000000 INFO @ Tue, 14 Jul 2020 08:25:43: 7000000 INFO @ Tue, 14 Jul 2020 08:25:46: 2000000 INFO @ Tue, 14 Jul 2020 08:25:49: 8000000 INFO @ Tue, 14 Jul 2020 08:25:52: 3000000 INFO @ Tue, 14 Jul 2020 08:25:54: 9000000 INFO @ Tue, 14 Jul 2020 08:25:57: 4000000 INFO @ Tue, 14 Jul 2020 08:25:58: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:26:00: 10000000 INFO @ Tue, 14 Jul 2020 08:26:03: 5000000 INFO @ Tue, 14 Jul 2020 08:26:06: 11000000 INFO @ Tue, 14 Jul 2020 08:26:07: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:26:07: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:26:07: #1 total tags in treatment: 11148147 INFO @ Tue, 14 Jul 2020 08:26:07: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:26:07: #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 08:26:08: #1 tags after filtering in treatment: 11148092 INFO @ Tue, 14 Jul 2020 08:26:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:26:08: #1 finished! INFO @ Tue, 14 Jul 2020 08:26:08: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:26:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:26:08: 6000000 INFO @ Tue, 14 Jul 2020 08:26:09: #2 number of paired peaks: 2862 INFO @ Tue, 14 Jul 2020 08:26:09: start model_add_line... INFO @ Tue, 14 Jul 2020 08:26:09: start X-correlation... INFO @ Tue, 14 Jul 2020 08:26:09: end of X-cor INFO @ Tue, 14 Jul 2020 08:26:09: #2 finished! INFO @ Tue, 14 Jul 2020 08:26:09: #2 predicted fragment length is 194 bps INFO @ Tue, 14 Jul 2020 08:26:09: #2 alternative fragment length(s) may be 194 bps INFO @ Tue, 14 Jul 2020 08:26:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.10_model.r INFO @ Tue, 14 Jul 2020 08:26:09: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:26:09: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:26:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:26:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:26:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.05_summits.bed INFO @ Tue, 14 Jul 2020 08:26:10: Done! pass1 - making usageList (255 chroms): 1 millis pass2 - checking and writing primary data (3192 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:26:14: 7000000 INFO @ Tue, 14 Jul 2020 08:26:20: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:26:25: 9000000 INFO @ Tue, 14 Jul 2020 08:26:31: 10000000 INFO @ Tue, 14 Jul 2020 08:26:36: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:26:37: 11000000 INFO @ Tue, 14 Jul 2020 08:26:38: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:26:38: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:26:38: #1 total tags in treatment: 11148147 INFO @ Tue, 14 Jul 2020 08:26:38: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:26:38: #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 08:26:38: #1 tags after filtering in treatment: 11148092 INFO @ Tue, 14 Jul 2020 08:26:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:26:38: #1 finished! INFO @ Tue, 14 Jul 2020 08:26:38: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:26:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:26:39: #2 number of paired peaks: 2862 INFO @ Tue, 14 Jul 2020 08:26:39: start model_add_line... INFO @ Tue, 14 Jul 2020 08:26:39: start X-correlation... INFO @ Tue, 14 Jul 2020 08:26:39: end of X-cor INFO @ Tue, 14 Jul 2020 08:26:39: #2 finished! INFO @ Tue, 14 Jul 2020 08:26:39: #2 predicted fragment length is 194 bps INFO @ Tue, 14 Jul 2020 08:26:39: #2 alternative fragment length(s) may be 194 bps INFO @ Tue, 14 Jul 2020 08:26:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.20_model.r INFO @ Tue, 14 Jul 2020 08:26:39: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:26:39: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:26:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:26:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:26:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.10_summits.bed INFO @ Tue, 14 Jul 2020 08:26:47: Done! pass1 - making usageList (181 chroms): 1 millis pass2 - checking and writing primary data (1099 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:27:06: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:27:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:27:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:27:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813092/SRX6813092.20_summits.bed INFO @ Tue, 14 Jul 2020 08:27:18: Done! pass1 - making usageList (89 chroms): 1 millis pass2 - checking and writing primary data (324 records, 4 fields): 4 millis CompletedMACS2peakCalling