Job ID = 6627118 SRX = SRX7974997 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: 00:03:53 23623005 reads; of these: 23623005 (100.00%) were unpaired; of these: 7217012 (30.55%) aligned 0 times 15121082 (64.01%) aligned exactly 1 time 1284911 (5.44%) aligned >1 times 69.45% overall alignment rate Time searching: 00:03:53 Overall time: 00:03:53 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] 3975768 / 16405993 = 0.2423 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 10:09:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.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 10:09:39: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:09:39: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:09:44: 1000000 INFO @ Tue, 14 Jul 2020 10:09:49: 2000000 INFO @ Tue, 14 Jul 2020 10:09:54: 3000000 INFO @ Tue, 14 Jul 2020 10:09:59: 4000000 INFO @ Tue, 14 Jul 2020 10:10:04: 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 10:10:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.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 10:10:09: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:10:09: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:10:09: 6000000 INFO @ Tue, 14 Jul 2020 10:10:14: 7000000 INFO @ Tue, 14 Jul 2020 10:10:14: 1000000 INFO @ Tue, 14 Jul 2020 10:10:19: 8000000 INFO @ Tue, 14 Jul 2020 10:10:20: 2000000 INFO @ Tue, 14 Jul 2020 10:10:25: 9000000 INFO @ Tue, 14 Jul 2020 10:10:25: 3000000 INFO @ Tue, 14 Jul 2020 10:10:30: 10000000 INFO @ Tue, 14 Jul 2020 10:10:30: 4000000 INFO @ Tue, 14 Jul 2020 10:10:35: 11000000 INFO @ Tue, 14 Jul 2020 10:10:35: 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 10:10:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.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 10:10:39: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:10:39: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:10:40: 12000000 INFO @ Tue, 14 Jul 2020 10:10:41: 6000000 INFO @ Tue, 14 Jul 2020 10:10:43: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 10:10:43: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 10:10:43: #1 total tags in treatment: 12430225 INFO @ Tue, 14 Jul 2020 10:10:43: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:10:43: #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 10:10:43: #1 tags after filtering in treatment: 12430046 INFO @ Tue, 14 Jul 2020 10:10:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 10:10:43: #1 finished! INFO @ Tue, 14 Jul 2020 10:10:43: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:10:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:10:45: #2 number of paired peaks: 7119 INFO @ Tue, 14 Jul 2020 10:10:45: start model_add_line... INFO @ Tue, 14 Jul 2020 10:10:45: start X-correlation... INFO @ Tue, 14 Jul 2020 10:10:45: end of X-cor INFO @ Tue, 14 Jul 2020 10:10:45: #2 finished! INFO @ Tue, 14 Jul 2020 10:10:45: #2 predicted fragment length is 270 bps INFO @ Tue, 14 Jul 2020 10:10:45: #2 alternative fragment length(s) may be 270 bps INFO @ Tue, 14 Jul 2020 10:10:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.05_model.r INFO @ Tue, 14 Jul 2020 10:10:45: #3 Call peaks... INFO @ Tue, 14 Jul 2020 10:10:45: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 10:10:45: 1000000 INFO @ Tue, 14 Jul 2020 10:10:46: 7000000 INFO @ Tue, 14 Jul 2020 10:10:51: 2000000 INFO @ Tue, 14 Jul 2020 10:10:51: 8000000 INFO @ Tue, 14 Jul 2020 10:10:57: 9000000 INFO @ Tue, 14 Jul 2020 10:10:57: 3000000 INFO @ Tue, 14 Jul 2020 10:11:02: 10000000 INFO @ Tue, 14 Jul 2020 10:11:03: 4000000 INFO @ Tue, 14 Jul 2020 10:11:08: 11000000 INFO @ Tue, 14 Jul 2020 10:11:08: 5000000 INFO @ Tue, 14 Jul 2020 10:11:13: 12000000 INFO @ Tue, 14 Jul 2020 10:11:14: 6000000 INFO @ Tue, 14 Jul 2020 10:11:15: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 10:11:15: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 10:11:15: #1 total tags in treatment: 12430225 INFO @ Tue, 14 Jul 2020 10:11:15: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:11:15: #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 10:11:16: #1 tags after filtering in treatment: 12430046 INFO @ Tue, 14 Jul 2020 10:11:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 10:11:16: #1 finished! INFO @ Tue, 14 Jul 2020 10:11:16: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:11:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:11:17: #2 number of paired peaks: 7119 INFO @ Tue, 14 Jul 2020 10:11:17: start model_add_line... INFO @ Tue, 14 Jul 2020 10:11:17: start X-correlation... INFO @ Tue, 14 Jul 2020 10:11:17: end of X-cor INFO @ Tue, 14 Jul 2020 10:11:17: #2 finished! INFO @ Tue, 14 Jul 2020 10:11:17: #2 predicted fragment length is 270 bps INFO @ Tue, 14 Jul 2020 10:11:17: #2 alternative fragment length(s) may be 270 bps INFO @ Tue, 14 Jul 2020 10:11:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.10_model.r INFO @ Tue, 14 Jul 2020 10:11:17: #3 Call peaks... INFO @ Tue, 14 Jul 2020 10:11:17: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 10:11:20: 7000000 INFO @ Tue, 14 Jul 2020 10:11:22: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 10:11:25: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 10:11:31: 9000000 INFO @ Tue, 14 Jul 2020 10:11:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.05_peaks.xls INFO @ Tue, 14 Jul 2020 10:11:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 10:11:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.05_summits.bed INFO @ Tue, 14 Jul 2020 10:11:36: Done! pass1 - making usageList (170 chroms): 2 millis pass2 - checking and writing primary data (7383 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 10:11:37: 10000000 INFO @ Tue, 14 Jul 2020 10:11:42: 11000000 INFO @ Tue, 14 Jul 2020 10:11:48: 12000000 INFO @ Tue, 14 Jul 2020 10:11:51: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 10:11:51: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 10:11:51: #1 total tags in treatment: 12430225 INFO @ Tue, 14 Jul 2020 10:11:51: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:11:51: #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 10:11:51: #1 tags after filtering in treatment: 12430046 INFO @ Tue, 14 Jul 2020 10:11:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 10:11:51: #1 finished! INFO @ Tue, 14 Jul 2020 10:11:51: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:11:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:11:52: #2 number of paired peaks: 7119 INFO @ Tue, 14 Jul 2020 10:11:52: start model_add_line... INFO @ Tue, 14 Jul 2020 10:11:52: start X-correlation... INFO @ Tue, 14 Jul 2020 10:11:52: end of X-cor INFO @ Tue, 14 Jul 2020 10:11:52: #2 finished! INFO @ Tue, 14 Jul 2020 10:11:52: #2 predicted fragment length is 270 bps INFO @ Tue, 14 Jul 2020 10:11:52: #2 alternative fragment length(s) may be 270 bps INFO @ Tue, 14 Jul 2020 10:11:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.20_model.r INFO @ Tue, 14 Jul 2020 10:11:52: #3 Call peaks... INFO @ Tue, 14 Jul 2020 10:11:52: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 10:11:54: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 10:12:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.10_peaks.xls INFO @ Tue, 14 Jul 2020 10:12:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 10:12:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.10_summits.bed INFO @ Tue, 14 Jul 2020 10:12:09: Done! pass1 - making usageList (125 chroms): 1 millis pass2 - checking and writing primary data (6289 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 10:12:28: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 10:12:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.20_peaks.xls INFO @ Tue, 14 Jul 2020 10:12:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 10:12:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7974997/SRX7974997.20_summits.bed INFO @ Tue, 14 Jul 2020 10:12:43: Done! pass1 - making usageList (65 chroms): 1 millis pass2 - checking and writing primary data (5053 records, 4 fields): 10 millis CompletedMACS2peakCalling