Job ID = 6458023 SRX = SRX4941147 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:14:49 prefetch.2.10.7: 1) Downloading 'SRR8114850'... 2020-06-21T12:14:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:18:52 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:18:52 prefetch.2.10.7: 1) 'SRR8114850' was downloaded successfully 2020-06-21T12:18:52 prefetch.2.10.7: 'SRR8114850' has 0 unresolved dependencies Read 26932506 spots for SRR8114850/SRR8114850.sra Written 26932506 spots for SRR8114850/SRR8114850.sra 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: 00:09:52 26932506 reads; of these: 26932506 (100.00%) were unpaired; of these: 2227361 (8.27%) aligned 0 times 18265763 (67.82%) aligned exactly 1 time 6439382 (23.91%) aligned >1 times 91.73% overall alignment rate Time searching: 00:09:52 Overall time: 00:09:52 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 12 files... [bam_rmdupse_core] 9252480 / 24705145 = 0.3745 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 @ Sun, 21 Jun 2020 21:37:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.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 @ Sun, 21 Jun 2020 21:37:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:37:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:37:53: 1000000 INFO @ Sun, 21 Jun 2020 21:37:58: 2000000 INFO @ Sun, 21 Jun 2020 21:38:04: 3000000 INFO @ Sun, 21 Jun 2020 21:38:10: 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 @ Sun, 21 Jun 2020 21:38:15: 5000000 INFO @ Sun, 21 Jun 2020 21:38:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.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 @ Sun, 21 Jun 2020 21:38:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:38:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:38:21: 6000000 INFO @ Sun, 21 Jun 2020 21:38:23: 1000000 INFO @ Sun, 21 Jun 2020 21:38:27: 7000000 INFO @ Sun, 21 Jun 2020 21:38:28: 2000000 INFO @ Sun, 21 Jun 2020 21:38:33: 8000000 INFO @ Sun, 21 Jun 2020 21:38:34: 3000000 INFO @ Sun, 21 Jun 2020 21:38:39: 9000000 INFO @ Sun, 21 Jun 2020 21:38:40: 4000000 INFO @ Sun, 21 Jun 2020 21:38:45: 10000000 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 @ Sun, 21 Jun 2020 21:38:46: 5000000 INFO @ Sun, 21 Jun 2020 21:38:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.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 @ Sun, 21 Jun 2020 21:38:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:38:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:38:50: 11000000 INFO @ Sun, 21 Jun 2020 21:38:52: 6000000 INFO @ Sun, 21 Jun 2020 21:38:53: 1000000 INFO @ Sun, 21 Jun 2020 21:38:56: 12000000 INFO @ Sun, 21 Jun 2020 21:38:58: 7000000 INFO @ Sun, 21 Jun 2020 21:38:59: 2000000 INFO @ Sun, 21 Jun 2020 21:39:03: 13000000 INFO @ Sun, 21 Jun 2020 21:39:04: 8000000 INFO @ Sun, 21 Jun 2020 21:39:05: 3000000 INFO @ Sun, 21 Jun 2020 21:39:09: 14000000 INFO @ Sun, 21 Jun 2020 21:39:10: 9000000 INFO @ Sun, 21 Jun 2020 21:39:11: 4000000 INFO @ Sun, 21 Jun 2020 21:39:15: 15000000 INFO @ Sun, 21 Jun 2020 21:39:15: 10000000 INFO @ Sun, 21 Jun 2020 21:39:17: 5000000 INFO @ Sun, 21 Jun 2020 21:39:18: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 21:39:18: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 21:39:18: #1 total tags in treatment: 15452665 INFO @ Sun, 21 Jun 2020 21:39:18: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:39:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:39:18: #1 tags after filtering in treatment: 15452499 INFO @ Sun, 21 Jun 2020 21:39:18: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:39:18: #1 finished! INFO @ Sun, 21 Jun 2020 21:39:18: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:39:18: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:39:20: #2 number of paired peaks: 5787 INFO @ Sun, 21 Jun 2020 21:39:20: start model_add_line... INFO @ Sun, 21 Jun 2020 21:39:20: start X-correlation... INFO @ Sun, 21 Jun 2020 21:39:20: end of X-cor INFO @ Sun, 21 Jun 2020 21:39:20: #2 finished! INFO @ Sun, 21 Jun 2020 21:39:20: #2 predicted fragment length is 211 bps INFO @ Sun, 21 Jun 2020 21:39:20: #2 alternative fragment length(s) may be 211 bps INFO @ Sun, 21 Jun 2020 21:39:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.05_model.r INFO @ Sun, 21 Jun 2020 21:39:20: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:39:20: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:39:21: 11000000 INFO @ Sun, 21 Jun 2020 21:39:23: 6000000 INFO @ Sun, 21 Jun 2020 21:39:27: 12000000 INFO @ Sun, 21 Jun 2020 21:39:29: 7000000 INFO @ Sun, 21 Jun 2020 21:39:34: 13000000 INFO @ Sun, 21 Jun 2020 21:39:35: 8000000 INFO @ Sun, 21 Jun 2020 21:39:40: 14000000 INFO @ Sun, 21 Jun 2020 21:39:41: 9000000 INFO @ Sun, 21 Jun 2020 21:39:46: 15000000 INFO @ Sun, 21 Jun 2020 21:39:47: 10000000 INFO @ Sun, 21 Jun 2020 21:39:49: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 21:39:49: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 21:39:49: #1 total tags in treatment: 15452665 INFO @ Sun, 21 Jun 2020 21:39:49: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:39:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:39:49: #1 tags after filtering in treatment: 15452499 INFO @ Sun, 21 Jun 2020 21:39:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:39:49: #1 finished! INFO @ Sun, 21 Jun 2020 21:39:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:39:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:39:51: #2 number of paired peaks: 5787 INFO @ Sun, 21 Jun 2020 21:39:51: start model_add_line... INFO @ Sun, 21 Jun 2020 21:39:51: start X-correlation... INFO @ Sun, 21 Jun 2020 21:39:51: end of X-cor INFO @ Sun, 21 Jun 2020 21:39:51: #2 finished! INFO @ Sun, 21 Jun 2020 21:39:51: #2 predicted fragment length is 211 bps INFO @ Sun, 21 Jun 2020 21:39:51: #2 alternative fragment length(s) may be 211 bps INFO @ Sun, 21 Jun 2020 21:39:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.10_model.r INFO @ Sun, 21 Jun 2020 21:39:51: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:39:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:39:53: 11000000 INFO @ Sun, 21 Jun 2020 21:39:58: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:40:05: 13000000 INFO @ Sun, 21 Jun 2020 21:40:10: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:40:10: 14000000 INFO @ Sun, 21 Jun 2020 21:40:16: 15000000 INFO @ Sun, 21 Jun 2020 21:40:19: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 21:40:19: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 21:40:19: #1 total tags in treatment: 15452665 INFO @ Sun, 21 Jun 2020 21:40:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:40:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:40:19: #1 tags after filtering in treatment: 15452499 INFO @ Sun, 21 Jun 2020 21:40:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:40:19: #1 finished! INFO @ Sun, 21 Jun 2020 21:40:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:40:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:40:21: #2 number of paired peaks: 5787 INFO @ Sun, 21 Jun 2020 21:40:21: start model_add_line... INFO @ Sun, 21 Jun 2020 21:40:21: start X-correlation... INFO @ Sun, 21 Jun 2020 21:40:21: end of X-cor INFO @ Sun, 21 Jun 2020 21:40:21: #2 finished! INFO @ Sun, 21 Jun 2020 21:40:21: #2 predicted fragment length is 211 bps INFO @ Sun, 21 Jun 2020 21:40:21: #2 alternative fragment length(s) may be 211 bps INFO @ Sun, 21 Jun 2020 21:40:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.20_model.r INFO @ Sun, 21 Jun 2020 21:40:21: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:40:21: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:40:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:40:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:40:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.05_summits.bed INFO @ Sun, 21 Jun 2020 21:40:31: Done! pass1 - making usageList (533 chroms): 3 millis pass2 - checking and writing primary data (11158 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:40:43: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:41:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:41:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:41:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.10_summits.bed INFO @ Sun, 21 Jun 2020 21:41:04: Done! pass1 - making usageList (471 chroms): 3 millis pass2 - checking and writing primary data (9055 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:41:10: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:41:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:41:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:41:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4941147/SRX4941147.20_summits.bed INFO @ Sun, 21 Jun 2020 21:41:29: Done! pass1 - making usageList (413 chroms): 2 millis pass2 - checking and writing primary data (6683 records, 4 fields): 59 millis CompletedMACS2peakCalling