Job ID = 6456145 SRX = SRX326967 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:53:01 prefetch.2.10.7: 1) Downloading 'SRR942040'... 2020-06-21T10:53:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:58:12 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:58:12 prefetch.2.10.7: 1) 'SRR942040' was downloaded successfully Read 26029411 spots for SRR942040/SRR942040.sra Written 26029411 spots for SRR942040/SRR942040.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: 00:06:36 26029411 reads; of these: 26029411 (100.00%) were unpaired; of these: 1905020 (7.32%) aligned 0 times 17386806 (66.80%) aligned exactly 1 time 6737585 (25.88%) aligned >1 times 92.68% overall alignment rate Time searching: 00:06:36 Overall time: 00:06:36 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] 6792660 / 24124391 = 0.2816 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 20:11:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.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 20:11:13: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:11:13: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:11:18: 1000000 INFO @ Sun, 21 Jun 2020 20:11:23: 2000000 INFO @ Sun, 21 Jun 2020 20:11:28: 3000000 INFO @ Sun, 21 Jun 2020 20:11:34: 4000000 INFO @ Sun, 21 Jun 2020 20:11:39: 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 @ Sun, 21 Jun 2020 20:11:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.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 20:11:43: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:11:43: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:11:44: 6000000 INFO @ Sun, 21 Jun 2020 20:11:48: 1000000 INFO @ Sun, 21 Jun 2020 20:11:50: 7000000 INFO @ Sun, 21 Jun 2020 20:11:54: 2000000 INFO @ Sun, 21 Jun 2020 20:11:56: 8000000 INFO @ Sun, 21 Jun 2020 20:12:00: 3000000 INFO @ Sun, 21 Jun 2020 20:12:01: 9000000 INFO @ Sun, 21 Jun 2020 20:12:06: 4000000 INFO @ Sun, 21 Jun 2020 20:12:07: 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 20:12:12: 5000000 INFO @ Sun, 21 Jun 2020 20:12:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.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 20:12:13: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:12:13: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:12:13: 11000000 INFO @ Sun, 21 Jun 2020 20:12:18: 6000000 INFO @ Sun, 21 Jun 2020 20:12:19: 1000000 INFO @ Sun, 21 Jun 2020 20:12:19: 12000000 INFO @ Sun, 21 Jun 2020 20:12:24: 7000000 INFO @ Sun, 21 Jun 2020 20:12:25: 13000000 INFO @ Sun, 21 Jun 2020 20:12:25: 2000000 INFO @ Sun, 21 Jun 2020 20:12:30: 8000000 INFO @ Sun, 21 Jun 2020 20:12:31: 14000000 INFO @ Sun, 21 Jun 2020 20:12:31: 3000000 INFO @ Sun, 21 Jun 2020 20:12:35: 9000000 INFO @ Sun, 21 Jun 2020 20:12:37: 15000000 INFO @ Sun, 21 Jun 2020 20:12:37: 4000000 INFO @ Sun, 21 Jun 2020 20:12:41: 10000000 INFO @ Sun, 21 Jun 2020 20:12:43: 16000000 INFO @ Sun, 21 Jun 2020 20:12:44: 5000000 INFO @ Sun, 21 Jun 2020 20:12:47: 11000000 INFO @ Sun, 21 Jun 2020 20:12:49: 17000000 INFO @ Sun, 21 Jun 2020 20:12:50: 6000000 INFO @ Sun, 21 Jun 2020 20:12:51: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 20:12:51: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 20:12:51: #1 total tags in treatment: 17331731 INFO @ Sun, 21 Jun 2020 20:12:51: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:12:51: #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 20:12:52: #1 tags after filtering in treatment: 17331648 INFO @ Sun, 21 Jun 2020 20:12:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:12:52: #1 finished! INFO @ Sun, 21 Jun 2020 20:12:52: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:12:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:12:53: #2 number of paired peaks: 4805 INFO @ Sun, 21 Jun 2020 20:12:53: start model_add_line... INFO @ Sun, 21 Jun 2020 20:12:53: 12000000 INFO @ Sun, 21 Jun 2020 20:12:53: start X-correlation... INFO @ Sun, 21 Jun 2020 20:12:53: end of X-cor INFO @ Sun, 21 Jun 2020 20:12:53: #2 finished! INFO @ Sun, 21 Jun 2020 20:12:53: #2 predicted fragment length is 203 bps INFO @ Sun, 21 Jun 2020 20:12:53: #2 alternative fragment length(s) may be 203 bps INFO @ Sun, 21 Jun 2020 20:12:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.05_model.r INFO @ Sun, 21 Jun 2020 20:12:53: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:12:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:12:55: 7000000 INFO @ Sun, 21 Jun 2020 20:12:59: 13000000 INFO @ Sun, 21 Jun 2020 20:13:01: 8000000 INFO @ Sun, 21 Jun 2020 20:13:05: 14000000 INFO @ Sun, 21 Jun 2020 20:13:07: 9000000 INFO @ Sun, 21 Jun 2020 20:13:11: 15000000 INFO @ Sun, 21 Jun 2020 20:13:13: 10000000 INFO @ Sun, 21 Jun 2020 20:13:17: 16000000 INFO @ Sun, 21 Jun 2020 20:13:19: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:13:23: 17000000 INFO @ Sun, 21 Jun 2020 20:13:25: 12000000 INFO @ Sun, 21 Jun 2020 20:13:25: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 20:13:25: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 20:13:25: #1 total tags in treatment: 17331731 INFO @ Sun, 21 Jun 2020 20:13:25: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:13:25: #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 20:13:25: #1 tags after filtering in treatment: 17331648 INFO @ Sun, 21 Jun 2020 20:13:25: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:13:25: #1 finished! INFO @ Sun, 21 Jun 2020 20:13:25: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:13:25: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:13:27: #2 number of paired peaks: 4805 INFO @ Sun, 21 Jun 2020 20:13:27: start model_add_line... INFO @ Sun, 21 Jun 2020 20:13:27: start X-correlation... INFO @ Sun, 21 Jun 2020 20:13:27: end of X-cor INFO @ Sun, 21 Jun 2020 20:13:27: #2 finished! INFO @ Sun, 21 Jun 2020 20:13:27: #2 predicted fragment length is 203 bps INFO @ Sun, 21 Jun 2020 20:13:27: #2 alternative fragment length(s) may be 203 bps INFO @ Sun, 21 Jun 2020 20:13:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.10_model.r INFO @ Sun, 21 Jun 2020 20:13:27: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:13:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:13:30: 13000000 INFO @ Sun, 21 Jun 2020 20:13:36: 14000000 INFO @ Sun, 21 Jun 2020 20:13:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:13:41: 15000000 INFO @ Sun, 21 Jun 2020 20:13:47: 16000000 INFO @ Sun, 21 Jun 2020 20:13:52: 17000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:13:54: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 20:13:54: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 20:13:54: #1 total tags in treatment: 17331731 INFO @ Sun, 21 Jun 2020 20:13:54: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:13:54: #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 20:13:55: #1 tags after filtering in treatment: 17331648 INFO @ Sun, 21 Jun 2020 20:13:55: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:13:55: #1 finished! INFO @ Sun, 21 Jun 2020 20:13:55: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:13:55: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:13:56: #2 number of paired peaks: 4805 INFO @ Sun, 21 Jun 2020 20:13:56: start model_add_line... INFO @ Sun, 21 Jun 2020 20:13:56: start X-correlation... INFO @ Sun, 21 Jun 2020 20:13:56: end of X-cor INFO @ Sun, 21 Jun 2020 20:13:56: #2 finished! INFO @ Sun, 21 Jun 2020 20:13:56: #2 predicted fragment length is 203 bps INFO @ Sun, 21 Jun 2020 20:13:56: #2 alternative fragment length(s) may be 203 bps INFO @ Sun, 21 Jun 2020 20:13:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.20_model.r INFO @ Sun, 21 Jun 2020 20:13:56: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:13:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:13:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:13:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:13:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.05_summits.bed INFO @ Sun, 21 Jun 2020 20:13:59: Done! pass1 - making usageList (605 chroms): 2 millis pass2 - checking and writing primary data (9824 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:14:13: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:14:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:14:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:14:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.10_summits.bed INFO @ Sun, 21 Jun 2020 20:14:33: Done! pass1 - making usageList (573 chroms): 2 millis pass2 - checking and writing primary data (7737 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:14:41: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:15:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:15:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:15:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326967/SRX326967.20_summits.bed INFO @ Sun, 21 Jun 2020 20:15:00: Done! pass1 - making usageList (496 chroms): 2 millis pass2 - checking and writing primary data (5920 records, 4 fields): 19 millis CompletedMACS2peakCalling