Job ID = 6454875 SRX = SRX2592467 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:41:10 prefetch.2.10.7: 1) Downloading 'SRR5289744'... 2020-06-21T09:41:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:45:01 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:45:01 prefetch.2.10.7: 1) 'SRR5289744' was downloaded successfully Read 21703675 spots for SRR5289744/SRR5289744.sra Written 21703675 spots for SRR5289744/SRR5289744.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: 00:03:52 21703675 reads; of these: 21703675 (100.00%) were unpaired; of these: 5508066 (25.38%) aligned 0 times 13499029 (62.20%) aligned exactly 1 time 2696580 (12.42%) aligned >1 times 74.62% overall alignment rate Time searching: 00:03:52 Overall time: 00:03:52 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 8 files... [bam_rmdupse_core] 4736165 / 16195609 = 0.2924 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 18:54:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.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 18:54:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:54:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:54:06: 1000000 INFO @ Sun, 21 Jun 2020 18:54:12: 2000000 INFO @ Sun, 21 Jun 2020 18:54:18: 3000000 INFO @ Sun, 21 Jun 2020 18:54:25: 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 18:54:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.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 18:54:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:54:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:54:31: 5000000 INFO @ Sun, 21 Jun 2020 18:54:36: 1000000 INFO @ Sun, 21 Jun 2020 18:54:38: 6000000 INFO @ Sun, 21 Jun 2020 18:54:42: 2000000 INFO @ Sun, 21 Jun 2020 18:54:44: 7000000 INFO @ Sun, 21 Jun 2020 18:54:48: 3000000 INFO @ Sun, 21 Jun 2020 18:54:51: 8000000 INFO @ Sun, 21 Jun 2020 18:54:54: 4000000 INFO @ Sun, 21 Jun 2020 18:54:57: 9000000 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 18:55:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.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 18:55:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:55:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:55:00: 5000000 INFO @ Sun, 21 Jun 2020 18:55:04: 10000000 INFO @ Sun, 21 Jun 2020 18:55:06: 1000000 INFO @ Sun, 21 Jun 2020 18:55:06: 6000000 INFO @ Sun, 21 Jun 2020 18:55:11: 11000000 INFO @ Sun, 21 Jun 2020 18:55:12: 2000000 INFO @ Sun, 21 Jun 2020 18:55:12: 7000000 INFO @ Sun, 21 Jun 2020 18:55:14: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:55:14: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:55:14: #1 total tags in treatment: 11459444 INFO @ Sun, 21 Jun 2020 18:55:14: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:55:14: #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 18:55:14: #1 tags after filtering in treatment: 11459231 INFO @ Sun, 21 Jun 2020 18:55:14: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:55:14: #1 finished! INFO @ Sun, 21 Jun 2020 18:55:14: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:55:14: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:55:16: #2 number of paired peaks: 8401 INFO @ Sun, 21 Jun 2020 18:55:16: start model_add_line... INFO @ Sun, 21 Jun 2020 18:55:16: start X-correlation... INFO @ Sun, 21 Jun 2020 18:55:16: end of X-cor INFO @ Sun, 21 Jun 2020 18:55:16: #2 finished! INFO @ Sun, 21 Jun 2020 18:55:16: #2 predicted fragment length is 195 bps INFO @ Sun, 21 Jun 2020 18:55:16: #2 alternative fragment length(s) may be 195 bps INFO @ Sun, 21 Jun 2020 18:55:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.05_model.r INFO @ Sun, 21 Jun 2020 18:55:16: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:55:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:55:18: 3000000 INFO @ Sun, 21 Jun 2020 18:55:18: 8000000 INFO @ Sun, 21 Jun 2020 18:55:24: 9000000 INFO @ Sun, 21 Jun 2020 18:55:24: 4000000 INFO @ Sun, 21 Jun 2020 18:55:30: 5000000 INFO @ Sun, 21 Jun 2020 18:55:30: 10000000 INFO @ Sun, 21 Jun 2020 18:55:36: 11000000 INFO @ Sun, 21 Jun 2020 18:55:36: 6000000 INFO @ Sun, 21 Jun 2020 18:55:39: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:55:39: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:55:39: #1 total tags in treatment: 11459444 INFO @ Sun, 21 Jun 2020 18:55:39: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:55:39: #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 18:55:39: #1 tags after filtering in treatment: 11459231 INFO @ Sun, 21 Jun 2020 18:55:39: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:55:39: #1 finished! INFO @ Sun, 21 Jun 2020 18:55:39: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:55:39: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:55:41: #2 number of paired peaks: 8401 INFO @ Sun, 21 Jun 2020 18:55:41: start model_add_line... INFO @ Sun, 21 Jun 2020 18:55:41: start X-correlation... INFO @ Sun, 21 Jun 2020 18:55:41: end of X-cor INFO @ Sun, 21 Jun 2020 18:55:41: #2 finished! INFO @ Sun, 21 Jun 2020 18:55:41: #2 predicted fragment length is 195 bps INFO @ Sun, 21 Jun 2020 18:55:41: #2 alternative fragment length(s) may be 195 bps INFO @ Sun, 21 Jun 2020 18:55:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.10_model.r INFO @ Sun, 21 Jun 2020 18:55:41: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:55:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:55:42: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:55:48: 8000000 INFO @ Sun, 21 Jun 2020 18:55:50: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:55:53: 9000000 INFO @ Sun, 21 Jun 2020 18:55:59: 10000000 INFO @ Sun, 21 Jun 2020 18:56:04: 11000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:56:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:56:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:56:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.05_summits.bed INFO @ Sun, 21 Jun 2020 18:56:05: Done! pass1 - making usageList (153 chroms): 2 millis pass2 - checking and writing primary data (10737 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:56:07: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:56:07: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:56:07: #1 total tags in treatment: 11459444 INFO @ Sun, 21 Jun 2020 18:56:07: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:56:07: #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 18:56:07: #1 tags after filtering in treatment: 11459231 INFO @ Sun, 21 Jun 2020 18:56:07: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:56:07: #1 finished! INFO @ Sun, 21 Jun 2020 18:56:07: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:56:07: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:56:08: #2 number of paired peaks: 8401 INFO @ Sun, 21 Jun 2020 18:56:08: start model_add_line... INFO @ Sun, 21 Jun 2020 18:56:09: start X-correlation... INFO @ Sun, 21 Jun 2020 18:56:09: end of X-cor INFO @ Sun, 21 Jun 2020 18:56:09: #2 finished! INFO @ Sun, 21 Jun 2020 18:56:09: #2 predicted fragment length is 195 bps INFO @ Sun, 21 Jun 2020 18:56:09: #2 alternative fragment length(s) may be 195 bps INFO @ Sun, 21 Jun 2020 18:56:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.20_model.r INFO @ Sun, 21 Jun 2020 18:56:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:56:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:56:16: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:56:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:56:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:56:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.10_summits.bed INFO @ Sun, 21 Jun 2020 18:56:31: Done! pass1 - making usageList (124 chroms): 2 millis pass2 - checking and writing primary data (8147 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:56:45: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:57:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:57:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:57:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592467/SRX2592467.20_summits.bed INFO @ Sun, 21 Jun 2020 18:57:00: Done! pass1 - making usageList (99 chroms): 2 millis pass2 - checking and writing primary data (5759 records, 4 fields): 10 millis CompletedMACS2peakCalling