Job ID = 6454881 SRX = SRX2592469 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:33:40 prefetch.2.10.7: 1) Downloading 'SRR5289746'... 2020-06-21T09:33:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:37:12 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:37:12 prefetch.2.10.7: 1) 'SRR5289746' was downloaded successfully Read 18364945 spots for SRR5289746/SRR5289746.sra Written 18364945 spots for SRR5289746/SRR5289746.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: 00:03:46 18364945 reads; of these: 18364945 (100.00%) were unpaired; of these: 4375341 (23.82%) aligned 0 times 11411620 (62.14%) aligned exactly 1 time 2577984 (14.04%) aligned >1 times 76.18% overall alignment rate Time searching: 00:03:46 Overall time: 00:03:46 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] 3662836 / 13989604 = 0.2618 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 18:45:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.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 18:45:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:45:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:45:45: 1000000 INFO @ Sun, 21 Jun 2020 18:45:50: 2000000 INFO @ Sun, 21 Jun 2020 18:45:56: 3000000 INFO @ Sun, 21 Jun 2020 18:46:02: 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 18:46:08: 5000000 INFO @ Sun, 21 Jun 2020 18:46:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.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 18:46:09: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:46:09: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:46:15: 6000000 INFO @ Sun, 21 Jun 2020 18:46:15: 1000000 INFO @ Sun, 21 Jun 2020 18:46:22: 7000000 INFO @ Sun, 21 Jun 2020 18:46:22: 2000000 INFO @ Sun, 21 Jun 2020 18:46:29: 8000000 INFO @ Sun, 21 Jun 2020 18:46:29: 3000000 INFO @ Sun, 21 Jun 2020 18:46:36: 4000000 INFO @ Sun, 21 Jun 2020 18:46:36: 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 18:46:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.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 18:46:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:46:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:46:43: 5000000 INFO @ Sun, 21 Jun 2020 18:46:43: 10000000 INFO @ Sun, 21 Jun 2020 18:46:45: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:46:45: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:46:45: #1 total tags in treatment: 10326768 INFO @ Sun, 21 Jun 2020 18:46:45: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:46:45: #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 18:46:45: 1000000 INFO @ Sun, 21 Jun 2020 18:46:46: #1 tags after filtering in treatment: 10326564 INFO @ Sun, 21 Jun 2020 18:46:46: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:46:46: #1 finished! INFO @ Sun, 21 Jun 2020 18:46:46: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:46:46: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:46:47: #2 number of paired peaks: 7471 INFO @ Sun, 21 Jun 2020 18:46:47: start model_add_line... INFO @ Sun, 21 Jun 2020 18:46:47: start X-correlation... INFO @ Sun, 21 Jun 2020 18:46:47: end of X-cor INFO @ Sun, 21 Jun 2020 18:46:47: #2 finished! INFO @ Sun, 21 Jun 2020 18:46:47: #2 predicted fragment length is 193 bps INFO @ Sun, 21 Jun 2020 18:46:47: #2 alternative fragment length(s) may be 193 bps INFO @ Sun, 21 Jun 2020 18:46:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.05_model.r INFO @ Sun, 21 Jun 2020 18:46:47: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:46:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:46:50: 6000000 INFO @ Sun, 21 Jun 2020 18:46:52: 2000000 INFO @ Sun, 21 Jun 2020 18:46:57: 7000000 INFO @ Sun, 21 Jun 2020 18:46:58: 3000000 INFO @ Sun, 21 Jun 2020 18:47:04: 8000000 INFO @ Sun, 21 Jun 2020 18:47:05: 4000000 INFO @ Sun, 21 Jun 2020 18:47:11: 9000000 INFO @ Sun, 21 Jun 2020 18:47:11: 5000000 INFO @ Sun, 21 Jun 2020 18:47:17: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:47:17: 10000000 INFO @ Sun, 21 Jun 2020 18:47:18: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:47:20: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:47:20: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:47:20: #1 total tags in treatment: 10326768 INFO @ Sun, 21 Jun 2020 18:47:20: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:47:20: #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 18:47:20: #1 tags after filtering in treatment: 10326564 INFO @ Sun, 21 Jun 2020 18:47:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:47:20: #1 finished! INFO @ Sun, 21 Jun 2020 18:47:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:47:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:47:21: #2 number of paired peaks: 7471 INFO @ Sun, 21 Jun 2020 18:47:21: start model_add_line... INFO @ Sun, 21 Jun 2020 18:47:22: start X-correlation... INFO @ Sun, 21 Jun 2020 18:47:22: end of X-cor INFO @ Sun, 21 Jun 2020 18:47:22: #2 finished! INFO @ Sun, 21 Jun 2020 18:47:22: #2 predicted fragment length is 193 bps INFO @ Sun, 21 Jun 2020 18:47:22: #2 alternative fragment length(s) may be 193 bps INFO @ Sun, 21 Jun 2020 18:47:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.10_model.r INFO @ Sun, 21 Jun 2020 18:47:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:47:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:47:24: 7000000 INFO @ Sun, 21 Jun 2020 18:47:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:47:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:47:30: 8000000 INFO @ Sun, 21 Jun 2020 18:47:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.05_summits.bed INFO @ Sun, 21 Jun 2020 18:47:31: Done! pass1 - making usageList (223 chroms): 2 millis pass2 - checking and writing primary data (10021 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:47:37: 9000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:47:43: 10000000 INFO @ Sun, 21 Jun 2020 18:47:45: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:47:45: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:47:45: #1 total tags in treatment: 10326768 INFO @ Sun, 21 Jun 2020 18:47:45: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:47:45: #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 18:47:46: #1 tags after filtering in treatment: 10326564 INFO @ Sun, 21 Jun 2020 18:47:46: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:47:46: #1 finished! INFO @ Sun, 21 Jun 2020 18:47:46: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:47:46: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:47:47: #2 number of paired peaks: 7471 INFO @ Sun, 21 Jun 2020 18:47:47: start model_add_line... INFO @ Sun, 21 Jun 2020 18:47:47: start X-correlation... INFO @ Sun, 21 Jun 2020 18:47:47: end of X-cor INFO @ Sun, 21 Jun 2020 18:47:47: #2 finished! INFO @ Sun, 21 Jun 2020 18:47:47: #2 predicted fragment length is 193 bps INFO @ Sun, 21 Jun 2020 18:47:47: #2 alternative fragment length(s) may be 193 bps INFO @ Sun, 21 Jun 2020 18:47:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.20_model.r INFO @ Sun, 21 Jun 2020 18:47:47: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:47:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:47:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:48:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:48:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:48:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.10_summits.bed INFO @ Sun, 21 Jun 2020 18:48:06: Done! pass1 - making usageList (145 chroms): 2 millis pass2 - checking and writing primary data (7317 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:48:17: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:48:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:48:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:48:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592469/SRX2592469.20_summits.bed INFO @ Sun, 21 Jun 2020 18:48:32: Done! pass1 - making usageList (100 chroms): 2 millis pass2 - checking and writing primary data (4959 records, 4 fields): 8 millis CompletedMACS2peakCalling