Job ID = 6456143 SRX = SRX326966 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:52:01 prefetch.2.10.7: 1) Downloading 'SRR942039'... 2020-06-21T10:52:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:56:52 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:56:52 prefetch.2.10.7: 1) 'SRR942039' was downloaded successfully Read 18250410 spots for SRR942039/SRR942039.sra Written 18250410 spots for SRR942039/SRR942039.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: 00:04:00 18250410 reads; of these: 18250410 (100.00%) were unpaired; of these: 1103708 (6.05%) aligned 0 times 12890101 (70.63%) aligned exactly 1 time 4256601 (23.32%) aligned >1 times 93.95% overall alignment rate Time searching: 00:04:00 Overall time: 00:04:00 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] 3957537 / 17146702 = 0.2308 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 20:05:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.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 20:05:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:05:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:05:57: 1000000 INFO @ Sun, 21 Jun 2020 20:06:03: 2000000 INFO @ Sun, 21 Jun 2020 20:06:10: 3000000 INFO @ Sun, 21 Jun 2020 20:06:16: 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 20:06:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.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 20:06:20: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:06:20: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:06:23: 5000000 INFO @ Sun, 21 Jun 2020 20:06:27: 1000000 INFO @ Sun, 21 Jun 2020 20:06:31: 6000000 INFO @ Sun, 21 Jun 2020 20:06:34: 2000000 INFO @ Sun, 21 Jun 2020 20:06:38: 7000000 INFO @ Sun, 21 Jun 2020 20:06:41: 3000000 INFO @ Sun, 21 Jun 2020 20:06:45: 8000000 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 20:06:48: 4000000 INFO @ Sun, 21 Jun 2020 20:06:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.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 20:06:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:06:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:06:52: 9000000 INFO @ Sun, 21 Jun 2020 20:06:56: 5000000 INFO @ Sun, 21 Jun 2020 20:06:58: 1000000 INFO @ Sun, 21 Jun 2020 20:06:59: 10000000 INFO @ Sun, 21 Jun 2020 20:07:03: 6000000 INFO @ Sun, 21 Jun 2020 20:07:05: 2000000 INFO @ Sun, 21 Jun 2020 20:07:07: 11000000 INFO @ Sun, 21 Jun 2020 20:07:10: 7000000 INFO @ Sun, 21 Jun 2020 20:07:12: 3000000 INFO @ Sun, 21 Jun 2020 20:07:14: 12000000 INFO @ Sun, 21 Jun 2020 20:07:17: 8000000 INFO @ Sun, 21 Jun 2020 20:07:20: 4000000 INFO @ Sun, 21 Jun 2020 20:07:21: 13000000 INFO @ Sun, 21 Jun 2020 20:07:23: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 20:07:23: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 20:07:23: #1 total tags in treatment: 13189165 INFO @ Sun, 21 Jun 2020 20:07:23: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:07:23: #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 20:07:23: #1 tags after filtering in treatment: 13188987 INFO @ Sun, 21 Jun 2020 20:07:23: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:07:23: #1 finished! INFO @ Sun, 21 Jun 2020 20:07:23: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:07:23: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:07:24: 9000000 INFO @ Sun, 21 Jun 2020 20:07:25: #2 number of paired peaks: 8008 INFO @ Sun, 21 Jun 2020 20:07:25: start model_add_line... INFO @ Sun, 21 Jun 2020 20:07:25: start X-correlation... INFO @ Sun, 21 Jun 2020 20:07:25: end of X-cor INFO @ Sun, 21 Jun 2020 20:07:25: #2 finished! INFO @ Sun, 21 Jun 2020 20:07:25: #2 predicted fragment length is 192 bps INFO @ Sun, 21 Jun 2020 20:07:25: #2 alternative fragment length(s) may be 192 bps INFO @ Sun, 21 Jun 2020 20:07:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.05_model.r INFO @ Sun, 21 Jun 2020 20:07:25: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:07:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:07:27: 5000000 INFO @ Sun, 21 Jun 2020 20:07:31: 10000000 INFO @ Sun, 21 Jun 2020 20:07:34: 6000000 INFO @ Sun, 21 Jun 2020 20:07:39: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:07:41: 7000000 INFO @ Sun, 21 Jun 2020 20:07:46: 12000000 INFO @ Sun, 21 Jun 2020 20:07:49: 8000000 INFO @ Sun, 21 Jun 2020 20:07:53: 13000000 INFO @ Sun, 21 Jun 2020 20:07:55: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 20:07:55: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 20:07:55: #1 total tags in treatment: 13189165 INFO @ Sun, 21 Jun 2020 20:07:55: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:07:55: #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 20:07:55: #1 tags after filtering in treatment: 13188987 INFO @ Sun, 21 Jun 2020 20:07:55: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:07:55: #1 finished! INFO @ Sun, 21 Jun 2020 20:07:55: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:07:55: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:07:56: 9000000 INFO @ Sun, 21 Jun 2020 20:07:57: #2 number of paired peaks: 8008 INFO @ Sun, 21 Jun 2020 20:07:57: start model_add_line... INFO @ Sun, 21 Jun 2020 20:07:57: start X-correlation... INFO @ Sun, 21 Jun 2020 20:07:57: end of X-cor INFO @ Sun, 21 Jun 2020 20:07:57: #2 finished! INFO @ Sun, 21 Jun 2020 20:07:57: #2 predicted fragment length is 192 bps INFO @ Sun, 21 Jun 2020 20:07:57: #2 alternative fragment length(s) may be 192 bps INFO @ Sun, 21 Jun 2020 20:07:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.10_model.r INFO @ Sun, 21 Jun 2020 20:07:57: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:07:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:08:02: 10000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:08:03: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:08:09: 11000000 INFO @ Sun, 21 Jun 2020 20:08:16: 12000000 INFO @ Sun, 21 Jun 2020 20:08:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:08:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:08:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.05_summits.bed INFO @ Sun, 21 Jun 2020 20:08:20: Done! pass1 - making usageList (190 chroms): 3 millis pass2 - checking and writing primary data (12859 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:08:23: 13000000 INFO @ Sun, 21 Jun 2020 20:08:24: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 20:08:24: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 20:08:24: #1 total tags in treatment: 13189165 INFO @ Sun, 21 Jun 2020 20:08:24: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:08:24: #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 20:08:24: #1 tags after filtering in treatment: 13188987 INFO @ Sun, 21 Jun 2020 20:08:24: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:08:24: #1 finished! INFO @ Sun, 21 Jun 2020 20:08:24: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:08:24: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:08:26: #2 number of paired peaks: 8008 INFO @ Sun, 21 Jun 2020 20:08:26: start model_add_line... INFO @ Sun, 21 Jun 2020 20:08:26: start X-correlation... INFO @ Sun, 21 Jun 2020 20:08:26: end of X-cor INFO @ Sun, 21 Jun 2020 20:08:26: #2 finished! INFO @ Sun, 21 Jun 2020 20:08:26: #2 predicted fragment length is 192 bps INFO @ Sun, 21 Jun 2020 20:08:26: #2 alternative fragment length(s) may be 192 bps INFO @ Sun, 21 Jun 2020 20:08:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.20_model.r INFO @ Sun, 21 Jun 2020 20:08:26: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:08:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:08:36: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:08:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:08:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:08:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.10_summits.bed INFO @ Sun, 21 Jun 2020 20:08:52: Done! pass1 - making usageList (168 chroms): 2 millis pass2 - checking and writing primary data (9968 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:09:04: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:09:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:09:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:09:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326966/SRX326966.20_summits.bed INFO @ Sun, 21 Jun 2020 20:09:20: Done! pass1 - making usageList (139 chroms): 2 millis pass2 - checking and writing primary data (6033 records, 4 fields): 10 millis CompletedMACS2peakCalling