Job ID = 6456127 SRX = SRX318800 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:50:16 prefetch.2.10.7: 1) Downloading 'SRR927116'... 2020-06-21T10:50:16 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:55:13 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:55:13 prefetch.2.10.7: 1) 'SRR927116' was downloaded successfully Read 16875574 spots for SRR927116/SRR927116.sra Written 16875574 spots for SRR927116/SRR927116.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: 00:04:39 16875574 reads; of these: 16875574 (100.00%) were unpaired; of these: 750787 (4.45%) aligned 0 times 11777100 (69.79%) aligned exactly 1 time 4347687 (25.76%) aligned >1 times 95.55% overall alignment rate Time searching: 00:04:39 Overall time: 00:04:39 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] 4077038 / 16124787 = 0.2528 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 20:04:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.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 20:04:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:04:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:04:53: 1000000 INFO @ Sun, 21 Jun 2020 20:04:59: 2000000 INFO @ Sun, 21 Jun 2020 20:05:04: 3000000 INFO @ Sun, 21 Jun 2020 20:05:09: 4000000 INFO @ Sun, 21 Jun 2020 20:05:15: 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 20:05:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.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 20:05:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:05:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:05:20: 6000000 INFO @ Sun, 21 Jun 2020 20:05:24: 1000000 INFO @ Sun, 21 Jun 2020 20:05:26: 7000000 INFO @ Sun, 21 Jun 2020 20:05:30: 2000000 INFO @ Sun, 21 Jun 2020 20:05:32: 8000000 INFO @ Sun, 21 Jun 2020 20:05:36: 3000000 INFO @ Sun, 21 Jun 2020 20:05:38: 9000000 INFO @ Sun, 21 Jun 2020 20:05:42: 4000000 INFO @ Sun, 21 Jun 2020 20:05:44: 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 20:05:48: 5000000 INFO @ Sun, 21 Jun 2020 20:05:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.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 20:05:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:05:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:05:50: 11000000 INFO @ Sun, 21 Jun 2020 20:05:54: 6000000 INFO @ Sun, 21 Jun 2020 20:05:54: 1000000 INFO @ Sun, 21 Jun 2020 20:05:57: 12000000 INFO @ Sun, 21 Jun 2020 20:05:57: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:05:57: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:05:57: #1 total tags in treatment: 12047749 INFO @ Sun, 21 Jun 2020 20:05:57: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:05:57: #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 20:05:57: #1 tags after filtering in treatment: 12047747 INFO @ Sun, 21 Jun 2020 20:05:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:05:57: #1 finished! INFO @ Sun, 21 Jun 2020 20:05:57: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:05:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:05:59: #2 number of paired peaks: 4698 INFO @ Sun, 21 Jun 2020 20:05:59: start model_add_line... INFO @ Sun, 21 Jun 2020 20:05:59: start X-correlation... INFO @ Sun, 21 Jun 2020 20:05:59: end of X-cor INFO @ Sun, 21 Jun 2020 20:05:59: #2 finished! INFO @ Sun, 21 Jun 2020 20:05:59: #2 predicted fragment length is 222 bps INFO @ Sun, 21 Jun 2020 20:05:59: #2 alternative fragment length(s) may be 222 bps INFO @ Sun, 21 Jun 2020 20:05:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.05_model.r INFO @ Sun, 21 Jun 2020 20:05:59: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:05:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:06:00: 7000000 INFO @ Sun, 21 Jun 2020 20:06:00: 2000000 INFO @ Sun, 21 Jun 2020 20:06:06: 8000000 INFO @ Sun, 21 Jun 2020 20:06:06: 3000000 INFO @ Sun, 21 Jun 2020 20:06:12: 9000000 INFO @ Sun, 21 Jun 2020 20:06:12: 4000000 INFO @ Sun, 21 Jun 2020 20:06:18: 5000000 INFO @ Sun, 21 Jun 2020 20:06:18: 10000000 INFO @ Sun, 21 Jun 2020 20:06:24: 6000000 INFO @ Sun, 21 Jun 2020 20:06:24: 11000000 INFO @ Sun, 21 Jun 2020 20:06:30: 7000000 INFO @ Sun, 21 Jun 2020 20:06:31: 12000000 INFO @ Sun, 21 Jun 2020 20:06:31: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:06:31: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:06:31: #1 total tags in treatment: 12047749 INFO @ Sun, 21 Jun 2020 20:06:31: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:06:31: #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 20:06:31: #1 tags after filtering in treatment: 12047747 INFO @ Sun, 21 Jun 2020 20:06:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:06:31: #1 finished! INFO @ Sun, 21 Jun 2020 20:06:31: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:06:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:06:33: #2 number of paired peaks: 4698 INFO @ Sun, 21 Jun 2020 20:06:33: start model_add_line... INFO @ Sun, 21 Jun 2020 20:06:33: start X-correlation... INFO @ Sun, 21 Jun 2020 20:06:33: end of X-cor INFO @ Sun, 21 Jun 2020 20:06:33: #2 finished! INFO @ Sun, 21 Jun 2020 20:06:33: #2 predicted fragment length is 222 bps INFO @ Sun, 21 Jun 2020 20:06:33: #2 alternative fragment length(s) may be 222 bps INFO @ Sun, 21 Jun 2020 20:06:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.10_model.r INFO @ Sun, 21 Jun 2020 20:06:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:06:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:06:35: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:06:36: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:06:41: 9000000 INFO @ Sun, 21 Jun 2020 20:06:47: 10000000 INFO @ Sun, 21 Jun 2020 20:06:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:06:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:06:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.05_summits.bed INFO @ Sun, 21 Jun 2020 20:06:50: Done! pass1 - making usageList (542 chroms): 2 millis pass2 - checking and writing primary data (8239 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:06:52: 11000000 INFO @ Sun, 21 Jun 2020 20:06:58: 12000000 INFO @ Sun, 21 Jun 2020 20:06:58: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:06:58: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:06:58: #1 total tags in treatment: 12047749 INFO @ Sun, 21 Jun 2020 20:06:58: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:06:58: #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 20:06:59: #1 tags after filtering in treatment: 12047747 INFO @ Sun, 21 Jun 2020 20:06:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:06:59: #1 finished! INFO @ Sun, 21 Jun 2020 20:06:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:06:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:07:00: #2 number of paired peaks: 4698 INFO @ Sun, 21 Jun 2020 20:07:00: start model_add_line... INFO @ Sun, 21 Jun 2020 20:07:00: start X-correlation... INFO @ Sun, 21 Jun 2020 20:07:00: end of X-cor INFO @ Sun, 21 Jun 2020 20:07:00: #2 finished! INFO @ Sun, 21 Jun 2020 20:07:00: #2 predicted fragment length is 222 bps INFO @ Sun, 21 Jun 2020 20:07:00: #2 alternative fragment length(s) may be 222 bps INFO @ Sun, 21 Jun 2020 20:07:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.20_model.r INFO @ Sun, 21 Jun 2020 20:07:00: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:07:00: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:07:08: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:07:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:07:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:07:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.10_summits.bed INFO @ Sun, 21 Jun 2020 20:07:24: Done! pass1 - making usageList (449 chroms): 1 millis pass2 - checking and writing primary data (6447 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:07:36: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:07:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:07:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:07:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318800/SRX318800.20_summits.bed INFO @ Sun, 21 Jun 2020 20:07:51: Done! pass1 - making usageList (313 chroms): 1 millis pass2 - checking and writing primary data (4513 records, 4 fields): 15 millis CompletedMACS2peakCalling