Job ID = 6452700 SRX = SRX026741 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:39:06 prefetch.2.10.7: 1) Downloading 'SRR065627'... 2020-06-21T07:39:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:41:15 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:41:16 prefetch.2.10.7: 'SRR065627' is valid 2020-06-21T07:41:16 prefetch.2.10.7: 1) 'SRR065627' was downloaded successfully Read 15350276 spots for SRR065627/SRR065627.sra Written 15350276 spots for SRR065627/SRR065627.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:56 15350276 reads; of these: 15350276 (100.00%) were unpaired; of these: 5959075 (38.82%) aligned 0 times 8261350 (53.82%) aligned exactly 1 time 1129851 (7.36%) aligned >1 times 61.18% overall alignment rate Time searching: 00:01:57 Overall time: 00:01:57 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_rmdupse_core] 2129107 / 9391201 = 0.2267 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 16:46:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.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 16:46:07: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:46:07: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:46:13: 1000000 INFO @ Sun, 21 Jun 2020 16:46:19: 2000000 INFO @ Sun, 21 Jun 2020 16:46:24: 3000000 INFO @ Sun, 21 Jun 2020 16:46:29: 4000000 INFO @ Sun, 21 Jun 2020 16:46:35: 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 16:46:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.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 16:46:37: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:46:37: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:46:41: 6000000 INFO @ Sun, 21 Jun 2020 16:46:44: 1000000 INFO @ Sun, 21 Jun 2020 16:46:47: 7000000 INFO @ Sun, 21 Jun 2020 16:46:49: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:46:49: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:46:49: #1 total tags in treatment: 7262094 INFO @ Sun, 21 Jun 2020 16:46:49: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:46:49: #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 16:46:49: #1 tags after filtering in treatment: 7261913 INFO @ Sun, 21 Jun 2020 16:46:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:46:49: #1 finished! INFO @ Sun, 21 Jun 2020 16:46:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:46:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:46:50: 2000000 INFO @ Sun, 21 Jun 2020 16:46:50: #2 number of paired peaks: 6800 INFO @ Sun, 21 Jun 2020 16:46:50: start model_add_line... INFO @ Sun, 21 Jun 2020 16:46:50: start X-correlation... INFO @ Sun, 21 Jun 2020 16:46:50: end of X-cor INFO @ Sun, 21 Jun 2020 16:46:50: #2 finished! INFO @ Sun, 21 Jun 2020 16:46:50: #2 predicted fragment length is 307 bps INFO @ Sun, 21 Jun 2020 16:46:50: #2 alternative fragment length(s) may be 307 bps INFO @ Sun, 21 Jun 2020 16:46:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.05_model.r INFO @ Sun, 21 Jun 2020 16:46:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:46:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:46:55: 3000000 INFO @ Sun, 21 Jun 2020 16:47:01: 4000000 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 16:47:07: 5000000 INFO @ Sun, 21 Jun 2020 16:47:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.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 16:47:07: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:47:07: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:47:11: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:47:13: 6000000 INFO @ Sun, 21 Jun 2020 16:47:14: 1000000 INFO @ Sun, 21 Jun 2020 16:47:19: 7000000 INFO @ Sun, 21 Jun 2020 16:47:20: 2000000 INFO @ Sun, 21 Jun 2020 16:47:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.05_peaks.xls INFO @ Sun, 21 Jun 2020 16:47:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:47:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.05_summits.bed INFO @ Sun, 21 Jun 2020 16:47:21: Done! INFO @ Sun, 21 Jun 2020 16:47:21: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:47:21: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:47:21: #1 total tags in treatment: 7262094 INFO @ Sun, 21 Jun 2020 16:47:21: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:47:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (288 chroms): 2 millis pass2 - checking and writing primary data (9046 records, 4 fields): 16 millis INFO @ Sun, 21 Jun 2020 16:47:21: #1 tags after filtering in treatment: 7261913 INFO @ Sun, 21 Jun 2020 16:47:21: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:47:21: #1 finished! INFO @ Sun, 21 Jun 2020 16:47:21: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:47:21: #2 looking for paired plus/minus strand peaks... CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:47:22: #2 number of paired peaks: 6800 INFO @ Sun, 21 Jun 2020 16:47:22: start model_add_line... INFO @ Sun, 21 Jun 2020 16:47:22: start X-correlation... INFO @ Sun, 21 Jun 2020 16:47:22: end of X-cor INFO @ Sun, 21 Jun 2020 16:47:22: #2 finished! INFO @ Sun, 21 Jun 2020 16:47:22: #2 predicted fragment length is 307 bps INFO @ Sun, 21 Jun 2020 16:47:22: #2 alternative fragment length(s) may be 307 bps INFO @ Sun, 21 Jun 2020 16:47:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.10_model.r INFO @ Sun, 21 Jun 2020 16:47:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:47:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:47:26: 3000000 INFO @ Sun, 21 Jun 2020 16:47:31: 4000000 INFO @ Sun, 21 Jun 2020 16:47:37: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 16:47:42: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:47:43: 6000000 INFO @ Sun, 21 Jun 2020 16:47:48: 7000000 INFO @ Sun, 21 Jun 2020 16:47:50: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:47:50: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:47:50: #1 total tags in treatment: 7262094 INFO @ Sun, 21 Jun 2020 16:47:50: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:47:50: #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 16:47:50: #1 tags after filtering in treatment: 7261913 INFO @ Sun, 21 Jun 2020 16:47:50: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:47:50: #1 finished! INFO @ Sun, 21 Jun 2020 16:47:50: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:47:50: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:47:51: #2 number of paired peaks: 6800 INFO @ Sun, 21 Jun 2020 16:47:51: start model_add_line... INFO @ Sun, 21 Jun 2020 16:47:51: start X-correlation... INFO @ Sun, 21 Jun 2020 16:47:51: end of X-cor INFO @ Sun, 21 Jun 2020 16:47:51: #2 finished! INFO @ Sun, 21 Jun 2020 16:47:51: #2 predicted fragment length is 307 bps INFO @ Sun, 21 Jun 2020 16:47:51: #2 alternative fragment length(s) may be 307 bps INFO @ Sun, 21 Jun 2020 16:47:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.20_model.r INFO @ Sun, 21 Jun 2020 16:47:51: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:47:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:47:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.10_peaks.xls INFO @ Sun, 21 Jun 2020 16:47:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:47:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.10_summits.bed INFO @ Sun, 21 Jun 2020 16:47:52: Done! pass1 - making usageList (237 chroms): 3 millis pass2 - checking and writing primary data (6000 records, 4 fields): 12 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 16:48:11: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:48:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.20_peaks.xls INFO @ Sun, 21 Jun 2020 16:48:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:48:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX026741/SRX026741.20_summits.bed INFO @ Sun, 21 Jun 2020 16:48:21: Done! pass1 - making usageList (141 chroms): 2 millis pass2 - checking and writing primary data (2809 records, 4 fields): 6 millis CompletedMACS2peakCalling