Job ID = 6452418 SRX = SRX013046 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:53:30 prefetch.2.10.7: 1) Downloading 'SRR030312'... 2020-06-21T07:53:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:54:02 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:54:02 prefetch.2.10.7: 'SRR030312' is valid 2020-06-21T07:54:02 prefetch.2.10.7: 1) 'SRR030312' was downloaded successfully Read 4552984 spots for SRR030312/SRR030312.sra Written 4552984 spots for SRR030312/SRR030312.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: 00:00:45 4552984 reads; of these: 4552984 (100.00%) were unpaired; of these: 334593 (7.35%) aligned 0 times 3773021 (82.87%) aligned exactly 1 time 445370 (9.78%) aligned >1 times 92.65% overall alignment rate Time searching: 00:00:45 Overall time: 00:00:45 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] 443700 / 4218391 = 0.1052 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 16:56:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.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 16:56:26: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:56:26: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:56:31: 1000000 INFO @ Sun, 21 Jun 2020 16:56:36: 2000000 INFO @ Sun, 21 Jun 2020 16:56:40: 3000000 INFO @ Sun, 21 Jun 2020 16:56:44: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:56:44: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:56:44: #1 total tags in treatment: 3774691 INFO @ Sun, 21 Jun 2020 16:56:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:56:44: #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 16:56:45: #1 tags after filtering in treatment: 3774401 INFO @ Sun, 21 Jun 2020 16:56:45: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:56:45: #1 finished! INFO @ Sun, 21 Jun 2020 16:56:45: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:56:45: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:56:45: #2 number of paired peaks: 2169 INFO @ Sun, 21 Jun 2020 16:56:45: start model_add_line... INFO @ Sun, 21 Jun 2020 16:56:45: start X-correlation... INFO @ Sun, 21 Jun 2020 16:56:45: end of X-cor INFO @ Sun, 21 Jun 2020 16:56:45: #2 finished! INFO @ Sun, 21 Jun 2020 16:56:45: #2 predicted fragment length is 149 bps INFO @ Sun, 21 Jun 2020 16:56:45: #2 alternative fragment length(s) may be 149 bps INFO @ Sun, 21 Jun 2020 16:56:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.05_model.r INFO @ Sun, 21 Jun 2020 16:56:45: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:56:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:56:54: #3 Call peaks for each chromosome... 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 16:56:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.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 16:56:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:56:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:56:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.05_peaks.xls INFO @ Sun, 21 Jun 2020 16:56:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:56:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.05_summits.bed INFO @ Sun, 21 Jun 2020 16:56:58: Done! pass1 - making usageList (110 chroms): 2 millis pass2 - checking and writing primary data (5238 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:57:01: 1000000 INFO @ Sun, 21 Jun 2020 16:57:06: 2000000 INFO @ Sun, 21 Jun 2020 16:57:10: 3000000 INFO @ Sun, 21 Jun 2020 16:57:15: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:57:15: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:57:15: #1 total tags in treatment: 3774691 INFO @ Sun, 21 Jun 2020 16:57:15: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:57:15: #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 16:57:15: #1 tags after filtering in treatment: 3774401 INFO @ Sun, 21 Jun 2020 16:57:15: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:57:15: #1 finished! INFO @ Sun, 21 Jun 2020 16:57:15: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:57:15: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:57:15: #2 number of paired peaks: 2169 INFO @ Sun, 21 Jun 2020 16:57:15: start model_add_line... INFO @ Sun, 21 Jun 2020 16:57:15: start X-correlation... INFO @ Sun, 21 Jun 2020 16:57:15: end of X-cor INFO @ Sun, 21 Jun 2020 16:57:15: #2 finished! INFO @ Sun, 21 Jun 2020 16:57:15: #2 predicted fragment length is 149 bps INFO @ Sun, 21 Jun 2020 16:57:15: #2 alternative fragment length(s) may be 149 bps INFO @ Sun, 21 Jun 2020 16:57:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.10_model.r INFO @ Sun, 21 Jun 2020 16:57:15: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:57:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:57:24: #3 Call peaks for each chromosome... 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 16:57:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.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 16:57:26: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:57:26: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:57:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.10_peaks.xls INFO @ Sun, 21 Jun 2020 16:57:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:57:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.10_summits.bed INFO @ Sun, 21 Jun 2020 16:57:29: Done! pass1 - making usageList (56 chroms): 1 millis pass2 - checking and writing primary data (2572 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:57:31: 1000000 INFO @ Sun, 21 Jun 2020 16:57:36: 2000000 INFO @ Sun, 21 Jun 2020 16:57:40: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 16:57:45: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:57:45: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:57:45: #1 total tags in treatment: 3774691 INFO @ Sun, 21 Jun 2020 16:57:45: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:57:45: #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 16:57:45: #1 tags after filtering in treatment: 3774401 INFO @ Sun, 21 Jun 2020 16:57:45: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:57:45: #1 finished! INFO @ Sun, 21 Jun 2020 16:57:45: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:57:45: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:57:45: #2 number of paired peaks: 2169 INFO @ Sun, 21 Jun 2020 16:57:45: start model_add_line... INFO @ Sun, 21 Jun 2020 16:57:45: start X-correlation... INFO @ Sun, 21 Jun 2020 16:57:45: end of X-cor INFO @ Sun, 21 Jun 2020 16:57:45: #2 finished! INFO @ Sun, 21 Jun 2020 16:57:45: #2 predicted fragment length is 149 bps INFO @ Sun, 21 Jun 2020 16:57:45: #2 alternative fragment length(s) may be 149 bps INFO @ Sun, 21 Jun 2020 16:57:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.20_model.r INFO @ Sun, 21 Jun 2020 16:57:45: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:57:45: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 16:57:54: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:57:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.20_peaks.xls INFO @ Sun, 21 Jun 2020 16:57:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:57:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX013046/SRX013046.20_summits.bed INFO @ Sun, 21 Jun 2020 16:57:59: Done! pass1 - making usageList (40 chroms): 1 millis pass2 - checking and writing primary data (1082 records, 4 fields): 3 millis CompletedMACS2peakCalling