Job ID = 6497510 SRX = SRX495100 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:21:30 prefetch.2.10.7: 1) Downloading 'SRR1198632'... 2020-06-25T22:21:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:23:26 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:23:27 prefetch.2.10.7: 'SRR1198632' is valid 2020-06-25T22:23:27 prefetch.2.10.7: 1) 'SRR1198632' was downloaded successfully Read 9064871 spots for SRR1198632/SRR1198632.sra Written 9064871 spots for SRR1198632/SRR1198632.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: 00:01:48 9064871 reads; of these: 9064871 (100.00%) were unpaired; of these: 159803 (1.76%) aligned 0 times 6206445 (68.47%) aligned exactly 1 time 2698623 (29.77%) aligned >1 times 98.24% overall alignment rate Time searching: 00:01:49 Overall time: 00:01:49 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_rmdupse_core] 4653094 / 8905068 = 0.5225 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 @ Fri, 26 Jun 2020 07:28:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Fri, 26 Jun 2020 07:28:40: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:28:40: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:28:45: 1000000 INFO @ Fri, 26 Jun 2020 07:28:49: 2000000 INFO @ Fri, 26 Jun 2020 07:28:54: 3000000 INFO @ Fri, 26 Jun 2020 07:28:59: 4000000 INFO @ Fri, 26 Jun 2020 07:29:01: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:29:01: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:29:01: #1 total tags in treatment: 4251974 INFO @ Fri, 26 Jun 2020 07:29:01: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:29:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:29:01: #1 tags after filtering in treatment: 4251974 INFO @ Fri, 26 Jun 2020 07:29:01: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:29:01: #1 finished! INFO @ Fri, 26 Jun 2020 07:29:01: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:29:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:29:01: #2 number of paired peaks: 1731 INFO @ Fri, 26 Jun 2020 07:29:01: start model_add_line... INFO @ Fri, 26 Jun 2020 07:29:01: start X-correlation... INFO @ Fri, 26 Jun 2020 07:29:01: end of X-cor INFO @ Fri, 26 Jun 2020 07:29:01: #2 finished! INFO @ Fri, 26 Jun 2020 07:29:01: #2 predicted fragment length is 247 bps INFO @ Fri, 26 Jun 2020 07:29:01: #2 alternative fragment length(s) may be 247 bps INFO @ Fri, 26 Jun 2020 07:29:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.05_model.r INFO @ Fri, 26 Jun 2020 07:29:01: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:29:01: #3 Pre-compute pvalue-qvalue table... 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 @ Fri, 26 Jun 2020 07:29:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Fri, 26 Jun 2020 07:29:09: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:29:09: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:29:15: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:29:15: 1000000 INFO @ Fri, 26 Jun 2020 07:29:20: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:29:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:29:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.05_summits.bed INFO @ Fri, 26 Jun 2020 07:29:20: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1725 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:29:21: 2000000 INFO @ Fri, 26 Jun 2020 07:29:26: 3000000 INFO @ Fri, 26 Jun 2020 07:29:32: 4000000 INFO @ Fri, 26 Jun 2020 07:29:34: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:29:34: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:29:34: #1 total tags in treatment: 4251974 INFO @ Fri, 26 Jun 2020 07:29:34: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:29:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:29:34: #1 tags after filtering in treatment: 4251974 INFO @ Fri, 26 Jun 2020 07:29:34: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:29:34: #1 finished! INFO @ Fri, 26 Jun 2020 07:29:34: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:29:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:29:34: #2 number of paired peaks: 1731 INFO @ Fri, 26 Jun 2020 07:29:34: start model_add_line... INFO @ Fri, 26 Jun 2020 07:29:34: start X-correlation... INFO @ Fri, 26 Jun 2020 07:29:34: end of X-cor INFO @ Fri, 26 Jun 2020 07:29:34: #2 finished! INFO @ Fri, 26 Jun 2020 07:29:34: #2 predicted fragment length is 247 bps INFO @ Fri, 26 Jun 2020 07:29:34: #2 alternative fragment length(s) may be 247 bps INFO @ Fri, 26 Jun 2020 07:29:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.10_model.r INFO @ Fri, 26 Jun 2020 07:29:34: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:29:34: #3 Pre-compute pvalue-qvalue table... 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 @ Fri, 26 Jun 2020 07:29:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Fri, 26 Jun 2020 07:29:39: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:29:39: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:29:45: 1000000 INFO @ Fri, 26 Jun 2020 07:29:48: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:29:51: 2000000 INFO @ Fri, 26 Jun 2020 07:29:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:29:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:29:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.10_summits.bed INFO @ Fri, 26 Jun 2020 07:29:53: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1542 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:29:56: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:30:02: 4000000 INFO @ Fri, 26 Jun 2020 07:30:03: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:30:03: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:30:03: #1 total tags in treatment: 4251974 INFO @ Fri, 26 Jun 2020 07:30:03: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:30:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:30:03: #1 tags after filtering in treatment: 4251974 INFO @ Fri, 26 Jun 2020 07:30:03: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:30:03: #1 finished! INFO @ Fri, 26 Jun 2020 07:30:03: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:30:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:30:04: #2 number of paired peaks: 1731 INFO @ Fri, 26 Jun 2020 07:30:04: start model_add_line... INFO @ Fri, 26 Jun 2020 07:30:04: start X-correlation... INFO @ Fri, 26 Jun 2020 07:30:04: end of X-cor INFO @ Fri, 26 Jun 2020 07:30:04: #2 finished! INFO @ Fri, 26 Jun 2020 07:30:04: #2 predicted fragment length is 247 bps INFO @ Fri, 26 Jun 2020 07:30:04: #2 alternative fragment length(s) may be 247 bps INFO @ Fri, 26 Jun 2020 07:30:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.20_model.r INFO @ Fri, 26 Jun 2020 07:30:04: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:30:04: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:30:17: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:30:22: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:30:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:30:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495100/SRX495100.20_summits.bed INFO @ Fri, 26 Jun 2020 07:30:23: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1378 records, 4 fields): 3 millis CompletedMACS2peakCalling