Job ID = 6507937 SRX = SRX495099 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T14:18:27 prefetch.2.10.7: 1) Downloading 'SRR1198631'... 2020-06-26T14:18:27 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T14:20:23 prefetch.2.10.7: HTTPS download succeed 2020-06-26T14:20:25 prefetch.2.10.7: 'SRR1198631' is valid 2020-06-26T14:20:25 prefetch.2.10.7: 1) 'SRR1198631' was downloaded successfully Read 17890390 spots for SRR1198631/SRR1198631.sra Written 17890390 spots for SRR1198631/SRR1198631.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: 00:03:42 17890390 reads; of these: 17890390 (100.00%) were unpaired; of these: 473826 (2.65%) aligned 0 times 12249443 (68.47%) aligned exactly 1 time 5167121 (28.88%) aligned >1 times 97.35% overall alignment rate Time searching: 00:03:42 Overall time: 00:03:43 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_sort_core] merging from 8 files... [bam_rmdupse_core] 7208737 / 17416564 = 0.4139 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 23:29:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.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 23:29:56: #1 read tag files... INFO @ Fri, 26 Jun 2020 23:29:56: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 23:30:05: 1000000 INFO @ Fri, 26 Jun 2020 23:30:12: 2000000 INFO @ Fri, 26 Jun 2020 23:30:19: 3000000 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 23:30:26: 4000000 INFO @ Fri, 26 Jun 2020 23:30:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.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 23:30:27: #1 read tag files... INFO @ Fri, 26 Jun 2020 23:30:27: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 23:30:33: 5000000 INFO @ Fri, 26 Jun 2020 23:30:36: 1000000 INFO @ Fri, 26 Jun 2020 23:30:40: 6000000 INFO @ Fri, 26 Jun 2020 23:30:45: 2000000 INFO @ Fri, 26 Jun 2020 23:30:48: 7000000 INFO @ Fri, 26 Jun 2020 23:30:53: 3000000 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 23:30:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.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 23:30:57: #1 read tag files... INFO @ Fri, 26 Jun 2020 23:30:57: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 23:30:57: 8000000 INFO @ Fri, 26 Jun 2020 23:31:02: 4000000 INFO @ Fri, 26 Jun 2020 23:31:04: 9000000 INFO @ Fri, 26 Jun 2020 23:31:04: 1000000 INFO @ Fri, 26 Jun 2020 23:31:12: 5000000 INFO @ Fri, 26 Jun 2020 23:31:12: 10000000 INFO @ Fri, 26 Jun 2020 23:31:13: 2000000 INFO @ Fri, 26 Jun 2020 23:31:14: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 23:31:14: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 23:31:14: #1 total tags in treatment: 10207827 INFO @ Fri, 26 Jun 2020 23:31:14: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 23:31:14: #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 23:31:14: #1 tags after filtering in treatment: 10207827 INFO @ Fri, 26 Jun 2020 23:31:14: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 23:31:14: #1 finished! INFO @ Fri, 26 Jun 2020 23:31:14: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 23:31:14: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 23:31:15: #2 number of paired peaks: 1116 INFO @ Fri, 26 Jun 2020 23:31:15: start model_add_line... INFO @ Fri, 26 Jun 2020 23:31:15: start X-correlation... INFO @ Fri, 26 Jun 2020 23:31:15: end of X-cor INFO @ Fri, 26 Jun 2020 23:31:15: #2 finished! INFO @ Fri, 26 Jun 2020 23:31:15: #2 predicted fragment length is 172 bps INFO @ Fri, 26 Jun 2020 23:31:15: #2 alternative fragment length(s) may be 172 bps INFO @ Fri, 26 Jun 2020 23:31:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.05_model.r INFO @ Fri, 26 Jun 2020 23:31:15: #3 Call peaks... INFO @ Fri, 26 Jun 2020 23:31:15: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 23:31:20: 3000000 INFO @ Fri, 26 Jun 2020 23:31:21: 6000000 INFO @ Fri, 26 Jun 2020 23:31:27: 4000000 INFO @ Fri, 26 Jun 2020 23:31:29: 7000000 INFO @ Fri, 26 Jun 2020 23:31:34: 5000000 INFO @ Fri, 26 Jun 2020 23:31:37: 8000000 INFO @ Fri, 26 Jun 2020 23:31:42: 6000000 INFO @ Fri, 26 Jun 2020 23:31:45: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 23:31:46: 9000000 INFO @ Fri, 26 Jun 2020 23:31:49: 7000000 INFO @ Fri, 26 Jun 2020 23:31:55: 10000000 INFO @ Fri, 26 Jun 2020 23:31:56: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.05_peaks.xls INFO @ Fri, 26 Jun 2020 23:31:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 23:31:56: 8000000 INFO @ Fri, 26 Jun 2020 23:31:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.05_summits.bed INFO @ Fri, 26 Jun 2020 23:31:56: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4678 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 23:31:57: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 23:31:57: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 23:31:57: #1 total tags in treatment: 10207827 INFO @ Fri, 26 Jun 2020 23:31:57: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 23:31:57: #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 23:31:57: #1 tags after filtering in treatment: 10207827 INFO @ Fri, 26 Jun 2020 23:31:57: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 23:31:57: #1 finished! INFO @ Fri, 26 Jun 2020 23:31:57: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 23:31:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 23:31:58: #2 number of paired peaks: 1116 INFO @ Fri, 26 Jun 2020 23:31:58: start model_add_line... INFO @ Fri, 26 Jun 2020 23:31:58: start X-correlation... INFO @ Fri, 26 Jun 2020 23:31:58: end of X-cor INFO @ Fri, 26 Jun 2020 23:31:58: #2 finished! INFO @ Fri, 26 Jun 2020 23:31:58: #2 predicted fragment length is 172 bps INFO @ Fri, 26 Jun 2020 23:31:58: #2 alternative fragment length(s) may be 172 bps INFO @ Fri, 26 Jun 2020 23:31:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.10_model.r INFO @ Fri, 26 Jun 2020 23:31:58: #3 Call peaks... INFO @ Fri, 26 Jun 2020 23:31:58: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 23:32:03: 9000000 INFO @ Fri, 26 Jun 2020 23:32:09: 10000000 INFO @ Fri, 26 Jun 2020 23:32:10: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 23:32:10: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 23:32:10: #1 total tags in treatment: 10207827 INFO @ Fri, 26 Jun 2020 23:32:10: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 23:32:10: #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 23:32:10: #1 tags after filtering in treatment: 10207827 INFO @ Fri, 26 Jun 2020 23:32:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 23:32:10: #1 finished! INFO @ Fri, 26 Jun 2020 23:32:10: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 23:32:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 23:32:11: #2 number of paired peaks: 1116 INFO @ Fri, 26 Jun 2020 23:32:11: start model_add_line... INFO @ Fri, 26 Jun 2020 23:32:11: start X-correlation... INFO @ Fri, 26 Jun 2020 23:32:11: end of X-cor INFO @ Fri, 26 Jun 2020 23:32:11: #2 finished! INFO @ Fri, 26 Jun 2020 23:32:11: #2 predicted fragment length is 172 bps INFO @ Fri, 26 Jun 2020 23:32:11: #2 alternative fragment length(s) may be 172 bps INFO @ Fri, 26 Jun 2020 23:32:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.20_model.r INFO @ Fri, 26 Jun 2020 23:32:11: #3 Call peaks... INFO @ Fri, 26 Jun 2020 23:32:11: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 23:32:27: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 23:32:39: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 23:32:40: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.10_peaks.xls INFO @ Fri, 26 Jun 2020 23:32:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 23:32:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.10_summits.bed INFO @ Fri, 26 Jun 2020 23:32:40: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (2290 records, 4 fields): 5 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 23:32:52: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.20_peaks.xls INFO @ Fri, 26 Jun 2020 23:32:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 23:32:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX495099/SRX495099.20_summits.bed INFO @ Fri, 26 Jun 2020 23:32:52: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (1517 records, 4 fields): 5 millis CompletedMACS2peakCalling