Job ID = 6497509 SRX = SRX495099 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:28:43 prefetch.2.10.7: 1) Downloading 'SRR1198631'... 2020-06-25T22:28:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:31:03 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:31:04 prefetch.2.10.7: 'SRR1198631' is valid 2020-06-25T22:31:04 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: 00:03:40 17890390 reads; of these: 17890390 (100.00%) were unpaired; of these: 475000 (2.66%) aligned 0 times 12248349 (68.46%) aligned exactly 1 time 5167041 (28.88%) aligned >1 times 97.34% overall alignment rate Time searching: 00:03:40 Overall time: 00:03:40 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] 7208146 / 17415390 = 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 07:39:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 07:39:08: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:39:08: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:39:13: 1000000 INFO @ Fri, 26 Jun 2020 07:39:18: 2000000 INFO @ Fri, 26 Jun 2020 07:39:23: 3000000 INFO @ Fri, 26 Jun 2020 07:39:28: 4000000 INFO @ Fri, 26 Jun 2020 07:39:33: 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 @ Fri, 26 Jun 2020 07:39:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 07:39:38: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:39:38: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:39:38: 6000000 INFO @ Fri, 26 Jun 2020 07:39:43: 1000000 INFO @ Fri, 26 Jun 2020 07:39:44: 7000000 INFO @ Fri, 26 Jun 2020 07:39:48: 2000000 INFO @ Fri, 26 Jun 2020 07:39:49: 8000000 INFO @ Fri, 26 Jun 2020 07:39:54: 3000000 INFO @ Fri, 26 Jun 2020 07:39:54: 9000000 INFO @ Fri, 26 Jun 2020 07:39:59: 4000000 INFO @ Fri, 26 Jun 2020 07:39:59: 10000000 INFO @ Fri, 26 Jun 2020 07:40:01: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:40:01: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:40:01: #1 total tags in treatment: 10207244 INFO @ Fri, 26 Jun 2020 07:40:01: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:40:01: #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 07:40:01: #1 tags after filtering in treatment: 10207244 INFO @ Fri, 26 Jun 2020 07:40:01: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:40:01: #1 finished! INFO @ Fri, 26 Jun 2020 07:40:01: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:40:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:40:01: #2 number of paired peaks: 1117 INFO @ Fri, 26 Jun 2020 07:40:01: start model_add_line... INFO @ Fri, 26 Jun 2020 07:40:02: start X-correlation... INFO @ Fri, 26 Jun 2020 07:40:02: end of X-cor INFO @ Fri, 26 Jun 2020 07:40:02: #2 finished! INFO @ Fri, 26 Jun 2020 07:40:02: #2 predicted fragment length is 172 bps INFO @ Fri, 26 Jun 2020 07:40:02: #2 alternative fragment length(s) may be 172 bps INFO @ Fri, 26 Jun 2020 07:40:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.05_model.r INFO @ Fri, 26 Jun 2020 07:40:02: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:40:02: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:40:04: 5000000 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 07:40:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 07:40:08: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:40:08: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:40:09: 6000000 INFO @ Fri, 26 Jun 2020 07:40:13: 1000000 INFO @ Fri, 26 Jun 2020 07:40:14: 7000000 INFO @ Fri, 26 Jun 2020 07:40:19: 2000000 INFO @ Fri, 26 Jun 2020 07:40:19: 8000000 INFO @ Fri, 26 Jun 2020 07:40:24: 3000000 INFO @ Fri, 26 Jun 2020 07:40:24: 9000000 INFO @ Fri, 26 Jun 2020 07:40:26: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:40:29: 4000000 INFO @ Fri, 26 Jun 2020 07:40:29: 10000000 INFO @ Fri, 26 Jun 2020 07:40:31: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:40:31: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:40:31: #1 total tags in treatment: 10207244 INFO @ Fri, 26 Jun 2020 07:40:31: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:40:31: #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 07:40:31: #1 tags after filtering in treatment: 10207244 INFO @ Fri, 26 Jun 2020 07:40:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:40:31: #1 finished! INFO @ Fri, 26 Jun 2020 07:40:31: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:40:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:40:31: #2 number of paired peaks: 1117 INFO @ Fri, 26 Jun 2020 07:40:31: start model_add_line... INFO @ Fri, 26 Jun 2020 07:40:32: start X-correlation... INFO @ Fri, 26 Jun 2020 07:40:32: end of X-cor INFO @ Fri, 26 Jun 2020 07:40:32: #2 finished! INFO @ Fri, 26 Jun 2020 07:40:32: #2 predicted fragment length is 172 bps INFO @ Fri, 26 Jun 2020 07:40:32: #2 alternative fragment length(s) may be 172 bps INFO @ Fri, 26 Jun 2020 07:40:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.10_model.r INFO @ Fri, 26 Jun 2020 07:40:32: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:40:32: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:40:34: 5000000 INFO @ Fri, 26 Jun 2020 07:40:38: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:40:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:40:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.05_summits.bed INFO @ Fri, 26 Jun 2020 07:40:38: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4678 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:40:39: 6000000 INFO @ Fri, 26 Jun 2020 07:40:44: 7000000 INFO @ Fri, 26 Jun 2020 07:40:49: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:40:54: 9000000 INFO @ Fri, 26 Jun 2020 07:40:57: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:40:59: 10000000 INFO @ Fri, 26 Jun 2020 07:41:00: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:41:00: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:41:00: #1 total tags in treatment: 10207244 INFO @ Fri, 26 Jun 2020 07:41:00: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:41:00: #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 07:41:00: #1 tags after filtering in treatment: 10207244 INFO @ Fri, 26 Jun 2020 07:41:00: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:41:00: #1 finished! INFO @ Fri, 26 Jun 2020 07:41:00: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:41:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:41:01: #2 number of paired peaks: 1117 INFO @ Fri, 26 Jun 2020 07:41:01: start model_add_line... INFO @ Fri, 26 Jun 2020 07:41:01: start X-correlation... INFO @ Fri, 26 Jun 2020 07:41:01: end of X-cor INFO @ Fri, 26 Jun 2020 07:41:01: #2 finished! INFO @ Fri, 26 Jun 2020 07:41:01: #2 predicted fragment length is 172 bps INFO @ Fri, 26 Jun 2020 07:41:01: #2 alternative fragment length(s) may be 172 bps INFO @ Fri, 26 Jun 2020 07:41:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.20_model.r INFO @ Fri, 26 Jun 2020 07:41:01: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:41:01: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:41:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:41:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:41:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.10_summits.bed INFO @ Fri, 26 Jun 2020 07:41:09: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (2290 records, 4 fields): 4 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:41:27: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:41:39: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:41:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:41:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495099/SRX495099.20_summits.bed INFO @ Fri, 26 Jun 2020 07:41:39: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1517 records, 4 fields): 3 millis CompletedMACS2peakCalling