Job ID = 6497529 SRX = SRX495119 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:05:57 prefetch.2.10.7: 1) Downloading 'SRR1198651'... 2020-06-25T22:06:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:07:48 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:07:48 prefetch.2.10.7: 'SRR1198651' is valid 2020-06-25T22:07:48 prefetch.2.10.7: 1) 'SRR1198651' was downloaded successfully Read 8982852 spots for SRR1198651/SRR1198651.sra Written 8982852 spots for SRR1198651/SRR1198651.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:18 8982852 reads; of these: 8982852 (100.00%) were unpaired; of these: 1010949 (11.25%) aligned 0 times 6429243 (71.57%) aligned exactly 1 time 1542660 (17.17%) aligned >1 times 88.75% overall alignment rate Time searching: 00:01:19 Overall time: 00:01:19 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] 2269165 / 7971903 = 0.2846 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 07:12:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.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 07:12:27: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:12:27: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:12:34: 1000000 INFO @ Fri, 26 Jun 2020 07:12:40: 2000000 INFO @ Fri, 26 Jun 2020 07:12:46: 3000000 INFO @ Fri, 26 Jun 2020 07:12:52: 4000000 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 07:12:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.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 07:12:57: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:12:57: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:12:58: 5000000 INFO @ Fri, 26 Jun 2020 07:13:03: #1 tag size is determined as 29 bps INFO @ Fri, 26 Jun 2020 07:13:03: #1 tag size = 29 INFO @ Fri, 26 Jun 2020 07:13:03: #1 total tags in treatment: 5702738 INFO @ Fri, 26 Jun 2020 07:13:03: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:13:03: #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 07:13:03: #1 tags after filtering in treatment: 5702738 INFO @ Fri, 26 Jun 2020 07:13:03: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:13:03: #1 finished! INFO @ Fri, 26 Jun 2020 07:13:03: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:13:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:13:04: #2 number of paired peaks: 1926 INFO @ Fri, 26 Jun 2020 07:13:04: start model_add_line... INFO @ Fri, 26 Jun 2020 07:13:04: start X-correlation... INFO @ Fri, 26 Jun 2020 07:13:04: end of X-cor INFO @ Fri, 26 Jun 2020 07:13:04: #2 finished! INFO @ Fri, 26 Jun 2020 07:13:04: #2 predicted fragment length is 194 bps INFO @ Fri, 26 Jun 2020 07:13:04: #2 alternative fragment length(s) may be 194 bps INFO @ Fri, 26 Jun 2020 07:13:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.05_model.r INFO @ Fri, 26 Jun 2020 07:13:04: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:13:04: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:13:04: 1000000 INFO @ Fri, 26 Jun 2020 07:13:11: 2000000 INFO @ Fri, 26 Jun 2020 07:13:17: 3000000 INFO @ Fri, 26 Jun 2020 07:13:21: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:13:23: 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 @ Fri, 26 Jun 2020 07:13:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.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 07:13:27: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:13:27: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:13:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:13:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:13:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.05_summits.bed INFO @ Fri, 26 Jun 2020 07:13:30: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (2922 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:13:30: 5000000 INFO @ Fri, 26 Jun 2020 07:13:34: 1000000 INFO @ Fri, 26 Jun 2020 07:13:35: #1 tag size is determined as 29 bps INFO @ Fri, 26 Jun 2020 07:13:35: #1 tag size = 29 INFO @ Fri, 26 Jun 2020 07:13:35: #1 total tags in treatment: 5702738 INFO @ Fri, 26 Jun 2020 07:13:35: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:13:35: #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 07:13:35: #1 tags after filtering in treatment: 5702738 INFO @ Fri, 26 Jun 2020 07:13:35: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:13:35: #1 finished! INFO @ Fri, 26 Jun 2020 07:13:35: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:13:35: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:13:36: #2 number of paired peaks: 1926 INFO @ Fri, 26 Jun 2020 07:13:36: start model_add_line... INFO @ Fri, 26 Jun 2020 07:13:36: start X-correlation... INFO @ Fri, 26 Jun 2020 07:13:36: end of X-cor INFO @ Fri, 26 Jun 2020 07:13:36: #2 finished! INFO @ Fri, 26 Jun 2020 07:13:36: #2 predicted fragment length is 194 bps INFO @ Fri, 26 Jun 2020 07:13:36: #2 alternative fragment length(s) may be 194 bps INFO @ Fri, 26 Jun 2020 07:13:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.10_model.r INFO @ Fri, 26 Jun 2020 07:13:36: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:13:36: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:13:40: 2000000 INFO @ Fri, 26 Jun 2020 07:13:45: 3000000 INFO @ Fri, 26 Jun 2020 07:13:51: 4000000 INFO @ Fri, 26 Jun 2020 07:13:54: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:13:57: 5000000 INFO @ Fri, 26 Jun 2020 07:14:00: #1 tag size is determined as 29 bps INFO @ Fri, 26 Jun 2020 07:14:00: #1 tag size = 29 INFO @ Fri, 26 Jun 2020 07:14:00: #1 total tags in treatment: 5702738 INFO @ Fri, 26 Jun 2020 07:14:00: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:14:00: #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 07:14:00: #1 tags after filtering in treatment: 5702738 INFO @ Fri, 26 Jun 2020 07:14:00: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:14:00: #1 finished! INFO @ Fri, 26 Jun 2020 07:14:00: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:14:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:14:01: #2 number of paired peaks: 1926 INFO @ Fri, 26 Jun 2020 07:14:01: start model_add_line... INFO @ Fri, 26 Jun 2020 07:14:01: start X-correlation... INFO @ Fri, 26 Jun 2020 07:14:01: end of X-cor INFO @ Fri, 26 Jun 2020 07:14:01: #2 finished! INFO @ Fri, 26 Jun 2020 07:14:01: #2 predicted fragment length is 194 bps INFO @ Fri, 26 Jun 2020 07:14:01: #2 alternative fragment length(s) may be 194 bps INFO @ Fri, 26 Jun 2020 07:14:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.20_model.r INFO @ Fri, 26 Jun 2020 07:14:01: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:14:01: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:14:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:14:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:14:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.10_summits.bed INFO @ Fri, 26 Jun 2020 07:14:02: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1219 records, 4 fields): 3 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:14:19: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:14:28: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:14:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:14:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495119/SRX495119.20_summits.bed INFO @ Fri, 26 Jun 2020 07:14:29: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (468 records, 4 fields): 2 millis CompletedMACS2peakCalling