Job ID = 6497522 SRX = SRX495112 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:25:51 prefetch.2.10.7: 1) Downloading 'SRR1198644'... 2020-06-25T22:25:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:29:52 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:29:52 prefetch.2.10.7: 1) 'SRR1198644' was downloaded successfully Read 18131752 spots for SRR1198644/SRR1198644.sra Written 18131752 spots for SRR1198644/SRR1198644.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: 00:03:22 18131752 reads; of these: 18131752 (100.00%) were unpaired; of these: 304800 (1.68%) aligned 0 times 14089889 (77.71%) aligned exactly 1 time 3737063 (20.61%) aligned >1 times 98.32% overall alignment rate Time searching: 00:03:22 Overall time: 00:03:22 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] 10199645 / 17826952 = 0.5721 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 07:37:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.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 07:37:44: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:37:44: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:37:51: 1000000 INFO @ Fri, 26 Jun 2020 07:37:58: 2000000 INFO @ Fri, 26 Jun 2020 07:38:05: 3000000 INFO @ Fri, 26 Jun 2020 07:38:12: 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 07:38:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.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 07:38:14: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:38:14: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:38:19: 5000000 INFO @ Fri, 26 Jun 2020 07:38:22: 1000000 INFO @ Fri, 26 Jun 2020 07:38:26: 6000000 INFO @ Fri, 26 Jun 2020 07:38:29: 2000000 INFO @ Fri, 26 Jun 2020 07:38:33: 7000000 INFO @ Fri, 26 Jun 2020 07:38:37: 3000000 INFO @ Fri, 26 Jun 2020 07:38:38: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:38:38: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:38:38: #1 total tags in treatment: 7627307 INFO @ Fri, 26 Jun 2020 07:38:38: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:38:38: #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 07:38:38: #1 tags after filtering in treatment: 7627307 INFO @ Fri, 26 Jun 2020 07:38:38: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:38:38: #1 finished! INFO @ Fri, 26 Jun 2020 07:38:38: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:38:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:38:39: #2 number of paired peaks: 2016 INFO @ Fri, 26 Jun 2020 07:38:39: start model_add_line... INFO @ Fri, 26 Jun 2020 07:38:39: start X-correlation... INFO @ Fri, 26 Jun 2020 07:38:39: end of X-cor INFO @ Fri, 26 Jun 2020 07:38:39: #2 finished! INFO @ Fri, 26 Jun 2020 07:38:39: #2 predicted fragment length is 179 bps INFO @ Fri, 26 Jun 2020 07:38:39: #2 alternative fragment length(s) may be 179 bps INFO @ Fri, 26 Jun 2020 07:38:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.05_model.r INFO @ Fri, 26 Jun 2020 07:38:39: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:38:39: #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 07:38:43: 4000000 INFO @ Fri, 26 Jun 2020 07:38:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.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 07:38:44: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:38:44: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:38:50: 5000000 INFO @ Fri, 26 Jun 2020 07:38:51: 1000000 INFO @ Fri, 26 Jun 2020 07:38:57: 2000000 INFO @ Fri, 26 Jun 2020 07:38:58: 6000000 INFO @ Fri, 26 Jun 2020 07:39:01: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:39:04: 3000000 INFO @ Fri, 26 Jun 2020 07:39:05: 7000000 INFO @ Fri, 26 Jun 2020 07:39:09: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:39:09: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:39:09: #1 total tags in treatment: 7627307 INFO @ Fri, 26 Jun 2020 07:39:09: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:39:09: #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 07:39:09: #1 tags after filtering in treatment: 7627307 INFO @ Fri, 26 Jun 2020 07:39:09: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:39:09: #1 finished! INFO @ Fri, 26 Jun 2020 07:39:09: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:39:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:39:10: #2 number of paired peaks: 2016 INFO @ Fri, 26 Jun 2020 07:39:10: start model_add_line... INFO @ Fri, 26 Jun 2020 07:39:10: start X-correlation... INFO @ Fri, 26 Jun 2020 07:39:10: end of X-cor INFO @ Fri, 26 Jun 2020 07:39:10: #2 finished! INFO @ Fri, 26 Jun 2020 07:39:10: #2 predicted fragment length is 179 bps INFO @ Fri, 26 Jun 2020 07:39:10: #2 alternative fragment length(s) may be 179 bps INFO @ Fri, 26 Jun 2020 07:39:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.10_model.r INFO @ Fri, 26 Jun 2020 07:39:10: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:39:10: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:39:10: 4000000 INFO @ Fri, 26 Jun 2020 07:39:11: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:39:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:39:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.05_summits.bed INFO @ Fri, 26 Jun 2020 07:39:11: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5676 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:39:16: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:39:22: 6000000 INFO @ Fri, 26 Jun 2020 07:39:28: 7000000 INFO @ Fri, 26 Jun 2020 07:39:31: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:39:32: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:39:32: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:39:32: #1 total tags in treatment: 7627307 INFO @ Fri, 26 Jun 2020 07:39:32: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:39:32: #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 07:39:32: #1 tags after filtering in treatment: 7627307 INFO @ Fri, 26 Jun 2020 07:39:32: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:39:32: #1 finished! INFO @ Fri, 26 Jun 2020 07:39:32: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:39:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:39:32: #2 number of paired peaks: 2016 INFO @ Fri, 26 Jun 2020 07:39:32: start model_add_line... INFO @ Fri, 26 Jun 2020 07:39:33: start X-correlation... INFO @ Fri, 26 Jun 2020 07:39:33: end of X-cor INFO @ Fri, 26 Jun 2020 07:39:33: #2 finished! INFO @ Fri, 26 Jun 2020 07:39:33: #2 predicted fragment length is 179 bps INFO @ Fri, 26 Jun 2020 07:39:33: #2 alternative fragment length(s) may be 179 bps INFO @ Fri, 26 Jun 2020 07:39:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.20_model.r INFO @ Fri, 26 Jun 2020 07:39:33: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:39:33: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:39:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:39:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:39:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.10_summits.bed INFO @ Fri, 26 Jun 2020 07:39:41: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3520 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:39:55: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:40:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:40:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:40:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495112/SRX495112.20_summits.bed INFO @ Fri, 26 Jun 2020 07:40:03: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1804 records, 4 fields): 3 millis CompletedMACS2peakCalling