Job ID = 6497486 SRX = SRX495007 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:28:42 prefetch.2.10.7: 1) Downloading 'SRR1198539'... 2020-06-25T22:28:42 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:34:38 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:34:38 prefetch.2.10.7: 1) 'SRR1198539' was downloaded successfully Read 19425966 spots for SRR1198539/SRR1198539.sra Written 19425966 spots for SRR1198539/SRR1198539.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: 00:04:40 19425966 reads; of these: 19425966 (100.00%) were unpaired; of these: 2060866 (10.61%) aligned 0 times 14104415 (72.61%) aligned exactly 1 time 3260685 (16.79%) aligned >1 times 89.39% overall alignment rate Time searching: 00:04:40 Overall time: 00:04:40 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] 8839005 / 17365100 = 0.5090 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 07:44:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.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 07:44:42: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:44:42: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:44:48: 1000000 INFO @ Fri, 26 Jun 2020 07:44:53: 2000000 INFO @ Fri, 26 Jun 2020 07:44:58: 3000000 INFO @ Fri, 26 Jun 2020 07:45:04: 4000000 INFO @ Fri, 26 Jun 2020 07:45:09: 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 07:45:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.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 07:45:12: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:45:12: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:45:14: 6000000 INFO @ Fri, 26 Jun 2020 07:45:18: 1000000 INFO @ Fri, 26 Jun 2020 07:45:19: 7000000 INFO @ Fri, 26 Jun 2020 07:45:23: 2000000 INFO @ Fri, 26 Jun 2020 07:45:24: 8000000 INFO @ Fri, 26 Jun 2020 07:45:27: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:45:27: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:45:27: #1 total tags in treatment: 8526095 INFO @ Fri, 26 Jun 2020 07:45:27: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:45:27: #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 07:45:27: #1 tags after filtering in treatment: 8526095 INFO @ Fri, 26 Jun 2020 07:45:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:45:27: #1 finished! INFO @ Fri, 26 Jun 2020 07:45:27: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:45:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:45:28: #2 number of paired peaks: 2610 INFO @ Fri, 26 Jun 2020 07:45:28: start model_add_line... INFO @ Fri, 26 Jun 2020 07:45:28: start X-correlation... INFO @ Fri, 26 Jun 2020 07:45:28: end of X-cor INFO @ Fri, 26 Jun 2020 07:45:28: #2 finished! INFO @ Fri, 26 Jun 2020 07:45:28: #2 predicted fragment length is 183 bps INFO @ Fri, 26 Jun 2020 07:45:28: #2 alternative fragment length(s) may be 2,183 bps INFO @ Fri, 26 Jun 2020 07:45:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.05_model.r INFO @ Fri, 26 Jun 2020 07:45:28: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:45:28: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:45:28: 3000000 INFO @ Fri, 26 Jun 2020 07:45:34: 4000000 INFO @ Fri, 26 Jun 2020 07:45:39: 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 07:45:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.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 07:45:42: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:45:42: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:45:44: 6000000 INFO @ Fri, 26 Jun 2020 07:45:48: 1000000 INFO @ Fri, 26 Jun 2020 07:45:49: 7000000 INFO @ Fri, 26 Jun 2020 07:45:53: 2000000 INFO @ Fri, 26 Jun 2020 07:45:55: 8000000 INFO @ Fri, 26 Jun 2020 07:45:55: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:45:57: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:45:57: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:45:57: #1 total tags in treatment: 8526095 INFO @ Fri, 26 Jun 2020 07:45:57: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:45:57: #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 07:45:58: #1 tags after filtering in treatment: 8526095 INFO @ Fri, 26 Jun 2020 07:45:58: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:45:58: #1 finished! INFO @ Fri, 26 Jun 2020 07:45:58: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:45:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:45:58: #2 number of paired peaks: 2610 INFO @ Fri, 26 Jun 2020 07:45:58: start model_add_line... INFO @ Fri, 26 Jun 2020 07:45:58: start X-correlation... INFO @ Fri, 26 Jun 2020 07:45:58: end of X-cor INFO @ Fri, 26 Jun 2020 07:45:58: #2 finished! INFO @ Fri, 26 Jun 2020 07:45:58: #2 predicted fragment length is 183 bps INFO @ Fri, 26 Jun 2020 07:45:58: #2 alternative fragment length(s) may be 2,183 bps INFO @ Fri, 26 Jun 2020 07:45:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.10_model.r INFO @ Fri, 26 Jun 2020 07:45:58: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:45:58: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:45:59: 3000000 INFO @ Fri, 26 Jun 2020 07:46:04: 4000000 INFO @ Fri, 26 Jun 2020 07:46:07: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:46:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:46:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.05_summits.bed INFO @ Fri, 26 Jun 2020 07:46:07: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (2664 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:46:09: 5000000 INFO @ Fri, 26 Jun 2020 07:46:14: 6000000 INFO @ Fri, 26 Jun 2020 07:46:19: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:46:24: 8000000 INFO @ Fri, 26 Jun 2020 07:46:27: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:46:27: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:46:27: #1 total tags in treatment: 8526095 INFO @ Fri, 26 Jun 2020 07:46:27: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:46:27: #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 07:46:27: #1 tags after filtering in treatment: 8526095 INFO @ Fri, 26 Jun 2020 07:46:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:46:27: #1 finished! INFO @ Fri, 26 Jun 2020 07:46:27: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:46:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:46:28: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:46:28: #2 number of paired peaks: 2610 INFO @ Fri, 26 Jun 2020 07:46:28: start model_add_line... INFO @ Fri, 26 Jun 2020 07:46:28: start X-correlation... INFO @ Fri, 26 Jun 2020 07:46:28: end of X-cor INFO @ Fri, 26 Jun 2020 07:46:28: #2 finished! INFO @ Fri, 26 Jun 2020 07:46:28: #2 predicted fragment length is 183 bps INFO @ Fri, 26 Jun 2020 07:46:28: #2 alternative fragment length(s) may be 2,183 bps INFO @ Fri, 26 Jun 2020 07:46:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.20_model.r INFO @ Fri, 26 Jun 2020 07:46:28: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:46:28: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:46:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:46:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:46:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.10_summits.bed INFO @ Fri, 26 Jun 2020 07:46:41: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1204 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:46:55: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:47:07: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:47:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:47:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495007/SRX495007.20_summits.bed INFO @ Fri, 26 Jun 2020 07:47:07: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (499 records, 4 fields): 8 millis CompletedMACS2peakCalling