Job ID = 14159655 SRX = SRX8832104 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 18341985 spots for SRR12332028/SRR12332028.sra Written 18341985 spots for SRR12332028/SRR12332028.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160232 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:51 18341985 reads; of these: 18341985 (100.00%) were unpaired; of these: 802196 (4.37%) aligned 0 times 14611664 (79.66%) aligned exactly 1 time 2928125 (15.96%) aligned >1 times 95.63% overall alignment rate Time searching: 00:03:51 Overall time: 00:03:51 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] 8219952 / 17539789 = 0.4686 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 00:00:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.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 @ Thu, 09 Dec 2021 00:00:43: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:00:43: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:00:50: 1000000 INFO @ Thu, 09 Dec 2021 00:00:57: 2000000 INFO @ Thu, 09 Dec 2021 00:01:03: 3000000 INFO @ Thu, 09 Dec 2021 00:01:10: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 00:01:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.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 @ Thu, 09 Dec 2021 00:01:13: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:01:13: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:01:17: 5000000 INFO @ Thu, 09 Dec 2021 00:01:20: 1000000 INFO @ Thu, 09 Dec 2021 00:01:24: 6000000 INFO @ Thu, 09 Dec 2021 00:01:27: 2000000 INFO @ Thu, 09 Dec 2021 00:01:31: 7000000 INFO @ Thu, 09 Dec 2021 00:01:34: 3000000 INFO @ Thu, 09 Dec 2021 00:01:38: 8000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 00:01:41: 4000000 INFO @ Thu, 09 Dec 2021 00:01:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.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 @ Thu, 09 Dec 2021 00:01:43: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:01:43: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:01:45: 9000000 INFO @ Thu, 09 Dec 2021 00:01:47: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:01:47: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:01:47: #1 total tags in treatment: 9319837 INFO @ Thu, 09 Dec 2021 00:01:47: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:01:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 00:01:47: #1 tags after filtering in treatment: 9319837 INFO @ Thu, 09 Dec 2021 00:01:47: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:01:47: #1 finished! INFO @ Thu, 09 Dec 2021 00:01:47: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:01:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:01:48: #2 number of paired peaks: 3602 INFO @ Thu, 09 Dec 2021 00:01:48: start model_add_line... INFO @ Thu, 09 Dec 2021 00:01:48: start X-correlation... INFO @ Thu, 09 Dec 2021 00:01:48: end of X-cor INFO @ Thu, 09 Dec 2021 00:01:48: #2 finished! INFO @ Thu, 09 Dec 2021 00:01:48: #2 predicted fragment length is 157 bps INFO @ Thu, 09 Dec 2021 00:01:48: #2 alternative fragment length(s) may be 157 bps INFO @ Thu, 09 Dec 2021 00:01:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.05_model.r INFO @ Thu, 09 Dec 2021 00:01:48: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:01:48: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:01:48: 5000000 INFO @ Thu, 09 Dec 2021 00:01:49: 1000000 INFO @ Thu, 09 Dec 2021 00:01:56: 6000000 INFO @ Thu, 09 Dec 2021 00:01:56: 2000000 INFO @ Thu, 09 Dec 2021 00:02:02: 3000000 INFO @ Thu, 09 Dec 2021 00:02:03: 7000000 INFO @ Thu, 09 Dec 2021 00:02:09: 4000000 INFO @ Thu, 09 Dec 2021 00:02:09: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:02:10: 8000000 INFO @ Thu, 09 Dec 2021 00:02:15: 5000000 INFO @ Thu, 09 Dec 2021 00:02:17: 9000000 INFO @ Thu, 09 Dec 2021 00:02:19: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.05_peaks.xls INFO @ Thu, 09 Dec 2021 00:02:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:02:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.05_summits.bed INFO @ Thu, 09 Dec 2021 00:02:19: Done! INFO @ Thu, 09 Dec 2021 00:02:19: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:02:19: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:02:19: #1 total tags in treatment: 9319837 INFO @ Thu, 09 Dec 2021 00:02:19: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:02:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6494 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:02:19: #1 tags after filtering in treatment: 9319837 INFO @ Thu, 09 Dec 2021 00:02:19: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:02:19: #1 finished! INFO @ Thu, 09 Dec 2021 00:02:19: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:02:19: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:02:20: #2 number of paired peaks: 3602 INFO @ Thu, 09 Dec 2021 00:02:20: start model_add_line... INFO @ Thu, 09 Dec 2021 00:02:20: start X-correlation... INFO @ Thu, 09 Dec 2021 00:02:20: end of X-cor INFO @ Thu, 09 Dec 2021 00:02:20: #2 finished! INFO @ Thu, 09 Dec 2021 00:02:20: #2 predicted fragment length is 157 bps INFO @ Thu, 09 Dec 2021 00:02:20: #2 alternative fragment length(s) may be 157 bps INFO @ Thu, 09 Dec 2021 00:02:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.10_model.r INFO @ Thu, 09 Dec 2021 00:02:20: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:02:20: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:02:22: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 00:02:28: 7000000 INFO @ Thu, 09 Dec 2021 00:02:34: 8000000 INFO @ Thu, 09 Dec 2021 00:02:40: 9000000 BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 00:02:41: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:02:41: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:02:41: #1 total tags in treatment: 9319837 INFO @ Thu, 09 Dec 2021 00:02:41: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:02:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 00:02:42: #1 tags after filtering in treatment: 9319837 INFO @ Thu, 09 Dec 2021 00:02:42: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:02:42: #1 finished! INFO @ Thu, 09 Dec 2021 00:02:42: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:02:42: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:02:42: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:02:42: #2 number of paired peaks: 3602 INFO @ Thu, 09 Dec 2021 00:02:42: start model_add_line... INFO @ Thu, 09 Dec 2021 00:02:43: start X-correlation... INFO @ Thu, 09 Dec 2021 00:02:43: end of X-cor INFO @ Thu, 09 Dec 2021 00:02:43: #2 finished! INFO @ Thu, 09 Dec 2021 00:02:43: #2 predicted fragment length is 157 bps INFO @ Thu, 09 Dec 2021 00:02:43: #2 alternative fragment length(s) may be 157 bps INFO @ Thu, 09 Dec 2021 00:02:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.20_model.r INFO @ Thu, 09 Dec 2021 00:02:43: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:02:43: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:02:52: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.10_peaks.xls INFO @ Thu, 09 Dec 2021 00:02:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:02:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.10_summits.bed INFO @ Thu, 09 Dec 2021 00:02:52: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5357 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:03:05: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:03:14: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.20_peaks.xls INFO @ Thu, 09 Dec 2021 00:03:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:03:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832104/SRX8832104.20_summits.bed INFO @ Thu, 09 Dec 2021 00:03:14: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4288 records, 4 fields): 6 millis CompletedMACS2peakCalling