Job ID = 14159652 SRX = SRX8832101 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 20187825 spots for SRR12332025/SRR12332025.sra Written 20187825 spots for SRR12332025/SRR12332025.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160228 ("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: 00:03:41 20187825 reads; of these: 20187825 (100.00%) were unpaired; of these: 3152650 (15.62%) aligned 0 times 14250625 (70.59%) aligned exactly 1 time 2784550 (13.79%) aligned >1 times 84.38% overall alignment rate Time searching: 00:03:41 Overall time: 00:03:41 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] 8023978 / 17035175 = 0.4710 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 @ Wed, 08 Dec 2021 23:58:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.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 @ Wed, 08 Dec 2021 23:58:31: #1 read tag files... INFO @ Wed, 08 Dec 2021 23:58:31: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 23:58:36: 1000000 INFO @ Wed, 08 Dec 2021 23:58:41: 2000000 INFO @ Wed, 08 Dec 2021 23:58:46: 3000000 INFO @ Wed, 08 Dec 2021 23:58:51: 4000000 INFO @ Wed, 08 Dec 2021 23:58:56: 5000000 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 @ Wed, 08 Dec 2021 23:59:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.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 @ Wed, 08 Dec 2021 23:59:01: #1 read tag files... INFO @ Wed, 08 Dec 2021 23:59:01: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 23:59:01: 6000000 INFO @ Wed, 08 Dec 2021 23:59:07: 7000000 INFO @ Wed, 08 Dec 2021 23:59:08: 1000000 INFO @ Wed, 08 Dec 2021 23:59:13: 8000000 INFO @ Wed, 08 Dec 2021 23:59:14: 2000000 INFO @ Wed, 08 Dec 2021 23:59:19: 9000000 INFO @ Wed, 08 Dec 2021 23:59:19: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 23:59:19: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 23:59:19: #1 total tags in treatment: 9011197 INFO @ Wed, 08 Dec 2021 23:59:19: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 23:59:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 23:59:19: #1 tags after filtering in treatment: 9011197 INFO @ Wed, 08 Dec 2021 23:59:19: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 23:59:19: #1 finished! INFO @ Wed, 08 Dec 2021 23:59:19: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 23:59:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 23:59:20: #2 number of paired peaks: 4993 INFO @ Wed, 08 Dec 2021 23:59:20: start model_add_line... INFO @ Wed, 08 Dec 2021 23:59:20: start X-correlation... INFO @ Wed, 08 Dec 2021 23:59:20: end of X-cor INFO @ Wed, 08 Dec 2021 23:59:20: #2 finished! INFO @ Wed, 08 Dec 2021 23:59:20: #2 predicted fragment length is 140 bps INFO @ Wed, 08 Dec 2021 23:59:20: #2 alternative fragment length(s) may be 140 bps INFO @ Wed, 08 Dec 2021 23:59:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.05_model.r INFO @ Wed, 08 Dec 2021 23:59:20: #3 Call peaks... INFO @ Wed, 08 Dec 2021 23:59:20: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 23:59:21: 3000000 INFO @ Wed, 08 Dec 2021 23:59:27: 4000000 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 @ Wed, 08 Dec 2021 23:59:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.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 @ Wed, 08 Dec 2021 23:59:31: #1 read tag files... INFO @ Wed, 08 Dec 2021 23:59:31: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 23:59:34: 5000000 INFO @ Wed, 08 Dec 2021 23:59:38: 1000000 INFO @ Wed, 08 Dec 2021 23:59:40: 6000000 INFO @ Wed, 08 Dec 2021 23:59:41: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 23:59:44: 2000000 INFO @ Wed, 08 Dec 2021 23:59:47: 7000000 INFO @ Wed, 08 Dec 2021 23:59:51: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.05_peaks.xls INFO @ Wed, 08 Dec 2021 23:59:51: 3000000 INFO @ Wed, 08 Dec 2021 23:59:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 23:59:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.05_summits.bed INFO @ Wed, 08 Dec 2021 23:59:51: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (8939 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 23:59:54: 8000000 INFO @ Wed, 08 Dec 2021 23:59:57: 4000000 INFO @ Thu, 09 Dec 2021 00:00:00: 9000000 INFO @ Thu, 09 Dec 2021 00:00:00: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:00:00: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:00:00: #1 total tags in treatment: 9011197 INFO @ Thu, 09 Dec 2021 00:00:00: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:00:00: #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 00:00:00: #1 tags after filtering in treatment: 9011197 INFO @ Thu, 09 Dec 2021 00:00:00: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:00:00: #1 finished! INFO @ Thu, 09 Dec 2021 00:00:00: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:00:00: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:00:01: #2 number of paired peaks: 4993 INFO @ Thu, 09 Dec 2021 00:00:01: start model_add_line... INFO @ Thu, 09 Dec 2021 00:00:02: start X-correlation... INFO @ Thu, 09 Dec 2021 00:00:02: end of X-cor INFO @ Thu, 09 Dec 2021 00:00:02: #2 finished! INFO @ Thu, 09 Dec 2021 00:00:02: #2 predicted fragment length is 140 bps INFO @ Thu, 09 Dec 2021 00:00:02: #2 alternative fragment length(s) may be 140 bps INFO @ Thu, 09 Dec 2021 00:00:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.10_model.r INFO @ Thu, 09 Dec 2021 00:00:02: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:00:02: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:00:04: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 00:00:10: 6000000 INFO @ Thu, 09 Dec 2021 00:00:16: 7000000 INFO @ Thu, 09 Dec 2021 00:00:22: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:00:23: 8000000 BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 00:00:29: 9000000 INFO @ Thu, 09 Dec 2021 00:00:29: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:00:29: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:00:29: #1 total tags in treatment: 9011197 INFO @ Thu, 09 Dec 2021 00:00:29: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:00:29: #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 00:00:29: #1 tags after filtering in treatment: 9011197 INFO @ Thu, 09 Dec 2021 00:00:29: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:00:29: #1 finished! INFO @ Thu, 09 Dec 2021 00:00:29: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:00:29: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:00:30: #2 number of paired peaks: 4993 INFO @ Thu, 09 Dec 2021 00:00:30: start model_add_line... INFO @ Thu, 09 Dec 2021 00:00:30: start X-correlation... INFO @ Thu, 09 Dec 2021 00:00:30: end of X-cor INFO @ Thu, 09 Dec 2021 00:00:30: #2 finished! INFO @ Thu, 09 Dec 2021 00:00:30: #2 predicted fragment length is 140 bps INFO @ Thu, 09 Dec 2021 00:00:30: #2 alternative fragment length(s) may be 140 bps INFO @ Thu, 09 Dec 2021 00:00:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.20_model.r INFO @ Thu, 09 Dec 2021 00:00:30: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:00:30: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:00:32: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.10_peaks.xls INFO @ Thu, 09 Dec 2021 00:00:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:00:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.10_summits.bed INFO @ Thu, 09 Dec 2021 00:00:32: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7293 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:00:51: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:01:00: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.20_peaks.xls INFO @ Thu, 09 Dec 2021 00:01:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:01:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.20_summits.bed INFO @ Thu, 09 Dec 2021 00:01:00: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5675 records, 4 fields): 7 millis CompletedMACS2peakCalling