Job ID = 14159665 SRX = SRX8832107 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 17053745 spots for SRR12332031/SRR12332031.sra Written 17053745 spots for SRR12332031/SRR12332031.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160272 ("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: 00:03:26 17053745 reads; of these: 17053745 (100.00%) were unpaired; of these: 2145932 (12.58%) aligned 0 times 12293849 (72.09%) aligned exactly 1 time 2613964 (15.33%) aligned >1 times 87.42% overall alignment rate Time searching: 00:03:26 Overall time: 00:03:26 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] 6096679 / 14907813 = 0.4090 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 00:17:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.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 00:17:03: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:17:03: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:17:10: 1000000 INFO @ Thu, 09 Dec 2021 00:17:16: 2000000 INFO @ Thu, 09 Dec 2021 00:17:22: 3000000 INFO @ Thu, 09 Dec 2021 00:17:28: 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 00:17:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.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 00:17:33: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:17:33: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:17:34: 5000000 INFO @ Thu, 09 Dec 2021 00:17:39: 1000000 INFO @ Thu, 09 Dec 2021 00:17:41: 6000000 INFO @ Thu, 09 Dec 2021 00:17:46: 2000000 INFO @ Thu, 09 Dec 2021 00:17:48: 7000000 INFO @ Thu, 09 Dec 2021 00:17:52: 3000000 INFO @ Thu, 09 Dec 2021 00:17:54: 8000000 INFO @ Thu, 09 Dec 2021 00:17:58: 4000000 INFO @ Thu, 09 Dec 2021 00:18:00: #1 tag size is determined as 49 bps INFO @ Thu, 09 Dec 2021 00:18:00: #1 tag size = 49 INFO @ Thu, 09 Dec 2021 00:18:00: #1 total tags in treatment: 8811134 INFO @ Thu, 09 Dec 2021 00:18:00: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:18:00: #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 00:18:00: #1 tags after filtering in treatment: 8811134 INFO @ Thu, 09 Dec 2021 00:18:00: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:18:00: #1 finished! INFO @ Thu, 09 Dec 2021 00:18:00: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:18:00: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:18:00: #2 number of paired peaks: 3497 INFO @ Thu, 09 Dec 2021 00:18:00: start model_add_line... INFO @ Thu, 09 Dec 2021 00:18:01: start X-correlation... INFO @ Thu, 09 Dec 2021 00:18:01: end of X-cor INFO @ Thu, 09 Dec 2021 00:18:01: #2 finished! INFO @ Thu, 09 Dec 2021 00:18:01: #2 predicted fragment length is 131 bps INFO @ Thu, 09 Dec 2021 00:18:01: #2 alternative fragment length(s) may be 131 bps INFO @ Thu, 09 Dec 2021 00:18:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.05_model.r INFO @ Thu, 09 Dec 2021 00:18:01: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:18:01: #3 Pre-compute pvalue-qvalue table... 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 00:18:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.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 00:18:03: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:18:03: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:18:05: 5000000 INFO @ Thu, 09 Dec 2021 00:18:09: 1000000 INFO @ Thu, 09 Dec 2021 00:18:11: 6000000 INFO @ Thu, 09 Dec 2021 00:18:15: 2000000 INFO @ Thu, 09 Dec 2021 00:18:17: 7000000 INFO @ Thu, 09 Dec 2021 00:18:20: 3000000 INFO @ Thu, 09 Dec 2021 00:18:21: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:18:23: 8000000 INFO @ Thu, 09 Dec 2021 00:18:26: 4000000 INFO @ Thu, 09 Dec 2021 00:18:29: #1 tag size is determined as 49 bps INFO @ Thu, 09 Dec 2021 00:18:29: #1 tag size = 49 INFO @ Thu, 09 Dec 2021 00:18:29: #1 total tags in treatment: 8811134 INFO @ Thu, 09 Dec 2021 00:18:29: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:18:29: #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 00:18:29: #1 tags after filtering in treatment: 8811134 INFO @ Thu, 09 Dec 2021 00:18:29: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:18:29: #1 finished! INFO @ Thu, 09 Dec 2021 00:18:29: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:18:29: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:18:29: #2 number of paired peaks: 3497 INFO @ Thu, 09 Dec 2021 00:18:29: start model_add_line... INFO @ Thu, 09 Dec 2021 00:18:30: start X-correlation... INFO @ Thu, 09 Dec 2021 00:18:30: end of X-cor INFO @ Thu, 09 Dec 2021 00:18:30: #2 finished! INFO @ Thu, 09 Dec 2021 00:18:30: #2 predicted fragment length is 131 bps INFO @ Thu, 09 Dec 2021 00:18:30: #2 alternative fragment length(s) may be 131 bps INFO @ Thu, 09 Dec 2021 00:18:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.10_model.r INFO @ Thu, 09 Dec 2021 00:18:30: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:18:30: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:18:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.05_peaks.xls INFO @ Thu, 09 Dec 2021 00:18:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:18:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.05_summits.bed INFO @ Thu, 09 Dec 2021 00:18:30: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (9220 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:18:31: 5000000 INFO @ Thu, 09 Dec 2021 00:18:37: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 00:18:42: 7000000 INFO @ Thu, 09 Dec 2021 00:18:47: 8000000 INFO @ Thu, 09 Dec 2021 00:18:49: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:18:51: #1 tag size is determined as 49 bps INFO @ Thu, 09 Dec 2021 00:18:51: #1 tag size = 49 INFO @ Thu, 09 Dec 2021 00:18:51: #1 total tags in treatment: 8811134 INFO @ Thu, 09 Dec 2021 00:18:51: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:18:51: #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 00:18:51: #1 tags after filtering in treatment: 8811134 INFO @ Thu, 09 Dec 2021 00:18:51: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:18:51: #1 finished! INFO @ Thu, 09 Dec 2021 00:18:51: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:18:51: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:18:52: #2 number of paired peaks: 3497 INFO @ Thu, 09 Dec 2021 00:18:52: start model_add_line... INFO @ Thu, 09 Dec 2021 00:18:52: start X-correlation... INFO @ Thu, 09 Dec 2021 00:18:52: end of X-cor INFO @ Thu, 09 Dec 2021 00:18:52: #2 finished! INFO @ Thu, 09 Dec 2021 00:18:52: #2 predicted fragment length is 131 bps INFO @ Thu, 09 Dec 2021 00:18:52: #2 alternative fragment length(s) may be 131 bps INFO @ Thu, 09 Dec 2021 00:18:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.20_model.r INFO @ Thu, 09 Dec 2021 00:18:52: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:18:52: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 00:18:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.10_peaks.xls INFO @ Thu, 09 Dec 2021 00:18:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:18:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.10_summits.bed INFO @ Thu, 09 Dec 2021 00:18:59: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7259 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:19:12: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:19:21: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.20_peaks.xls INFO @ Thu, 09 Dec 2021 00:19:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:19:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832107/SRX8832107.20_summits.bed INFO @ Thu, 09 Dec 2021 00:19:21: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5408 records, 4 fields): 6 millis CompletedMACS2peakCalling