Job ID = 10165752 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 10166015 ("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: 00:03:46 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: 00:03:46 Overall time: 00:03:46 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 19:55:36: # 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 @ Thu, 08 Oct 2020 19:55:36: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:55:36: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:55:41: 1000000 INFO @ Thu, 08 Oct 2020 19:55:47: 2000000 INFO @ Thu, 08 Oct 2020 19:55:52: 3000000 INFO @ Thu, 08 Oct 2020 19:55:58: 4000000 INFO @ Thu, 08 Oct 2020 19:56:03: 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 @ Thu, 08 Oct 2020 19:56:06: # 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 @ Thu, 08 Oct 2020 19:56:06: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:56:06: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:56:09: 6000000 INFO @ Thu, 08 Oct 2020 19:56:12: 1000000 INFO @ Thu, 08 Oct 2020 19:56:15: 7000000 INFO @ Thu, 08 Oct 2020 19:56:18: 2000000 INFO @ Thu, 08 Oct 2020 19:56:21: 8000000 INFO @ Thu, 08 Oct 2020 19:56:24: 3000000 INFO @ Thu, 08 Oct 2020 19:56:26: 9000000 INFO @ Thu, 08 Oct 2020 19:56:27: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:56:27: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:56:27: #1 total tags in treatment: 9011197 INFO @ Thu, 08 Oct 2020 19:56:27: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:56:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:56:27: #1 tags after filtering in treatment: 9011197 INFO @ Thu, 08 Oct 2020 19:56:27: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:56:27: #1 finished! INFO @ Thu, 08 Oct 2020 19:56:27: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:56:27: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:56:28: #2 number of paired peaks: 4993 INFO @ Thu, 08 Oct 2020 19:56:28: start model_add_line... INFO @ Thu, 08 Oct 2020 19:56:28: start X-correlation... INFO @ Thu, 08 Oct 2020 19:56:28: end of X-cor INFO @ Thu, 08 Oct 2020 19:56:28: #2 finished! INFO @ Thu, 08 Oct 2020 19:56:28: #2 predicted fragment length is 140 bps INFO @ Thu, 08 Oct 2020 19:56:28: #2 alternative fragment length(s) may be 140 bps INFO @ Thu, 08 Oct 2020 19:56:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.05_model.r INFO @ Thu, 08 Oct 2020 19:56:28: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:56:28: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:56:29: 4000000 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 @ Thu, 08 Oct 2020 19:56:35: 5000000 INFO @ Thu, 08 Oct 2020 19:56:36: # 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 @ Thu, 08 Oct 2020 19:56:36: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:56:36: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:56:41: 6000000 INFO @ Thu, 08 Oct 2020 19:56:42: 1000000 INFO @ Thu, 08 Oct 2020 19:56:47: 7000000 INFO @ Thu, 08 Oct 2020 19:56:48: 2000000 INFO @ Thu, 08 Oct 2020 19:56:51: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:56:53: 8000000 INFO @ Thu, 08 Oct 2020 19:56:54: 3000000 INFO @ Thu, 08 Oct 2020 19:56:59: 9000000 INFO @ Thu, 08 Oct 2020 19:56:59: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:56:59: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:56:59: #1 total tags in treatment: 9011197 INFO @ Thu, 08 Oct 2020 19:56:59: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:56:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:56:59: #1 tags after filtering in treatment: 9011197 INFO @ Thu, 08 Oct 2020 19:56:59: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:56:59: #1 finished! INFO @ Thu, 08 Oct 2020 19:56:59: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:56:59: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:57:00: 4000000 INFO @ Thu, 08 Oct 2020 19:57:00: #2 number of paired peaks: 4993 INFO @ Thu, 08 Oct 2020 19:57:00: start model_add_line... INFO @ Thu, 08 Oct 2020 19:57:00: start X-correlation... INFO @ Thu, 08 Oct 2020 19:57:00: end of X-cor INFO @ Thu, 08 Oct 2020 19:57:00: #2 finished! INFO @ Thu, 08 Oct 2020 19:57:00: #2 predicted fragment length is 140 bps INFO @ Thu, 08 Oct 2020 19:57:00: #2 alternative fragment length(s) may be 140 bps INFO @ Thu, 08 Oct 2020 19:57:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.10_model.r INFO @ Thu, 08 Oct 2020 19:57:00: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:57:00: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:57:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:57:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:57:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.05_summits.bed INFO @ Thu, 08 Oct 2020 19:57:02: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (8939 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:57:05: 5000000 INFO @ Thu, 08 Oct 2020 19:57:11: 6000000 INFO @ Thu, 08 Oct 2020 19:57:16: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:57:22: 8000000 INFO @ Thu, 08 Oct 2020 19:57:23: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:57:27: 9000000 INFO @ Thu, 08 Oct 2020 19:57:27: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:57:27: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:57:27: #1 total tags in treatment: 9011197 INFO @ Thu, 08 Oct 2020 19:57:27: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:57:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:57:28: #1 tags after filtering in treatment: 9011197 INFO @ Thu, 08 Oct 2020 19:57:28: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:57:28: #1 finished! INFO @ Thu, 08 Oct 2020 19:57:28: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:57:28: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:57:29: #2 number of paired peaks: 4993 INFO @ Thu, 08 Oct 2020 19:57:29: start model_add_line... INFO @ Thu, 08 Oct 2020 19:57:29: start X-correlation... INFO @ Thu, 08 Oct 2020 19:57:29: end of X-cor INFO @ Thu, 08 Oct 2020 19:57:29: #2 finished! INFO @ Thu, 08 Oct 2020 19:57:29: #2 predicted fragment length is 140 bps INFO @ Thu, 08 Oct 2020 19:57:29: #2 alternative fragment length(s) may be 140 bps INFO @ Thu, 08 Oct 2020 19:57:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.20_model.r INFO @ Thu, 08 Oct 2020 19:57:29: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:57:29: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:57:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:57:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:57:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.10_summits.bed INFO @ Thu, 08 Oct 2020 19:57:33: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7293 records, 4 fields): 11 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:57:51: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:58:01: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:58:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:58:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832101/SRX8832101.20_summits.bed INFO @ Thu, 08 Oct 2020 19:58:01: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5675 records, 4 fields): 8 millis CompletedMACS2peakCalling