Job ID = 10165721 SRX = SRX8832080 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13036679 spots for SRR12332038/SRR12332038.sra Written 13036679 spots for SRR12332038/SRR12332038.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165920 ("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: 00:02:57 13036679 reads; of these: 13036679 (100.00%) were unpaired; of these: 1364456 (10.47%) aligned 0 times 9619014 (73.78%) aligned exactly 1 time 2053209 (15.75%) aligned >1 times 89.53% overall alignment rate Time searching: 00:02:57 Overall time: 00:02:57 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] 2774316 / 11672223 = 0.2377 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 19:45:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.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 19:45:37: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:45:37: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:45:43: 1000000 INFO @ Thu, 08 Oct 2020 19:45:49: 2000000 INFO @ Thu, 08 Oct 2020 19:45:55: 3000000 INFO @ Thu, 08 Oct 2020 19:46:00: 4000000 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 19:46:06: 5000000 INFO @ Thu, 08 Oct 2020 19:46:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.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 19:46:07: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:46:07: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:46:12: 6000000 INFO @ Thu, 08 Oct 2020 19:46:13: 1000000 INFO @ Thu, 08 Oct 2020 19:46:18: 7000000 INFO @ Thu, 08 Oct 2020 19:46:19: 2000000 INFO @ Thu, 08 Oct 2020 19:46:25: 8000000 INFO @ Thu, 08 Oct 2020 19:46:26: 3000000 INFO @ Thu, 08 Oct 2020 19:46:30: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:46:30: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:46:30: #1 total tags in treatment: 8897907 INFO @ Thu, 08 Oct 2020 19:46:30: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:46:30: #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 19:46:30: #1 tags after filtering in treatment: 8897907 INFO @ Thu, 08 Oct 2020 19:46:30: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:46:30: #1 finished! INFO @ Thu, 08 Oct 2020 19:46:30: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:46:30: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:46:31: #2 number of paired peaks: 2402 INFO @ Thu, 08 Oct 2020 19:46:31: start model_add_line... INFO @ Thu, 08 Oct 2020 19:46:31: start X-correlation... INFO @ Thu, 08 Oct 2020 19:46:31: end of X-cor INFO @ Thu, 08 Oct 2020 19:46:31: #2 finished! INFO @ Thu, 08 Oct 2020 19:46:31: #2 predicted fragment length is 148 bps INFO @ Thu, 08 Oct 2020 19:46:31: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 08 Oct 2020 19:46:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05_model.r INFO @ Thu, 08 Oct 2020 19:46:31: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:46:31: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:46:32: 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 19:46:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.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 19:46:37: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:46:37: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:46:38: 5000000 INFO @ Thu, 08 Oct 2020 19:46:43: 1000000 INFO @ Thu, 08 Oct 2020 19:46:44: 6000000 INFO @ Thu, 08 Oct 2020 19:46:50: 2000000 INFO @ Thu, 08 Oct 2020 19:46:50: 7000000 INFO @ Thu, 08 Oct 2020 19:46:52: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:46:56: 3000000 INFO @ Thu, 08 Oct 2020 19:46:56: 8000000 INFO @ Thu, 08 Oct 2020 19:47:02: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:47:02: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:47:02: #1 total tags in treatment: 8897907 INFO @ Thu, 08 Oct 2020 19:47:02: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:47:02: #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 19:47:02: #1 tags after filtering in treatment: 8897907 INFO @ Thu, 08 Oct 2020 19:47:02: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:47:02: #1 finished! INFO @ Thu, 08 Oct 2020 19:47:02: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:47:02: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:47:02: 4000000 INFO @ Thu, 08 Oct 2020 19:47:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:47:03: #2 number of paired peaks: 2402 INFO @ Thu, 08 Oct 2020 19:47:03: start model_add_line... INFO @ Thu, 08 Oct 2020 19:47:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:47:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05_summits.bed INFO @ Thu, 08 Oct 2020 19:47:03: Done! INFO @ Thu, 08 Oct 2020 19:47:03: start X-correlation... INFO @ Thu, 08 Oct 2020 19:47:03: end of X-cor INFO @ Thu, 08 Oct 2020 19:47:03: #2 finished! INFO @ Thu, 08 Oct 2020 19:47:03: #2 predicted fragment length is 148 bps INFO @ Thu, 08 Oct 2020 19:47:03: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 08 Oct 2020 19:47:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10_model.r INFO @ Thu, 08 Oct 2020 19:47:03: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:47:03: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7272 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:47:08: 5000000 INFO @ Thu, 08 Oct 2020 19:47:13: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:47:19: 7000000 INFO @ Thu, 08 Oct 2020 19:47:24: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:47:24: 8000000 INFO @ Thu, 08 Oct 2020 19:47:29: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:47:29: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:47:29: #1 total tags in treatment: 8897907 INFO @ Thu, 08 Oct 2020 19:47:29: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:47:29: #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 19:47:29: #1 tags after filtering in treatment: 8897907 INFO @ Thu, 08 Oct 2020 19:47:29: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:47:29: #1 finished! INFO @ Thu, 08 Oct 2020 19:47:29: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:47:29: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:47:30: #2 number of paired peaks: 2402 INFO @ Thu, 08 Oct 2020 19:47:30: start model_add_line... INFO @ Thu, 08 Oct 2020 19:47:30: start X-correlation... INFO @ Thu, 08 Oct 2020 19:47:30: end of X-cor INFO @ Thu, 08 Oct 2020 19:47:30: #2 finished! INFO @ Thu, 08 Oct 2020 19:47:30: #2 predicted fragment length is 148 bps INFO @ Thu, 08 Oct 2020 19:47:30: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 08 Oct 2020 19:47:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20_model.r INFO @ Thu, 08 Oct 2020 19:47:30: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:47:30: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:47:34: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:47:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:47:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10_summits.bed INFO @ Thu, 08 Oct 2020 19:47:34: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5745 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:47:50: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:47:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:47:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:47:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20_summits.bed INFO @ Thu, 08 Oct 2020 19:47:59: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4271 records, 4 fields): 6 millis CompletedMACS2peakCalling