Job ID = 14159653 SRX = SRX8832102 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 18464781 spots for SRR12332026/SRR12332026.sra Written 18464781 spots for SRR12332026/SRR12332026.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160229 ("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: 00:04:04 18464781 reads; of these: 18464781 (100.00%) were unpaired; of these: 2399867 (13.00%) aligned 0 times 13535286 (73.30%) aligned exactly 1 time 2529628 (13.70%) aligned >1 times 87.00% overall alignment rate Time searching: 00:04:04 Overall time: 00:04:04 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] 7974725 / 16064914 = 0.4964 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 23:58:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.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 23:58:33: #1 read tag files... INFO @ Wed, 08 Dec 2021 23:58:33: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 23:58:39: 1000000 INFO @ Wed, 08 Dec 2021 23:58:44: 2000000 INFO @ Wed, 08 Dec 2021 23:58:49: 3000000 INFO @ Wed, 08 Dec 2021 23:58:54: 4000000 INFO @ Wed, 08 Dec 2021 23:58:59: 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 23:59:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.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 23:59:03: #1 read tag files... INFO @ Wed, 08 Dec 2021 23:59:03: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 23:59:05: 6000000 INFO @ Wed, 08 Dec 2021 23:59:09: 1000000 INFO @ Wed, 08 Dec 2021 23:59:10: 7000000 INFO @ Wed, 08 Dec 2021 23:59:15: 2000000 INFO @ Wed, 08 Dec 2021 23:59:16: 8000000 INFO @ Wed, 08 Dec 2021 23:59:17: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 23:59:17: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 23:59:17: #1 total tags in treatment: 8090189 INFO @ Wed, 08 Dec 2021 23:59:17: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 23:59:17: #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 23:59:17: #1 tags after filtering in treatment: 8090189 INFO @ Wed, 08 Dec 2021 23:59:17: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 23:59:17: #1 finished! INFO @ Wed, 08 Dec 2021 23:59:17: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 23:59:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 23:59:18: #2 number of paired peaks: 5495 INFO @ Wed, 08 Dec 2021 23:59:18: start model_add_line... INFO @ Wed, 08 Dec 2021 23:59:18: start X-correlation... INFO @ Wed, 08 Dec 2021 23:59:18: end of X-cor INFO @ Wed, 08 Dec 2021 23:59:18: #2 finished! INFO @ Wed, 08 Dec 2021 23:59:18: #2 predicted fragment length is 164 bps INFO @ Wed, 08 Dec 2021 23:59:18: #2 alternative fragment length(s) may be 164 bps INFO @ Wed, 08 Dec 2021 23:59:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.05_model.r INFO @ Wed, 08 Dec 2021 23:59:18: #3 Call peaks... INFO @ Wed, 08 Dec 2021 23:59:18: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 23:59:20: 3000000 INFO @ Wed, 08 Dec 2021 23:59:25: 4000000 INFO @ Wed, 08 Dec 2021 23:59:30: 5000000 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 23:59:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.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 23:59:33: #1 read tag files... INFO @ Wed, 08 Dec 2021 23:59:33: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 23:59:36: 6000000 INFO @ Wed, 08 Dec 2021 23:59:39: 1000000 INFO @ Wed, 08 Dec 2021 23:59:39: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 23:59:42: 7000000 INFO @ Wed, 08 Dec 2021 23:59:45: 2000000 INFO @ Wed, 08 Dec 2021 23:59:48: 8000000 INFO @ Wed, 08 Dec 2021 23:59:49: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 23:59:49: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 23:59:49: #1 total tags in treatment: 8090189 INFO @ Wed, 08 Dec 2021 23:59:49: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 23:59:49: #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 23:59:49: #1 tags after filtering in treatment: 8090189 INFO @ Wed, 08 Dec 2021 23:59:49: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 23:59:49: #1 finished! INFO @ Wed, 08 Dec 2021 23:59:49: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 23:59:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 23:59:50: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.05_peaks.xls INFO @ Wed, 08 Dec 2021 23:59:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 23:59:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.05_summits.bed INFO @ Wed, 08 Dec 2021 23:59:50: Done! INFO @ Wed, 08 Dec 2021 23:59:50: #2 number of paired peaks: 5495 INFO @ Wed, 08 Dec 2021 23:59:50: start model_add_line... INFO @ Wed, 08 Dec 2021 23:59:50: start X-correlation... INFO @ Wed, 08 Dec 2021 23:59:50: end of X-cor INFO @ Wed, 08 Dec 2021 23:59:50: #2 finished! INFO @ Wed, 08 Dec 2021 23:59:50: #2 predicted fragment length is 164 bps INFO @ Wed, 08 Dec 2021 23:59:50: #2 alternative fragment length(s) may be 164 bps INFO @ Wed, 08 Dec 2021 23:59:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.10_model.r INFO @ Wed, 08 Dec 2021 23:59:50: #3 Call peaks... pass1 - making usageList (7 chroms): 2 millis INFO @ Wed, 08 Dec 2021 23:59:50: #3 Pre-compute pvalue-qvalue table... pass2 - checking and writing primary data (8691 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 23:59:51: 3000000 INFO @ Wed, 08 Dec 2021 23:59:56: 4000000 INFO @ Thu, 09 Dec 2021 00:00:01: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 00:00:07: 6000000 INFO @ Thu, 09 Dec 2021 00:00:10: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:00:12: 7000000 INFO @ Thu, 09 Dec 2021 00:00:17: 8000000 INFO @ Thu, 09 Dec 2021 00:00:17: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:00:17: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:00:17: #1 total tags in treatment: 8090189 INFO @ Thu, 09 Dec 2021 00:00:17: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:00:17: #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 00:00:18: #1 tags after filtering in treatment: 8090189 INFO @ Thu, 09 Dec 2021 00:00:18: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:00:18: #1 finished! INFO @ Thu, 09 Dec 2021 00:00:18: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:00:18: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:00:18: #2 number of paired peaks: 5495 INFO @ Thu, 09 Dec 2021 00:00:18: start model_add_line... INFO @ Thu, 09 Dec 2021 00:00:19: start X-correlation... INFO @ Thu, 09 Dec 2021 00:00:19: end of X-cor INFO @ Thu, 09 Dec 2021 00:00:19: #2 finished! INFO @ Thu, 09 Dec 2021 00:00:19: #2 predicted fragment length is 164 bps INFO @ Thu, 09 Dec 2021 00:00:19: #2 alternative fragment length(s) may be 164 bps INFO @ Thu, 09 Dec 2021 00:00:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.20_model.r INFO @ Thu, 09 Dec 2021 00:00:19: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:00:19: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 00:00:20: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.10_peaks.xls INFO @ Thu, 09 Dec 2021 00:00:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:00:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.10_summits.bed INFO @ Thu, 09 Dec 2021 00:00:20: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7089 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:00:40: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:00:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.20_peaks.xls INFO @ Thu, 09 Dec 2021 00:00:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:00:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832102/SRX8832102.20_summits.bed INFO @ Thu, 09 Dec 2021 00:00:49: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5527 records, 4 fields): 7 millis CompletedMACS2peakCalling