Job ID = 10165700 SRX = SRX8832070 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13358170 spots for SRR12332012/SRR12332012.sra Written 13358170 spots for SRR12332012/SRR12332012.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165833 ("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: 00:02:48 13358170 reads; of these: 13358170 (100.00%) were unpaired; of these: 372943 (2.79%) aligned 0 times 11237332 (84.12%) aligned exactly 1 time 1747895 (13.08%) aligned >1 times 97.21% overall alignment rate Time searching: 00:02:48 Overall time: 00:02:48 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] 1613979 / 12985227 = 0.1243 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 19:42:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.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 19:42:32: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:42:32: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:42:38: 1000000 INFO @ Thu, 08 Oct 2020 19:42:43: 2000000 INFO @ Thu, 08 Oct 2020 19:42:49: 3000000 INFO @ Thu, 08 Oct 2020 19:42:54: 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 19:42:59: 5000000 INFO @ Thu, 08 Oct 2020 19:43:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.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 19:43:02: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:43:02: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:43:05: 6000000 INFO @ Thu, 08 Oct 2020 19:43:08: 1000000 INFO @ Thu, 08 Oct 2020 19:43:11: 7000000 INFO @ Thu, 08 Oct 2020 19:43:13: 2000000 INFO @ Thu, 08 Oct 2020 19:43:16: 8000000 INFO @ Thu, 08 Oct 2020 19:43:19: 3000000 INFO @ Thu, 08 Oct 2020 19:43:22: 9000000 INFO @ Thu, 08 Oct 2020 19:43:25: 4000000 INFO @ Thu, 08 Oct 2020 19:43:27: 10000000 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 19:43:30: 5000000 INFO @ Thu, 08 Oct 2020 19:43:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.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 19:43:32: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:43:32: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:43:33: 11000000 INFO @ Thu, 08 Oct 2020 19:43:35: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:43:35: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:43:35: #1 total tags in treatment: 11371248 INFO @ Thu, 08 Oct 2020 19:43:35: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:43:35: #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 19:43:36: #1 tags after filtering in treatment: 11371248 INFO @ Thu, 08 Oct 2020 19:43:36: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:43:36: #1 finished! INFO @ Thu, 08 Oct 2020 19:43:36: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:43:36: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:43:36: 6000000 INFO @ Thu, 08 Oct 2020 19:43:37: #2 number of paired peaks: 2091 INFO @ Thu, 08 Oct 2020 19:43:37: start model_add_line... INFO @ Thu, 08 Oct 2020 19:43:37: start X-correlation... INFO @ Thu, 08 Oct 2020 19:43:37: end of X-cor INFO @ Thu, 08 Oct 2020 19:43:37: #2 finished! INFO @ Thu, 08 Oct 2020 19:43:37: #2 predicted fragment length is 157 bps INFO @ Thu, 08 Oct 2020 19:43:37: #2 alternative fragment length(s) may be 4,157 bps INFO @ Thu, 08 Oct 2020 19:43:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.05_model.r INFO @ Thu, 08 Oct 2020 19:43:37: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:43:37: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:43:38: 1000000 INFO @ Thu, 08 Oct 2020 19:43:42: 7000000 INFO @ Thu, 08 Oct 2020 19:43:44: 2000000 INFO @ Thu, 08 Oct 2020 19:43:48: 8000000 INFO @ Thu, 08 Oct 2020 19:43:51: 3000000 INFO @ Thu, 08 Oct 2020 19:43:53: 9000000 INFO @ Thu, 08 Oct 2020 19:43:57: 4000000 INFO @ Thu, 08 Oct 2020 19:43:59: 10000000 INFO @ Thu, 08 Oct 2020 19:44:03: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:44:04: 5000000 INFO @ Thu, 08 Oct 2020 19:44:05: 11000000 INFO @ Thu, 08 Oct 2020 19:44:07: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:44:07: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:44:07: #1 total tags in treatment: 11371248 INFO @ Thu, 08 Oct 2020 19:44:07: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:44:07: #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 19:44:07: #1 tags after filtering in treatment: 11371248 INFO @ Thu, 08 Oct 2020 19:44:07: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:44:07: #1 finished! INFO @ Thu, 08 Oct 2020 19:44:07: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:44:07: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:44:08: #2 number of paired peaks: 2091 INFO @ Thu, 08 Oct 2020 19:44:08: start model_add_line... INFO @ Thu, 08 Oct 2020 19:44:08: start X-correlation... INFO @ Thu, 08 Oct 2020 19:44:08: end of X-cor INFO @ Thu, 08 Oct 2020 19:44:08: #2 finished! INFO @ Thu, 08 Oct 2020 19:44:08: #2 predicted fragment length is 157 bps INFO @ Thu, 08 Oct 2020 19:44:08: #2 alternative fragment length(s) may be 4,157 bps INFO @ Thu, 08 Oct 2020 19:44:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.10_model.r INFO @ Thu, 08 Oct 2020 19:44:08: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:44:08: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:44:11: 6000000 INFO @ Thu, 08 Oct 2020 19:44:16: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:44:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:44:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.05_summits.bed INFO @ Thu, 08 Oct 2020 19:44:17: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (8188 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:44:18: 7000000 INFO @ Thu, 08 Oct 2020 19:44:25: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:44:31: 9000000 INFO @ Thu, 08 Oct 2020 19:44:35: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:44:39: 10000000 INFO @ Thu, 08 Oct 2020 19:44:47: 11000000 INFO @ Thu, 08 Oct 2020 19:44:48: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:44:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:44:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.10_summits.bed INFO @ Thu, 08 Oct 2020 19:44:48: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (6184 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:44:49: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:44:49: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:44:49: #1 total tags in treatment: 11371248 INFO @ Thu, 08 Oct 2020 19:44:49: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:44:49: #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 19:44:50: #1 tags after filtering in treatment: 11371248 INFO @ Thu, 08 Oct 2020 19:44:50: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:44:50: #1 finished! INFO @ Thu, 08 Oct 2020 19:44:50: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:44:50: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:44:51: #2 number of paired peaks: 2091 INFO @ Thu, 08 Oct 2020 19:44:51: start model_add_line... INFO @ Thu, 08 Oct 2020 19:44:51: start X-correlation... INFO @ Thu, 08 Oct 2020 19:44:51: end of X-cor INFO @ Thu, 08 Oct 2020 19:44:51: #2 finished! INFO @ Thu, 08 Oct 2020 19:44:51: #2 predicted fragment length is 157 bps INFO @ Thu, 08 Oct 2020 19:44:51: #2 alternative fragment length(s) may be 4,157 bps INFO @ Thu, 08 Oct 2020 19:44:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.20_model.r INFO @ Thu, 08 Oct 2020 19:44:51: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:44:51: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:45:17: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:45:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:45:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:45:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832070/SRX8832070.20_summits.bed INFO @ Thu, 08 Oct 2020 19:45:30: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (3770 records, 4 fields): 8 millis CompletedMACS2peakCalling