Job ID = 10165750 SRX = SRX8832100 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 18824022 spots for SRR12332024/SRR12332024.sra Written 18824022 spots for SRR12332024/SRR12332024.sra fastq に変換しました。 bowtie でマッピング中... Your job 10166020 ("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: 00:03:59 18824022 reads; of these: 18824022 (100.00%) were unpaired; of these: 1063162 (5.65%) aligned 0 times 15355325 (81.57%) aligned exactly 1 time 2405535 (12.78%) aligned >1 times 94.35% overall alignment rate Time searching: 00:03:59 Overall time: 00:03:59 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] 8712858 / 17760860 = 0.4906 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 19:56:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.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 19:56:02: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:56:02: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:56:09: 1000000 INFO @ Thu, 08 Oct 2020 19:56:16: 2000000 INFO @ Thu, 08 Oct 2020 19:56:23: 3000000 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 19:56:30: 4000000 INFO @ Thu, 08 Oct 2020 19:56:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.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 19:56:32: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:56:32: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:56:37: 5000000 INFO @ Thu, 08 Oct 2020 19:56:39: 1000000 INFO @ Thu, 08 Oct 2020 19:56:43: 6000000 INFO @ Thu, 08 Oct 2020 19:56:46: 2000000 INFO @ Thu, 08 Oct 2020 19:56:50: 7000000 INFO @ Thu, 08 Oct 2020 19:56:53: 3000000 INFO @ Thu, 08 Oct 2020 19:56:57: 8000000 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 19:57:00: 4000000 INFO @ Thu, 08 Oct 2020 19:57:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.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 19:57:02: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:57:02: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:57:04: 9000000 INFO @ Thu, 08 Oct 2020 19:57:04: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 19:57:04: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 19:57:04: #1 total tags in treatment: 9048002 INFO @ Thu, 08 Oct 2020 19:57:04: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:57:04: #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 19:57:05: #1 tags after filtering in treatment: 9048002 INFO @ Thu, 08 Oct 2020 19:57:05: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:57:05: #1 finished! INFO @ Thu, 08 Oct 2020 19:57:05: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:57:05: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:57:06: #2 number of paired peaks: 4239 INFO @ Thu, 08 Oct 2020 19:57:06: start model_add_line... INFO @ Thu, 08 Oct 2020 19:57:06: start X-correlation... INFO @ Thu, 08 Oct 2020 19:57:06: end of X-cor INFO @ Thu, 08 Oct 2020 19:57:06: #2 finished! INFO @ Thu, 08 Oct 2020 19:57:06: #2 predicted fragment length is 151 bps INFO @ Thu, 08 Oct 2020 19:57:06: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 08 Oct 2020 19:57:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.05_model.r INFO @ Thu, 08 Oct 2020 19:57:06: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:57:06: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:57:08: 5000000 INFO @ Thu, 08 Oct 2020 19:57:11: 1000000 INFO @ Thu, 08 Oct 2020 19:57:15: 6000000 INFO @ Thu, 08 Oct 2020 19:57:19: 2000000 INFO @ Thu, 08 Oct 2020 19:57:22: 7000000 INFO @ Thu, 08 Oct 2020 19:57:28: 3000000 INFO @ Thu, 08 Oct 2020 19:57:29: 8000000 INFO @ Thu, 08 Oct 2020 19:57:29: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:57:36: 4000000 INFO @ Thu, 08 Oct 2020 19:57:36: 9000000 INFO @ Thu, 08 Oct 2020 19:57:37: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 19:57:37: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 19:57:37: #1 total tags in treatment: 9048002 INFO @ Thu, 08 Oct 2020 19:57:37: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:57:37: #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 19:57:37: #1 tags after filtering in treatment: 9048002 INFO @ Thu, 08 Oct 2020 19:57:37: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:57:37: #1 finished! INFO @ Thu, 08 Oct 2020 19:57:37: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:57:37: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:57:38: #2 number of paired peaks: 4239 INFO @ Thu, 08 Oct 2020 19:57:38: start model_add_line... INFO @ Thu, 08 Oct 2020 19:57:38: start X-correlation... INFO @ Thu, 08 Oct 2020 19:57:38: end of X-cor INFO @ Thu, 08 Oct 2020 19:57:38: #2 finished! INFO @ Thu, 08 Oct 2020 19:57:38: #2 predicted fragment length is 151 bps INFO @ Thu, 08 Oct 2020 19:57:38: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 08 Oct 2020 19:57:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.10_model.r INFO @ Thu, 08 Oct 2020 19:57:38: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:57:38: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:57:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:57:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:57:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.05_summits.bed INFO @ Thu, 08 Oct 2020 19:57:41: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7608 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:57:45: 5000000 INFO @ Thu, 08 Oct 2020 19:57:53: 6000000 INFO @ Thu, 08 Oct 2020 19:58:02: 7000000 INFO @ Thu, 08 Oct 2020 19:58:02: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:58:10: 8000000 INFO @ Thu, 08 Oct 2020 19:58:13: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:58:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:58:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.10_summits.bed INFO @ Thu, 08 Oct 2020 19:58:13: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6240 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:58:19: 9000000 INFO @ Thu, 08 Oct 2020 19:58:19: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 19:58:19: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 19:58:19: #1 total tags in treatment: 9048002 INFO @ Thu, 08 Oct 2020 19:58:19: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:58:19: #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 19:58:19: #1 tags after filtering in treatment: 9048002 INFO @ Thu, 08 Oct 2020 19:58:19: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:58:19: #1 finished! INFO @ Thu, 08 Oct 2020 19:58:19: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:58:19: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:58:20: #2 number of paired peaks: 4239 INFO @ Thu, 08 Oct 2020 19:58:20: start model_add_line... INFO @ Thu, 08 Oct 2020 19:58:20: start X-correlation... INFO @ Thu, 08 Oct 2020 19:58:20: end of X-cor INFO @ Thu, 08 Oct 2020 19:58:20: #2 finished! INFO @ Thu, 08 Oct 2020 19:58:20: #2 predicted fragment length is 151 bps INFO @ Thu, 08 Oct 2020 19:58:20: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 08 Oct 2020 19:58:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.20_model.r INFO @ Thu, 08 Oct 2020 19:58:21: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:58:21: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:58:45: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:58:57: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:58:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:58:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832100/SRX8832100.20_summits.bed INFO @ Thu, 08 Oct 2020 19:58:57: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (4841 records, 4 fields): 8 millis CompletedMACS2peakCalling