Job ID = 10165743 SRX = SRX8832095 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 12619188 spots for SRR12332053/SRR12332053.sra Written 12619188 spots for SRR12332053/SRR12332053.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165991 ("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: 00:02:37 12619188 reads; of these: 12619188 (100.00%) were unpaired; of these: 853820 (6.77%) aligned 0 times 9791351 (77.59%) aligned exactly 1 time 1974017 (15.64%) aligned >1 times 93.23% overall alignment rate Time searching: 00:02:37 Overall time: 00:02:37 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] 6905563 / 11765368 = 0.5869 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 19:51:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.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 19:51:10: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:51:10: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:51:15: 1000000 INFO @ Thu, 08 Oct 2020 19:51:20: 2000000 INFO @ Thu, 08 Oct 2020 19:51:26: 3000000 INFO @ Thu, 08 Oct 2020 19:51:31: 4000000 INFO @ Thu, 08 Oct 2020 19:51:35: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:51:35: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:51:35: #1 total tags in treatment: 4859805 INFO @ Thu, 08 Oct 2020 19:51:35: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:51:35: #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 19:51:35: #1 tags after filtering in treatment: 4859805 INFO @ Thu, 08 Oct 2020 19:51:35: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:51:35: #1 finished! INFO @ Thu, 08 Oct 2020 19:51:35: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:51:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:51:36: #2 number of paired peaks: 4200 INFO @ Thu, 08 Oct 2020 19:51:36: start model_add_line... INFO @ Thu, 08 Oct 2020 19:51:36: start X-correlation... INFO @ Thu, 08 Oct 2020 19:51:36: end of X-cor INFO @ Thu, 08 Oct 2020 19:51:36: #2 finished! INFO @ Thu, 08 Oct 2020 19:51:36: #2 predicted fragment length is 125 bps INFO @ Thu, 08 Oct 2020 19:51:36: #2 alternative fragment length(s) may be 125 bps INFO @ Thu, 08 Oct 2020 19:51:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.05_model.r INFO @ Thu, 08 Oct 2020 19:51:36: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:51:36: #3 Pre-compute pvalue-qvalue table... 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 19:51:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.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 19:51:40: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:51:40: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:51:45: 1000000 INFO @ Thu, 08 Oct 2020 19:51:48: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:51:50: 2000000 INFO @ Thu, 08 Oct 2020 19:51:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:51:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:51:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.05_summits.bed INFO @ Thu, 08 Oct 2020 19:51:54: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6917 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:51:56: 3000000 INFO @ Thu, 08 Oct 2020 19:52:01: 4000000 INFO @ Thu, 08 Oct 2020 19:52:05: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:52:05: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:52:05: #1 total tags in treatment: 4859805 INFO @ Thu, 08 Oct 2020 19:52:05: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:52:05: #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 19:52:05: #1 tags after filtering in treatment: 4859805 INFO @ Thu, 08 Oct 2020 19:52:05: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:52:05: #1 finished! INFO @ Thu, 08 Oct 2020 19:52:05: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:52:05: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:52:06: #2 number of paired peaks: 4200 INFO @ Thu, 08 Oct 2020 19:52:06: start model_add_line... INFO @ Thu, 08 Oct 2020 19:52:06: start X-correlation... INFO @ Thu, 08 Oct 2020 19:52:06: end of X-cor INFO @ Thu, 08 Oct 2020 19:52:06: #2 finished! INFO @ Thu, 08 Oct 2020 19:52:06: #2 predicted fragment length is 125 bps INFO @ Thu, 08 Oct 2020 19:52:06: #2 alternative fragment length(s) may be 125 bps INFO @ Thu, 08 Oct 2020 19:52:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.10_model.r INFO @ Thu, 08 Oct 2020 19:52:06: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:52:06: #3 Pre-compute pvalue-qvalue table... 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 19:52:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.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 19:52:10: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:52:10: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:52:15: 1000000 INFO @ Thu, 08 Oct 2020 19:52:18: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:52:21: 2000000 INFO @ Thu, 08 Oct 2020 19:52:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:52:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:52:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.10_summits.bed INFO @ Thu, 08 Oct 2020 19:52:24: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5744 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:52:26: 3000000 INFO @ Thu, 08 Oct 2020 19:52:31: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:52:35: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:52:35: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:52:35: #1 total tags in treatment: 4859805 INFO @ Thu, 08 Oct 2020 19:52:35: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:52:35: #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 19:52:35: #1 tags after filtering in treatment: 4859805 INFO @ Thu, 08 Oct 2020 19:52:35: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:52:35: #1 finished! INFO @ Thu, 08 Oct 2020 19:52:35: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:52:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:52:36: #2 number of paired peaks: 4200 INFO @ Thu, 08 Oct 2020 19:52:36: start model_add_line... INFO @ Thu, 08 Oct 2020 19:52:36: start X-correlation... INFO @ Thu, 08 Oct 2020 19:52:36: end of X-cor INFO @ Thu, 08 Oct 2020 19:52:36: #2 finished! INFO @ Thu, 08 Oct 2020 19:52:36: #2 predicted fragment length is 125 bps INFO @ Thu, 08 Oct 2020 19:52:36: #2 alternative fragment length(s) may be 125 bps INFO @ Thu, 08 Oct 2020 19:52:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.20_model.r INFO @ Thu, 08 Oct 2020 19:52:36: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:52:36: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:52:48: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:52:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:52:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:52:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832095/SRX8832095.20_summits.bed INFO @ Thu, 08 Oct 2020 19:52:54: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4499 records, 4 fields): 7 millis CompletedMACS2peakCalling