Job ID = 10165759 SRX = SRX8832106 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13247927 spots for SRR12332030/SRR12332030.sra Written 13247927 spots for SRR12332030/SRR12332030.sra fastq に変換しました。 bowtie でマッピング中... Your job 10166016 ("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: 00:02:46 13247927 reads; of these: 13247927 (100.00%) were unpaired; of these: 1836133 (13.86%) aligned 0 times 9332299 (70.44%) aligned exactly 1 time 2079495 (15.70%) aligned >1 times 86.14% overall alignment rate Time searching: 00:02:46 Overall time: 00:02:46 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] 3034430 / 11411794 = 0.2659 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 19:53:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.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 19:53:40: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:53:40: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:53:45: 1000000 INFO @ Thu, 08 Oct 2020 19:53:50: 2000000 INFO @ Thu, 08 Oct 2020 19:53:55: 3000000 INFO @ Thu, 08 Oct 2020 19:54:00: 4000000 INFO @ Thu, 08 Oct 2020 19:54:05: 5000000 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 19:54:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.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 19:54:10: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:54:10: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:54:10: 6000000 INFO @ Thu, 08 Oct 2020 19:54:16: 7000000 INFO @ Thu, 08 Oct 2020 19:54:16: 1000000 INFO @ Thu, 08 Oct 2020 19:54:21: 8000000 INFO @ Thu, 08 Oct 2020 19:54:22: 2000000 INFO @ Thu, 08 Oct 2020 19:54:23: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:54:23: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:54:23: #1 total tags in treatment: 8377364 INFO @ Thu, 08 Oct 2020 19:54:23: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:54:23: #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 19:54:23: #1 tags after filtering in treatment: 8377364 INFO @ Thu, 08 Oct 2020 19:54:23: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:54:23: #1 finished! INFO @ Thu, 08 Oct 2020 19:54:23: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:54:23: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:54:24: #2 number of paired peaks: 1739 INFO @ Thu, 08 Oct 2020 19:54:24: start model_add_line... INFO @ Thu, 08 Oct 2020 19:54:24: start X-correlation... INFO @ Thu, 08 Oct 2020 19:54:24: end of X-cor INFO @ Thu, 08 Oct 2020 19:54:24: #2 finished! INFO @ Thu, 08 Oct 2020 19:54:24: #2 predicted fragment length is 149 bps INFO @ Thu, 08 Oct 2020 19:54:24: #2 alternative fragment length(s) may be 149 bps INFO @ Thu, 08 Oct 2020 19:54:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05_model.r INFO @ Thu, 08 Oct 2020 19:54:24: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:54:24: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:54:29: 3000000 INFO @ Thu, 08 Oct 2020 19:54:35: 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 19:54:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.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 19:54:40: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:54:40: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:54:41: 5000000 INFO @ Thu, 08 Oct 2020 19:54:42: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:54:46: 1000000 INFO @ Thu, 08 Oct 2020 19:54:48: 6000000 INFO @ Thu, 08 Oct 2020 19:54:51: 2000000 INFO @ Thu, 08 Oct 2020 19:54:52: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:54:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:54:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05_summits.bed INFO @ Thu, 08 Oct 2020 19:54:52: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6689 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:54:54: 7000000 INFO @ Thu, 08 Oct 2020 19:54:57: 3000000 INFO @ Thu, 08 Oct 2020 19:55:01: 8000000 INFO @ Thu, 08 Oct 2020 19:55:02: 4000000 INFO @ Thu, 08 Oct 2020 19:55:03: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:55:03: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:55:03: #1 total tags in treatment: 8377364 INFO @ Thu, 08 Oct 2020 19:55:03: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:55:03: #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 19:55:03: #1 tags after filtering in treatment: 8377364 INFO @ Thu, 08 Oct 2020 19:55:03: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:55:03: #1 finished! INFO @ Thu, 08 Oct 2020 19:55:03: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:55:03: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:55:04: #2 number of paired peaks: 1739 INFO @ Thu, 08 Oct 2020 19:55:04: start model_add_line... INFO @ Thu, 08 Oct 2020 19:55:04: start X-correlation... INFO @ Thu, 08 Oct 2020 19:55:04: end of X-cor INFO @ Thu, 08 Oct 2020 19:55:04: #2 finished! INFO @ Thu, 08 Oct 2020 19:55:04: #2 predicted fragment length is 149 bps INFO @ Thu, 08 Oct 2020 19:55:04: #2 alternative fragment length(s) may be 149 bps INFO @ Thu, 08 Oct 2020 19:55:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10_model.r INFO @ Thu, 08 Oct 2020 19:55:04: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:55:04: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:55:08: 5000000 INFO @ Thu, 08 Oct 2020 19:55:13: 6000000 INFO @ Thu, 08 Oct 2020 19:55:18: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:55:23: 8000000 INFO @ Thu, 08 Oct 2020 19:55:24: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:55:25: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:55:25: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:55:25: #1 total tags in treatment: 8377364 INFO @ Thu, 08 Oct 2020 19:55:25: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:55:25: #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 19:55:25: #1 tags after filtering in treatment: 8377364 INFO @ Thu, 08 Oct 2020 19:55:25: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:55:25: #1 finished! INFO @ Thu, 08 Oct 2020 19:55:25: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:55:25: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:55:26: #2 number of paired peaks: 1739 INFO @ Thu, 08 Oct 2020 19:55:26: start model_add_line... INFO @ Thu, 08 Oct 2020 19:55:26: start X-correlation... INFO @ Thu, 08 Oct 2020 19:55:26: end of X-cor INFO @ Thu, 08 Oct 2020 19:55:26: #2 finished! INFO @ Thu, 08 Oct 2020 19:55:26: #2 predicted fragment length is 149 bps INFO @ Thu, 08 Oct 2020 19:55:26: #2 alternative fragment length(s) may be 149 bps INFO @ Thu, 08 Oct 2020 19:55:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20_model.r INFO @ Thu, 08 Oct 2020 19:55:26: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:55:26: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:55:34: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:55:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:55:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10_summits.bed INFO @ Thu, 08 Oct 2020 19:55:34: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5084 records, 4 fields): 6 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:55:44: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:55:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:55:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:55:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20_summits.bed INFO @ Thu, 08 Oct 2020 19:55:53: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3504 records, 4 fields): 5 millis CompletedMACS2peakCalling