Job ID = 14160269 SRX = SRX8832091 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 31748053 spots for SRR12332049/SRR12332049.sra Written 31748053 spots for SRR12332049/SRR12332049.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160404 ("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: 00:05:45 31748053 reads; of these: 31748053 (100.00%) were unpaired; of these: 4304137 (13.56%) aligned 0 times 23179478 (73.01%) aligned exactly 1 time 4264438 (13.43%) aligned >1 times 86.44% overall alignment rate Time searching: 00:05:45 Overall time: 00:05:45 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 12 files... [bam_rmdupse_core] 16980307 / 27443916 = 0.6187 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 @ Thu, 09 Dec 2021 01:21:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.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, 09 Dec 2021 01:21:00: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:21:00: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:21:05: 1000000 INFO @ Thu, 09 Dec 2021 01:21:10: 2000000 INFO @ Thu, 09 Dec 2021 01:21:15: 3000000 INFO @ Thu, 09 Dec 2021 01:21:20: 4000000 INFO @ Thu, 09 Dec 2021 01:21:24: 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 @ Thu, 09 Dec 2021 01:21:29: 6000000 INFO @ Thu, 09 Dec 2021 01:21:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.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, 09 Dec 2021 01:21:30: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:21:30: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:21:35: 7000000 INFO @ Thu, 09 Dec 2021 01:21:35: 1000000 INFO @ Thu, 09 Dec 2021 01:21:40: 8000000 INFO @ Thu, 09 Dec 2021 01:21:41: 2000000 INFO @ Thu, 09 Dec 2021 01:21:46: 9000000 INFO @ Thu, 09 Dec 2021 01:21:46: 3000000 INFO @ Thu, 09 Dec 2021 01:21:51: 10000000 INFO @ Thu, 09 Dec 2021 01:21:52: 4000000 INFO @ Thu, 09 Dec 2021 01:21:54: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:21:54: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:21:54: #1 total tags in treatment: 10463609 INFO @ Thu, 09 Dec 2021 01:21:54: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:21:54: #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 01:21:54: #1 tags after filtering in treatment: 10463609 INFO @ Thu, 09 Dec 2021 01:21:54: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:21:54: #1 finished! INFO @ Thu, 09 Dec 2021 01:21:54: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:21:54: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:21:55: #2 number of paired peaks: 5801 INFO @ Thu, 09 Dec 2021 01:21:55: start model_add_line... INFO @ Thu, 09 Dec 2021 01:21:55: start X-correlation... INFO @ Thu, 09 Dec 2021 01:21:55: end of X-cor INFO @ Thu, 09 Dec 2021 01:21:55: #2 finished! INFO @ Thu, 09 Dec 2021 01:21:55: #2 predicted fragment length is 148 bps INFO @ Thu, 09 Dec 2021 01:21:55: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 09 Dec 2021 01:21:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.05_model.r INFO @ Thu, 09 Dec 2021 01:21:55: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:21:55: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:21:57: 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 @ Thu, 09 Dec 2021 01:22:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.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, 09 Dec 2021 01:22:00: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:22:00: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:22:03: 6000000 INFO @ Thu, 09 Dec 2021 01:22:06: 1000000 INFO @ Thu, 09 Dec 2021 01:22:08: 7000000 INFO @ Thu, 09 Dec 2021 01:22:13: 2000000 INFO @ Thu, 09 Dec 2021 01:22:14: 8000000 INFO @ Thu, 09 Dec 2021 01:22:19: 3000000 INFO @ Thu, 09 Dec 2021 01:22:19: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:22:20: 9000000 INFO @ Thu, 09 Dec 2021 01:22:25: 4000000 INFO @ Thu, 09 Dec 2021 01:22:26: 10000000 INFO @ Thu, 09 Dec 2021 01:22:29: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:22:29: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:22:29: #1 total tags in treatment: 10463609 INFO @ Thu, 09 Dec 2021 01:22:29: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:22:29: #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 01:22:29: #1 tags after filtering in treatment: 10463609 INFO @ Thu, 09 Dec 2021 01:22:29: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:22:29: #1 finished! INFO @ Thu, 09 Dec 2021 01:22:29: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:22:29: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:22:30: #2 number of paired peaks: 5801 INFO @ Thu, 09 Dec 2021 01:22:30: start model_add_line... INFO @ Thu, 09 Dec 2021 01:22:30: start X-correlation... INFO @ Thu, 09 Dec 2021 01:22:30: end of X-cor INFO @ Thu, 09 Dec 2021 01:22:30: #2 finished! INFO @ Thu, 09 Dec 2021 01:22:30: #2 predicted fragment length is 148 bps INFO @ Thu, 09 Dec 2021 01:22:30: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 09 Dec 2021 01:22:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.10_model.r INFO @ Thu, 09 Dec 2021 01:22:30: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:22:30: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:22:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.05_peaks.xls INFO @ Thu, 09 Dec 2021 01:22:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:22:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.05_summits.bed INFO @ Thu, 09 Dec 2021 01:22:30: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (10217 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 01:22:31: 5000000 INFO @ Thu, 09 Dec 2021 01:22:37: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 01:22:43: 7000000 INFO @ Thu, 09 Dec 2021 01:22:49: 8000000 INFO @ Thu, 09 Dec 2021 01:22:54: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:22:55: 9000000 BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 01:23:01: 10000000 INFO @ Thu, 09 Dec 2021 01:23:04: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:23:04: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:23:04: #1 total tags in treatment: 10463609 INFO @ Thu, 09 Dec 2021 01:23:04: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:23:04: #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 01:23:04: #1 tags after filtering in treatment: 10463609 INFO @ Thu, 09 Dec 2021 01:23:04: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:23:04: #1 finished! INFO @ Thu, 09 Dec 2021 01:23:04: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:23:04: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:23:05: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.10_peaks.xls INFO @ Thu, 09 Dec 2021 01:23:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:23:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.10_summits.bed INFO @ Thu, 09 Dec 2021 01:23:05: Done! INFO @ Thu, 09 Dec 2021 01:23:05: #2 number of paired peaks: 5801 INFO @ Thu, 09 Dec 2021 01:23:05: start model_add_line... pass1 - making usageList (7 chroms): 2 millis INFO @ Thu, 09 Dec 2021 01:23:05: start X-correlation... pass2 - checking and writing primary data (8674 records, 4 fields): 10 millis INFO @ Thu, 09 Dec 2021 01:23:05: end of X-cor INFO @ Thu, 09 Dec 2021 01:23:05: #2 finished! INFO @ Thu, 09 Dec 2021 01:23:05: #2 predicted fragment length is 148 bps INFO @ Thu, 09 Dec 2021 01:23:05: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 09 Dec 2021 01:23:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.20_model.r CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 01:23:05: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:23:05: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:23:29: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:23:40: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.20_peaks.xls INFO @ Thu, 09 Dec 2021 01:23:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:23:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832091/SRX8832091.20_summits.bed INFO @ Thu, 09 Dec 2021 01:23:40: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7032 records, 4 fields): 9 millis CompletedMACS2peakCalling