Job ID = 14157942 SRX = SRX6717195 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 46393877 spots for SRR9969867/SRR9969867.sra Written 46393877 spots for SRR9969867/SRR9969867.sra fastq に変換しました。 bowtie でマッピング中... Your job 14158194 ("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: 00:11:32 46393877 reads; of these: 46393877 (100.00%) were unpaired; of these: 39262325 (84.63%) aligned 0 times 6473174 (13.95%) aligned exactly 1 time 658378 (1.42%) aligned >1 times 15.37% overall alignment rate Time searching: 00:11:32 Overall time: 00:11:32 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_rmdupse_core] 3237534 / 7131552 = 0.4540 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 @ Wed, 08 Dec 2021 13:18:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.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 @ Wed, 08 Dec 2021 13:18:28: #1 read tag files... INFO @ Wed, 08 Dec 2021 13:18:28: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 13:18:37: 1000000 INFO @ Wed, 08 Dec 2021 13:18:46: 2000000 INFO @ Wed, 08 Dec 2021 13:18:55: 3000000 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 @ Wed, 08 Dec 2021 13:18:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.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 @ Wed, 08 Dec 2021 13:18:58: #1 read tag files... INFO @ Wed, 08 Dec 2021 13:18:58: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 13:19:03: #1 tag size is determined as 62 bps INFO @ Wed, 08 Dec 2021 13:19:03: #1 tag size = 62 INFO @ Wed, 08 Dec 2021 13:19:03: #1 total tags in treatment: 3894018 INFO @ Wed, 08 Dec 2021 13:19:03: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 13:19:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 13:19:03: #1 tags after filtering in treatment: 3894018 INFO @ Wed, 08 Dec 2021 13:19:03: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 13:19:03: #1 finished! INFO @ Wed, 08 Dec 2021 13:19:03: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 13:19:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 13:19:04: #2 number of paired peaks: 4058 INFO @ Wed, 08 Dec 2021 13:19:04: start model_add_line... INFO @ Wed, 08 Dec 2021 13:19:04: start X-correlation... INFO @ Wed, 08 Dec 2021 13:19:04: end of X-cor INFO @ Wed, 08 Dec 2021 13:19:04: #2 finished! INFO @ Wed, 08 Dec 2021 13:19:04: #2 predicted fragment length is 142 bps INFO @ Wed, 08 Dec 2021 13:19:04: #2 alternative fragment length(s) may be 142 bps INFO @ Wed, 08 Dec 2021 13:19:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.05_model.r INFO @ Wed, 08 Dec 2021 13:19:04: #3 Call peaks... INFO @ Wed, 08 Dec 2021 13:19:04: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 13:19:07: 1000000 INFO @ Wed, 08 Dec 2021 13:19:16: 2000000 INFO @ Wed, 08 Dec 2021 13:19:17: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 13:19:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.05_peaks.xls INFO @ Wed, 08 Dec 2021 13:19:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 13:19:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.05_summits.bed INFO @ Wed, 08 Dec 2021 13:19:24: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (12328 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 13:19:25: 3000000 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 @ Wed, 08 Dec 2021 13:19:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.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 @ Wed, 08 Dec 2021 13:19:28: #1 read tag files... INFO @ Wed, 08 Dec 2021 13:19:28: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 13:19:33: #1 tag size is determined as 62 bps INFO @ Wed, 08 Dec 2021 13:19:33: #1 tag size = 62 INFO @ Wed, 08 Dec 2021 13:19:33: #1 total tags in treatment: 3894018 INFO @ Wed, 08 Dec 2021 13:19:33: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 13:19:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 13:19:33: #1 tags after filtering in treatment: 3894018 INFO @ Wed, 08 Dec 2021 13:19:33: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 13:19:33: #1 finished! INFO @ Wed, 08 Dec 2021 13:19:33: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 13:19:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 13:19:34: #2 number of paired peaks: 4058 INFO @ Wed, 08 Dec 2021 13:19:34: start model_add_line... INFO @ Wed, 08 Dec 2021 13:19:34: start X-correlation... INFO @ Wed, 08 Dec 2021 13:19:34: end of X-cor INFO @ Wed, 08 Dec 2021 13:19:34: #2 finished! INFO @ Wed, 08 Dec 2021 13:19:34: #2 predicted fragment length is 142 bps INFO @ Wed, 08 Dec 2021 13:19:34: #2 alternative fragment length(s) may be 142 bps INFO @ Wed, 08 Dec 2021 13:19:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.10_model.r INFO @ Wed, 08 Dec 2021 13:19:34: #3 Call peaks... INFO @ Wed, 08 Dec 2021 13:19:34: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 13:19:37: 1000000 INFO @ Wed, 08 Dec 2021 13:19:47: 2000000 INFO @ Wed, 08 Dec 2021 13:19:47: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 13:19:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.10_peaks.xls INFO @ Wed, 08 Dec 2021 13:19:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 13:19:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.10_summits.bed INFO @ Wed, 08 Dec 2021 13:19:54: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (8428 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 13:19:56: 3000000 BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 13:20:03: #1 tag size is determined as 62 bps INFO @ Wed, 08 Dec 2021 13:20:03: #1 tag size = 62 INFO @ Wed, 08 Dec 2021 13:20:03: #1 total tags in treatment: 3894018 INFO @ Wed, 08 Dec 2021 13:20:03: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 13:20:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 13:20:04: #1 tags after filtering in treatment: 3894018 INFO @ Wed, 08 Dec 2021 13:20:04: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 13:20:04: #1 finished! INFO @ Wed, 08 Dec 2021 13:20:04: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 13:20:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 13:20:04: #2 number of paired peaks: 4058 INFO @ Wed, 08 Dec 2021 13:20:04: start model_add_line... INFO @ Wed, 08 Dec 2021 13:20:04: start X-correlation... INFO @ Wed, 08 Dec 2021 13:20:05: end of X-cor INFO @ Wed, 08 Dec 2021 13:20:05: #2 finished! INFO @ Wed, 08 Dec 2021 13:20:05: #2 predicted fragment length is 142 bps INFO @ Wed, 08 Dec 2021 13:20:05: #2 alternative fragment length(s) may be 142 bps INFO @ Wed, 08 Dec 2021 13:20:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.20_model.r INFO @ Wed, 08 Dec 2021 13:20:05: #3 Call peaks... INFO @ Wed, 08 Dec 2021 13:20:05: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 13:20:19: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 13:20:25: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.20_peaks.xls INFO @ Wed, 08 Dec 2021 13:20:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 13:20:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6717195/SRX6717195.20_summits.bed INFO @ Wed, 08 Dec 2021 13:20:25: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4936 records, 4 fields): 8 millis CompletedMACS2peakCalling