Job ID = 14158436 SRX = DRX184554 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 28727719 spots for DRR194099/DRR194099.sra Written 28727719 spots for DRR194099/DRR194099.sra fastq に変換しました。 bowtie でマッピング中... Your job 14159114 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:06:10 28727719 reads; of these: 28727719 (100.00%) were unpaired; of these: 5068119 (17.64%) aligned 0 times 18934901 (65.91%) aligned exactly 1 time 4724699 (16.45%) aligned >1 times 82.36% overall alignment rate Time searching: 00:06:11 Overall time: 00:06:11 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] 7430671 / 23659600 = 0.3141 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 17:49:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.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 17:49:15: #1 read tag files... INFO @ Wed, 08 Dec 2021 17:49:15: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 17:49:21: 1000000 INFO @ Wed, 08 Dec 2021 17:49:26: 2000000 INFO @ Wed, 08 Dec 2021 17:49:32: 3000000 INFO @ Wed, 08 Dec 2021 17:49:37: 4000000 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 17:49:43: 5000000 INFO @ Wed, 08 Dec 2021 17:49:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.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 17:49:44: #1 read tag files... INFO @ Wed, 08 Dec 2021 17:49:44: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 17:49:49: 6000000 INFO @ Wed, 08 Dec 2021 17:49:51: 1000000 INFO @ Wed, 08 Dec 2021 17:49:55: 7000000 INFO @ Wed, 08 Dec 2021 17:49:58: 2000000 INFO @ Wed, 08 Dec 2021 17:50:01: 8000000 INFO @ Wed, 08 Dec 2021 17:50:04: 3000000 INFO @ Wed, 08 Dec 2021 17:50:07: 9000000 INFO @ Wed, 08 Dec 2021 17:50:11: 4000000 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 17:50:13: 10000000 INFO @ Wed, 08 Dec 2021 17:50:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.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 17:50:14: #1 read tag files... INFO @ Wed, 08 Dec 2021 17:50:14: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 17:50:18: 5000000 INFO @ Wed, 08 Dec 2021 17:50:19: 11000000 INFO @ Wed, 08 Dec 2021 17:50:20: 1000000 INFO @ Wed, 08 Dec 2021 17:50:25: 6000000 INFO @ Wed, 08 Dec 2021 17:50:26: 12000000 INFO @ Wed, 08 Dec 2021 17:50:27: 2000000 INFO @ Wed, 08 Dec 2021 17:50:31: 7000000 INFO @ Wed, 08 Dec 2021 17:50:32: 13000000 INFO @ Wed, 08 Dec 2021 17:50:33: 3000000 INFO @ Wed, 08 Dec 2021 17:50:38: 8000000 INFO @ Wed, 08 Dec 2021 17:50:38: 14000000 INFO @ Wed, 08 Dec 2021 17:50:39: 4000000 INFO @ Wed, 08 Dec 2021 17:50:45: 15000000 INFO @ Wed, 08 Dec 2021 17:50:45: 9000000 INFO @ Wed, 08 Dec 2021 17:50:45: 5000000 INFO @ Wed, 08 Dec 2021 17:50:51: 16000000 INFO @ Wed, 08 Dec 2021 17:50:52: 10000000 INFO @ Wed, 08 Dec 2021 17:50:52: 6000000 INFO @ Wed, 08 Dec 2021 17:50:52: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 17:50:52: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 17:50:52: #1 total tags in treatment: 16228929 INFO @ Wed, 08 Dec 2021 17:50:52: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 17:50:52: #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 17:50:53: #1 tags after filtering in treatment: 16228929 INFO @ Wed, 08 Dec 2021 17:50:53: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 17:50:53: #1 finished! INFO @ Wed, 08 Dec 2021 17:50:53: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 17:50:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 17:50:54: #2 number of paired peaks: 998 WARNING @ Wed, 08 Dec 2021 17:50:54: Fewer paired peaks (998) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 998 pairs to build model! INFO @ Wed, 08 Dec 2021 17:50:54: start model_add_line... INFO @ Wed, 08 Dec 2021 17:50:54: start X-correlation... INFO @ Wed, 08 Dec 2021 17:50:54: end of X-cor INFO @ Wed, 08 Dec 2021 17:50:54: #2 finished! INFO @ Wed, 08 Dec 2021 17:50:54: #2 predicted fragment length is 350 bps INFO @ Wed, 08 Dec 2021 17:50:54: #2 alternative fragment length(s) may be 350 bps INFO @ Wed, 08 Dec 2021 17:50:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.05_model.r INFO @ Wed, 08 Dec 2021 17:50:54: #3 Call peaks... INFO @ Wed, 08 Dec 2021 17:50:54: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 17:50:58: 7000000 INFO @ Wed, 08 Dec 2021 17:50:58: 11000000 INFO @ Wed, 08 Dec 2021 17:51:04: 8000000 INFO @ Wed, 08 Dec 2021 17:51:05: 12000000 INFO @ Wed, 08 Dec 2021 17:51:10: 9000000 INFO @ Wed, 08 Dec 2021 17:51:12: 13000000 INFO @ Wed, 08 Dec 2021 17:51:16: 10000000 INFO @ Wed, 08 Dec 2021 17:51:18: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 17:51:22: 11000000 INFO @ Wed, 08 Dec 2021 17:51:25: 15000000 INFO @ Wed, 08 Dec 2021 17:51:28: 12000000 INFO @ Wed, 08 Dec 2021 17:51:32: 16000000 INFO @ Wed, 08 Dec 2021 17:51:33: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 17:51:33: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 17:51:33: #1 total tags in treatment: 16228929 INFO @ Wed, 08 Dec 2021 17:51:33: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 17:51:33: #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 17:51:33: #1 tags after filtering in treatment: 16228929 INFO @ Wed, 08 Dec 2021 17:51:33: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 17:51:33: #1 finished! INFO @ Wed, 08 Dec 2021 17:51:33: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 17:51:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 17:51:34: 13000000 INFO @ Wed, 08 Dec 2021 17:51:34: #2 number of paired peaks: 998 WARNING @ Wed, 08 Dec 2021 17:51:34: Fewer paired peaks (998) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 998 pairs to build model! INFO @ Wed, 08 Dec 2021 17:51:34: start model_add_line... INFO @ Wed, 08 Dec 2021 17:51:35: start X-correlation... INFO @ Wed, 08 Dec 2021 17:51:35: end of X-cor INFO @ Wed, 08 Dec 2021 17:51:35: #2 finished! INFO @ Wed, 08 Dec 2021 17:51:35: #2 predicted fragment length is 350 bps INFO @ Wed, 08 Dec 2021 17:51:35: #2 alternative fragment length(s) may be 350 bps INFO @ Wed, 08 Dec 2021 17:51:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.10_model.r INFO @ Wed, 08 Dec 2021 17:51:35: #3 Call peaks... INFO @ Wed, 08 Dec 2021 17:51:35: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 17:51:38: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 17:51:40: 14000000 INFO @ Wed, 08 Dec 2021 17:51:45: 15000000 INFO @ Wed, 08 Dec 2021 17:51:50: 16000000 INFO @ Wed, 08 Dec 2021 17:51:51: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 17:51:51: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 17:51:51: #1 total tags in treatment: 16228929 INFO @ Wed, 08 Dec 2021 17:51:51: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 17:51:51: #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 17:51:51: #1 tags after filtering in treatment: 16228929 INFO @ Wed, 08 Dec 2021 17:51:51: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 17:51:51: #1 finished! INFO @ Wed, 08 Dec 2021 17:51:51: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 17:51:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 17:51:53: #2 number of paired peaks: 998 WARNING @ Wed, 08 Dec 2021 17:51:53: Fewer paired peaks (998) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 998 pairs to build model! INFO @ Wed, 08 Dec 2021 17:51:53: start model_add_line... INFO @ Wed, 08 Dec 2021 17:51:53: start X-correlation... INFO @ Wed, 08 Dec 2021 17:51:53: end of X-cor INFO @ Wed, 08 Dec 2021 17:51:53: #2 finished! INFO @ Wed, 08 Dec 2021 17:51:53: #2 predicted fragment length is 350 bps INFO @ Wed, 08 Dec 2021 17:51:53: #2 alternative fragment length(s) may be 350 bps INFO @ Wed, 08 Dec 2021 17:51:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.20_model.r INFO @ Wed, 08 Dec 2021 17:51:53: #3 Call peaks... INFO @ Wed, 08 Dec 2021 17:51:53: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 17:51:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.05_peaks.xls INFO @ Wed, 08 Dec 2021 17:51:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 17:51:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.05_summits.bed INFO @ Wed, 08 Dec 2021 17:51:55: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7320 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 17:52:18: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 17:52:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.10_peaks.xls INFO @ Wed, 08 Dec 2021 17:52:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 17:52:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.10_summits.bed INFO @ Wed, 08 Dec 2021 17:52:35: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4866 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 17:52:36: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 17:52:52: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.20_peaks.xls INFO @ Wed, 08 Dec 2021 17:52:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 17:52:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/DRX184554/DRX184554.20_summits.bed INFO @ Wed, 08 Dec 2021 17:52:52: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3085 records, 4 fields): 5 millis CompletedMACS2peakCalling