Job ID = 14158435 SRX = DRX184553 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 29549494 spots for DRR194098/DRR194098.sra Written 29549494 spots for DRR194098/DRR194098.sra fastq に変換しました。 bowtie でマッピング中... Your job 14159112 ("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: 00:06:14 29549494 reads; of these: 29549494 (100.00%) were unpaired; of these: 5439181 (18.41%) aligned 0 times 17708556 (59.93%) aligned exactly 1 time 6401757 (21.66%) aligned >1 times 81.59% overall alignment rate Time searching: 00:06:14 Overall time: 00:06:14 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] 7323650 / 24110313 = 0.3038 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 17:48:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.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 17:48:38: #1 read tag files... INFO @ Wed, 08 Dec 2021 17:48:38: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 17:48:43: 1000000 INFO @ Wed, 08 Dec 2021 17:48:47: 2000000 INFO @ Wed, 08 Dec 2021 17:48:52: 3000000 INFO @ Wed, 08 Dec 2021 17:48:57: 4000000 INFO @ Wed, 08 Dec 2021 17:49:01: 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 @ Wed, 08 Dec 2021 17:49:06: 6000000 INFO @ Wed, 08 Dec 2021 17:49:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.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 17:49:08: #1 read tag files... INFO @ Wed, 08 Dec 2021 17:49:08: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 17:49:11: 7000000 INFO @ Wed, 08 Dec 2021 17:49:13: 1000000 INFO @ Wed, 08 Dec 2021 17:49:16: 8000000 INFO @ Wed, 08 Dec 2021 17:49:18: 2000000 INFO @ Wed, 08 Dec 2021 17:49:21: 9000000 INFO @ Wed, 08 Dec 2021 17:49:23: 3000000 INFO @ Wed, 08 Dec 2021 17:49:26: 10000000 INFO @ Wed, 08 Dec 2021 17:49:28: 4000000 INFO @ Wed, 08 Dec 2021 17:49:31: 11000000 INFO @ Wed, 08 Dec 2021 17:49:32: 5000000 INFO @ Wed, 08 Dec 2021 17:49:36: 12000000 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 17:49:37: 6000000 INFO @ Wed, 08 Dec 2021 17:49:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.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 17:49:38: #1 read tag files... INFO @ Wed, 08 Dec 2021 17:49:38: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 17:49:41: 13000000 INFO @ Wed, 08 Dec 2021 17:49:42: 7000000 INFO @ Wed, 08 Dec 2021 17:49:44: 1000000 INFO @ Wed, 08 Dec 2021 17:49:46: 14000000 INFO @ Wed, 08 Dec 2021 17:49:47: 8000000 INFO @ Wed, 08 Dec 2021 17:49:50: 2000000 INFO @ Wed, 08 Dec 2021 17:49:51: 15000000 INFO @ Wed, 08 Dec 2021 17:49:53: 9000000 INFO @ Wed, 08 Dec 2021 17:49:56: 3000000 INFO @ Wed, 08 Dec 2021 17:49:56: 16000000 INFO @ Wed, 08 Dec 2021 17:49:58: 10000000 INFO @ Wed, 08 Dec 2021 17:50:00: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 17:50:00: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 17:50:00: #1 total tags in treatment: 16786663 INFO @ Wed, 08 Dec 2021 17:50:00: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 17:50:00: #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 17:50:00: #1 tags after filtering in treatment: 16786663 INFO @ Wed, 08 Dec 2021 17:50:00: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 17:50:00: #1 finished! INFO @ Wed, 08 Dec 2021 17:50:00: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 17:50:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 17:50:01: #2 number of paired peaks: 985 WARNING @ Wed, 08 Dec 2021 17:50:01: Fewer paired peaks (985) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 985 pairs to build model! INFO @ Wed, 08 Dec 2021 17:50:01: start model_add_line... INFO @ Wed, 08 Dec 2021 17:50:01: start X-correlation... INFO @ Wed, 08 Dec 2021 17:50:01: end of X-cor INFO @ Wed, 08 Dec 2021 17:50:01: #2 finished! INFO @ Wed, 08 Dec 2021 17:50:01: #2 predicted fragment length is 276 bps INFO @ Wed, 08 Dec 2021 17:50:01: #2 alternative fragment length(s) may be 276 bps INFO @ Wed, 08 Dec 2021 17:50:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.05_model.r INFO @ Wed, 08 Dec 2021 17:50:01: #3 Call peaks... INFO @ Wed, 08 Dec 2021 17:50:01: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 17:50:02: 4000000 INFO @ Wed, 08 Dec 2021 17:50:03: 11000000 INFO @ Wed, 08 Dec 2021 17:50:08: 5000000 INFO @ Wed, 08 Dec 2021 17:50:08: 12000000 INFO @ Wed, 08 Dec 2021 17:50:13: 13000000 INFO @ Wed, 08 Dec 2021 17:50:14: 6000000 INFO @ Wed, 08 Dec 2021 17:50:18: 14000000 INFO @ Wed, 08 Dec 2021 17:50:20: 7000000 INFO @ Wed, 08 Dec 2021 17:50:23: 15000000 INFO @ Wed, 08 Dec 2021 17:50:26: 8000000 INFO @ Wed, 08 Dec 2021 17:50:28: 16000000 INFO @ Wed, 08 Dec 2021 17:50:32: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 17:50:32: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 17:50:32: #1 total tags in treatment: 16786663 INFO @ Wed, 08 Dec 2021 17:50:32: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 17:50:32: #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 17:50:32: #1 tags after filtering in treatment: 16786663 INFO @ Wed, 08 Dec 2021 17:50:32: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 17:50:32: #1 finished! INFO @ Wed, 08 Dec 2021 17:50:32: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 17:50:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 17:50:32: 9000000 INFO @ Wed, 08 Dec 2021 17:50:33: #2 number of paired peaks: 985 WARNING @ Wed, 08 Dec 2021 17:50:33: Fewer paired peaks (985) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 985 pairs to build model! INFO @ Wed, 08 Dec 2021 17:50:33: start model_add_line... INFO @ Wed, 08 Dec 2021 17:50:33: start X-correlation... INFO @ Wed, 08 Dec 2021 17:50:33: end of X-cor INFO @ Wed, 08 Dec 2021 17:50:33: #2 finished! INFO @ Wed, 08 Dec 2021 17:50:33: #2 predicted fragment length is 276 bps INFO @ Wed, 08 Dec 2021 17:50:33: #2 alternative fragment length(s) may be 276 bps INFO @ Wed, 08 Dec 2021 17:50:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.10_model.r INFO @ Wed, 08 Dec 2021 17:50:33: #3 Call peaks... INFO @ Wed, 08 Dec 2021 17:50:33: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 17:50:38: 10000000 INFO @ Wed, 08 Dec 2021 17:50:44: 11000000 INFO @ Wed, 08 Dec 2021 17:50:46: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 17:50:49: 12000000 INFO @ Wed, 08 Dec 2021 17:50:55: 13000000 INFO @ Wed, 08 Dec 2021 17:51:00: 14000000 INFO @ Wed, 08 Dec 2021 17:51:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.05_peaks.xls INFO @ Wed, 08 Dec 2021 17:51:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 17:51:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.05_summits.bed INFO @ Wed, 08 Dec 2021 17:51:04: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (9604 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 17:51:06: 15000000 INFO @ Wed, 08 Dec 2021 17:51:12: 16000000 INFO @ Wed, 08 Dec 2021 17:51:16: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 17:51:16: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 17:51:16: #1 total tags in treatment: 16786663 INFO @ Wed, 08 Dec 2021 17:51:16: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 17:51:16: #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 17:51:16: #1 tags after filtering in treatment: 16786663 INFO @ Wed, 08 Dec 2021 17:51:16: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 17:51:16: #1 finished! INFO @ Wed, 08 Dec 2021 17:51:16: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 17:51:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 17:51:17: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 17:51:18: #2 number of paired peaks: 985 WARNING @ Wed, 08 Dec 2021 17:51:18: Fewer paired peaks (985) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 985 pairs to build model! INFO @ Wed, 08 Dec 2021 17:51:18: start model_add_line... INFO @ Wed, 08 Dec 2021 17:51:18: start X-correlation... INFO @ Wed, 08 Dec 2021 17:51:18: end of X-cor INFO @ Wed, 08 Dec 2021 17:51:18: #2 finished! INFO @ Wed, 08 Dec 2021 17:51:18: #2 predicted fragment length is 276 bps INFO @ Wed, 08 Dec 2021 17:51:18: #2 alternative fragment length(s) may be 276 bps INFO @ Wed, 08 Dec 2021 17:51:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.20_model.r INFO @ Wed, 08 Dec 2021 17:51:18: #3 Call peaks... INFO @ Wed, 08 Dec 2021 17:51:18: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 17:51:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.10_peaks.xls INFO @ Wed, 08 Dec 2021 17:51:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 17:51:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.10_summits.bed INFO @ Wed, 08 Dec 2021 17:51:35: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7129 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 17:52:04: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 17:52:22: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.20_peaks.xls INFO @ Wed, 08 Dec 2021 17:52:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 17:52:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/DRX184553/DRX184553.20_summits.bed INFO @ Wed, 08 Dec 2021 17:52:22: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4350 records, 4 fields): 6 millis CompletedMACS2peakCalling