Job ID = 14159099 SRX = DRX184548 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:09:04 32033954 reads; of these: 32033954 (100.00%) were unpaired; of these: 4234960 (13.22%) aligned 0 times 21776587 (67.98%) aligned exactly 1 time 6022407 (18.80%) aligned >1 times 86.78% overall alignment rate Time searching: 00:09:04 Overall time: 00:09:04 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] 8181913 / 27798994 = 0.2943 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 19:37:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.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 19:37:11: #1 read tag files... INFO @ Wed, 08 Dec 2021 19:37:11: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 19:37:19: 1000000 INFO @ Wed, 08 Dec 2021 19:37:26: 2000000 INFO @ Wed, 08 Dec 2021 19:37:33: 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 19:37:40: 4000000 INFO @ Wed, 08 Dec 2021 19:37:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.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 19:37:41: #1 read tag files... INFO @ Wed, 08 Dec 2021 19:37:41: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 19:37:47: 5000000 INFO @ Wed, 08 Dec 2021 19:37:49: 1000000 INFO @ Wed, 08 Dec 2021 19:37:54: 6000000 INFO @ Wed, 08 Dec 2021 19:37:57: 2000000 INFO @ Wed, 08 Dec 2021 19:38:01: 7000000 INFO @ Wed, 08 Dec 2021 19:38:05: 3000000 INFO @ Wed, 08 Dec 2021 19:38:08: 8000000 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 19:38:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.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 19:38:11: #1 read tag files... INFO @ Wed, 08 Dec 2021 19:38:11: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 19:38:13: 4000000 INFO @ Wed, 08 Dec 2021 19:38:15: 9000000 INFO @ Wed, 08 Dec 2021 19:38:18: 1000000 INFO @ Wed, 08 Dec 2021 19:38:22: 5000000 INFO @ Wed, 08 Dec 2021 19:38:22: 10000000 INFO @ Wed, 08 Dec 2021 19:38:25: 2000000 INFO @ Wed, 08 Dec 2021 19:38:30: 6000000 INFO @ Wed, 08 Dec 2021 19:38:30: 11000000 INFO @ Wed, 08 Dec 2021 19:38:33: 3000000 INFO @ Wed, 08 Dec 2021 19:38:37: 12000000 INFO @ Wed, 08 Dec 2021 19:38:38: 7000000 INFO @ Wed, 08 Dec 2021 19:38:39: 4000000 INFO @ Wed, 08 Dec 2021 19:38:44: 13000000 INFO @ Wed, 08 Dec 2021 19:38:46: 8000000 INFO @ Wed, 08 Dec 2021 19:38:47: 5000000 INFO @ Wed, 08 Dec 2021 19:38:51: 14000000 INFO @ Wed, 08 Dec 2021 19:38:54: 9000000 INFO @ Wed, 08 Dec 2021 19:38:54: 6000000 INFO @ Wed, 08 Dec 2021 19:38:59: 15000000 INFO @ Wed, 08 Dec 2021 19:39:02: 10000000 INFO @ Wed, 08 Dec 2021 19:39:02: 7000000 INFO @ Wed, 08 Dec 2021 19:39:06: 16000000 INFO @ Wed, 08 Dec 2021 19:39:10: 8000000 INFO @ Wed, 08 Dec 2021 19:39:10: 11000000 INFO @ Wed, 08 Dec 2021 19:39:14: 17000000 INFO @ Wed, 08 Dec 2021 19:39:17: 9000000 INFO @ Wed, 08 Dec 2021 19:39:18: 12000000 INFO @ Wed, 08 Dec 2021 19:39:22: 18000000 INFO @ Wed, 08 Dec 2021 19:39:25: 10000000 INFO @ Wed, 08 Dec 2021 19:39:26: 13000000 INFO @ Wed, 08 Dec 2021 19:39:29: 19000000 INFO @ Wed, 08 Dec 2021 19:39:32: 11000000 INFO @ Wed, 08 Dec 2021 19:39:34: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 19:39:34: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 19:39:34: #1 total tags in treatment: 19617081 INFO @ Wed, 08 Dec 2021 19:39:34: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 19:39:34: #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 19:39:34: 14000000 INFO @ Wed, 08 Dec 2021 19:39:34: #1 tags after filtering in treatment: 19617081 INFO @ Wed, 08 Dec 2021 19:39:34: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 19:39:34: #1 finished! INFO @ Wed, 08 Dec 2021 19:39:34: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 19:39:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 19:39:36: #2 number of paired peaks: 343 WARNING @ Wed, 08 Dec 2021 19:39:36: Fewer paired peaks (343) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 343 pairs to build model! INFO @ Wed, 08 Dec 2021 19:39:36: start model_add_line... INFO @ Wed, 08 Dec 2021 19:39:36: start X-correlation... INFO @ Wed, 08 Dec 2021 19:39:36: end of X-cor INFO @ Wed, 08 Dec 2021 19:39:36: #2 finished! INFO @ Wed, 08 Dec 2021 19:39:36: #2 predicted fragment length is 200 bps INFO @ Wed, 08 Dec 2021 19:39:36: #2 alternative fragment length(s) may be 3,178,200 bps INFO @ Wed, 08 Dec 2021 19:39:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.05_model.r INFO @ Wed, 08 Dec 2021 19:39:36: #3 Call peaks... INFO @ Wed, 08 Dec 2021 19:39:36: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 19:39:39: 12000000 INFO @ Wed, 08 Dec 2021 19:39:41: 15000000 INFO @ Wed, 08 Dec 2021 19:39:46: 13000000 INFO @ Wed, 08 Dec 2021 19:39:49: 16000000 INFO @ Wed, 08 Dec 2021 19:39:53: 14000000 INFO @ Wed, 08 Dec 2021 19:39:57: 17000000 INFO @ Wed, 08 Dec 2021 19:40:00: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 19:40:05: 18000000 INFO @ Wed, 08 Dec 2021 19:40:07: 16000000 INFO @ Wed, 08 Dec 2021 19:40:13: 19000000 INFO @ Wed, 08 Dec 2021 19:40:14: 17000000 INFO @ Wed, 08 Dec 2021 19:40:18: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 19:40:18: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 19:40:18: #1 total tags in treatment: 19617081 INFO @ Wed, 08 Dec 2021 19:40:18: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 19:40:18: #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 19:40:19: #1 tags after filtering in treatment: 19617081 INFO @ Wed, 08 Dec 2021 19:40:19: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 19:40:19: #1 finished! INFO @ Wed, 08 Dec 2021 19:40:19: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 19:40:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 19:40:20: #2 number of paired peaks: 343 WARNING @ Wed, 08 Dec 2021 19:40:20: Fewer paired peaks (343) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 343 pairs to build model! INFO @ Wed, 08 Dec 2021 19:40:20: start model_add_line... INFO @ Wed, 08 Dec 2021 19:40:20: start X-correlation... INFO @ Wed, 08 Dec 2021 19:40:20: 18000000 INFO @ Wed, 08 Dec 2021 19:40:20: end of X-cor INFO @ Wed, 08 Dec 2021 19:40:20: #2 finished! INFO @ Wed, 08 Dec 2021 19:40:20: #2 predicted fragment length is 200 bps INFO @ Wed, 08 Dec 2021 19:40:20: #2 alternative fragment length(s) may be 3,178,200 bps INFO @ Wed, 08 Dec 2021 19:40:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.10_model.r INFO @ Wed, 08 Dec 2021 19:40:20: #3 Call peaks... INFO @ Wed, 08 Dec 2021 19:40:20: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 19:40:27: 19000000 INFO @ Wed, 08 Dec 2021 19:40:31: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 19:40:32: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 19:40:32: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 19:40:32: #1 total tags in treatment: 19617081 INFO @ Wed, 08 Dec 2021 19:40:32: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 19:40:32: #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 19:40:32: #1 tags after filtering in treatment: 19617081 INFO @ Wed, 08 Dec 2021 19:40:32: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 19:40:32: #1 finished! INFO @ Wed, 08 Dec 2021 19:40:32: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 19:40:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 19:40:34: #2 number of paired peaks: 343 WARNING @ Wed, 08 Dec 2021 19:40:34: Fewer paired peaks (343) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 343 pairs to build model! INFO @ Wed, 08 Dec 2021 19:40:34: start model_add_line... INFO @ Wed, 08 Dec 2021 19:40:34: start X-correlation... INFO @ Wed, 08 Dec 2021 19:40:34: end of X-cor INFO @ Wed, 08 Dec 2021 19:40:34: #2 finished! INFO @ Wed, 08 Dec 2021 19:40:34: #2 predicted fragment length is 200 bps INFO @ Wed, 08 Dec 2021 19:40:34: #2 alternative fragment length(s) may be 3,178,200 bps INFO @ Wed, 08 Dec 2021 19:40:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.20_model.r INFO @ Wed, 08 Dec 2021 19:40:34: #3 Call peaks... INFO @ Wed, 08 Dec 2021 19:40:34: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 19:40:57: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.05_peaks.xls INFO @ Wed, 08 Dec 2021 19:40:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 19:40:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.05_summits.bed INFO @ Wed, 08 Dec 2021 19:40:57: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (15702 records, 4 fields): 21 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 19:41:16: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 19:41:29: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 19:41:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.10_peaks.xls INFO @ Wed, 08 Dec 2021 19:41:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 19:41:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.10_summits.bed INFO @ Wed, 08 Dec 2021 19:41:41: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (11943 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 19:41:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.20_peaks.xls INFO @ Wed, 08 Dec 2021 19:41:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 19:41:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/DRX184548/DRX184548.20_summits.bed INFO @ Wed, 08 Dec 2021 19:41:54: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (6559 records, 4 fields): 16 millis CompletedMACS2peakCalling