Job ID = 14158047 SRX = SRX6799187 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: 00:11:47 38150350 reads; of these: 38150350 (100.00%) were unpaired; of these: 1480865 (3.88%) aligned 0 times 29054037 (76.16%) aligned exactly 1 time 7615448 (19.96%) aligned >1 times 96.12% overall alignment rate Time searching: 00:11:47 Overall time: 00:11:47 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 16 files... [bam_rmdupse_core] 11562438 / 36669485 = 0.3153 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 14:22:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.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 14:22:54: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:22:54: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:23:01: 1000000 INFO @ Wed, 08 Dec 2021 14:23:09: 2000000 INFO @ Wed, 08 Dec 2021 14:23:16: 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 14:23:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.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 14:23:24: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:23:24: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:23:24: 4000000 INFO @ Wed, 08 Dec 2021 14:23:32: 1000000 INFO @ Wed, 08 Dec 2021 14:23:32: 5000000 INFO @ Wed, 08 Dec 2021 14:23:39: 2000000 INFO @ Wed, 08 Dec 2021 14:23:39: 6000000 INFO @ Wed, 08 Dec 2021 14:23:47: 7000000 INFO @ Wed, 08 Dec 2021 14:23:47: 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 14:23:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.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 14:23:53: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:23:53: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:23:55: 8000000 INFO @ Wed, 08 Dec 2021 14:23:55: 4000000 INFO @ Wed, 08 Dec 2021 14:24:02: 9000000 INFO @ Wed, 08 Dec 2021 14:24:03: 5000000 INFO @ Wed, 08 Dec 2021 14:24:03: 1000000 INFO @ Wed, 08 Dec 2021 14:24:10: 10000000 INFO @ Wed, 08 Dec 2021 14:24:11: 6000000 INFO @ Wed, 08 Dec 2021 14:24:13: 2000000 INFO @ Wed, 08 Dec 2021 14:24:18: 11000000 INFO @ Wed, 08 Dec 2021 14:24:18: 7000000 INFO @ Wed, 08 Dec 2021 14:24:22: 3000000 INFO @ Wed, 08 Dec 2021 14:24:26: 12000000 INFO @ Wed, 08 Dec 2021 14:24:26: 8000000 INFO @ Wed, 08 Dec 2021 14:24:32: 4000000 INFO @ Wed, 08 Dec 2021 14:24:34: 9000000 INFO @ Wed, 08 Dec 2021 14:24:35: 13000000 INFO @ Wed, 08 Dec 2021 14:24:42: 10000000 INFO @ Wed, 08 Dec 2021 14:24:42: 5000000 INFO @ Wed, 08 Dec 2021 14:24:43: 14000000 INFO @ Wed, 08 Dec 2021 14:24:49: 11000000 INFO @ Wed, 08 Dec 2021 14:24:51: 15000000 INFO @ Wed, 08 Dec 2021 14:24:52: 6000000 INFO @ Wed, 08 Dec 2021 14:24:57: 12000000 INFO @ Wed, 08 Dec 2021 14:24:59: 16000000 INFO @ Wed, 08 Dec 2021 14:25:02: 7000000 INFO @ Wed, 08 Dec 2021 14:25:05: 13000000 INFO @ Wed, 08 Dec 2021 14:25:08: 17000000 INFO @ Wed, 08 Dec 2021 14:25:11: 8000000 INFO @ Wed, 08 Dec 2021 14:25:14: 14000000 INFO @ Wed, 08 Dec 2021 14:25:16: 18000000 INFO @ Wed, 08 Dec 2021 14:25:20: 9000000 INFO @ Wed, 08 Dec 2021 14:25:22: 15000000 INFO @ Wed, 08 Dec 2021 14:25:25: 19000000 INFO @ Wed, 08 Dec 2021 14:25:29: 10000000 INFO @ Wed, 08 Dec 2021 14:25:30: 16000000 INFO @ Wed, 08 Dec 2021 14:25:34: 20000000 INFO @ Wed, 08 Dec 2021 14:25:39: 17000000 INFO @ Wed, 08 Dec 2021 14:25:39: 11000000 INFO @ Wed, 08 Dec 2021 14:25:42: 21000000 INFO @ Wed, 08 Dec 2021 14:25:48: 12000000 INFO @ Wed, 08 Dec 2021 14:25:48: 18000000 INFO @ Wed, 08 Dec 2021 14:25:50: 22000000 INFO @ Wed, 08 Dec 2021 14:25:57: 19000000 INFO @ Wed, 08 Dec 2021 14:25:57: 13000000 INFO @ Wed, 08 Dec 2021 14:25:58: 23000000 INFO @ Wed, 08 Dec 2021 14:26:05: 20000000 INFO @ Wed, 08 Dec 2021 14:26:06: 24000000 INFO @ Wed, 08 Dec 2021 14:26:07: 14000000 INFO @ Wed, 08 Dec 2021 14:26:14: 21000000 INFO @ Wed, 08 Dec 2021 14:26:14: 25000000 INFO @ Wed, 08 Dec 2021 14:26:15: #1 tag size is determined as 49 bps INFO @ Wed, 08 Dec 2021 14:26:15: #1 tag size = 49 INFO @ Wed, 08 Dec 2021 14:26:15: #1 total tags in treatment: 25107047 INFO @ Wed, 08 Dec 2021 14:26:15: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:26:15: #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 14:26:16: #1 tags after filtering in treatment: 25107047 INFO @ Wed, 08 Dec 2021 14:26:16: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:26:16: #1 finished! INFO @ Wed, 08 Dec 2021 14:26:16: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:26:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:26:17: 15000000 INFO @ Wed, 08 Dec 2021 14:26:18: #2 number of paired peaks: 127 WARNING @ Wed, 08 Dec 2021 14:26:18: Fewer paired peaks (127) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 127 pairs to build model! INFO @ Wed, 08 Dec 2021 14:26:18: start model_add_line... INFO @ Wed, 08 Dec 2021 14:26:18: start X-correlation... INFO @ Wed, 08 Dec 2021 14:26:18: end of X-cor INFO @ Wed, 08 Dec 2021 14:26:18: #2 finished! INFO @ Wed, 08 Dec 2021 14:26:18: #2 predicted fragment length is 138 bps INFO @ Wed, 08 Dec 2021 14:26:18: #2 alternative fragment length(s) may be 3,66,97,138 bps INFO @ Wed, 08 Dec 2021 14:26:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.05_model.r INFO @ Wed, 08 Dec 2021 14:26:18: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:26:18: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 14:26:23: 22000000 INFO @ Wed, 08 Dec 2021 14:26:26: 16000000 INFO @ Wed, 08 Dec 2021 14:26:31: 23000000 INFO @ Wed, 08 Dec 2021 14:26:36: 17000000 INFO @ Wed, 08 Dec 2021 14:26:39: 24000000 INFO @ Wed, 08 Dec 2021 14:26:45: 18000000 INFO @ Wed, 08 Dec 2021 14:26:46: 25000000 INFO @ Wed, 08 Dec 2021 14:26:47: #1 tag size is determined as 49 bps INFO @ Wed, 08 Dec 2021 14:26:47: #1 tag size = 49 INFO @ Wed, 08 Dec 2021 14:26:47: #1 total tags in treatment: 25107047 INFO @ Wed, 08 Dec 2021 14:26:47: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:26:47: #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 14:26:48: #1 tags after filtering in treatment: 25107047 INFO @ Wed, 08 Dec 2021 14:26:48: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:26:48: #1 finished! INFO @ Wed, 08 Dec 2021 14:26:48: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:26:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:26:50: #2 number of paired peaks: 127 WARNING @ Wed, 08 Dec 2021 14:26:50: Fewer paired peaks (127) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 127 pairs to build model! INFO @ Wed, 08 Dec 2021 14:26:50: start model_add_line... INFO @ Wed, 08 Dec 2021 14:26:50: start X-correlation... INFO @ Wed, 08 Dec 2021 14:26:50: end of X-cor INFO @ Wed, 08 Dec 2021 14:26:50: #2 finished! INFO @ Wed, 08 Dec 2021 14:26:50: #2 predicted fragment length is 138 bps INFO @ Wed, 08 Dec 2021 14:26:50: #2 alternative fragment length(s) may be 3,66,97,138 bps INFO @ Wed, 08 Dec 2021 14:26:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.10_model.r INFO @ Wed, 08 Dec 2021 14:26:50: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:26:50: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:26:55: 19000000 INFO @ Wed, 08 Dec 2021 14:27:04: 20000000 INFO @ Wed, 08 Dec 2021 14:27:13: 21000000 INFO @ Wed, 08 Dec 2021 14:27:18: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:27:22: 22000000 BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 14:27:31: 23000000 INFO @ Wed, 08 Dec 2021 14:27:40: 24000000 INFO @ Wed, 08 Dec 2021 14:27:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.05_peaks.xls INFO @ Wed, 08 Dec 2021 14:27:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:27:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.05_summits.bed INFO @ Wed, 08 Dec 2021 14:27:48: Done! pass1 - making usageList (7 chroms): 3 millis pass2 - checking and writing primary data (14457 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 14:27:49: 25000000 INFO @ Wed, 08 Dec 2021 14:27:50: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:27:50: #1 tag size is determined as 49 bps INFO @ Wed, 08 Dec 2021 14:27:50: #1 tag size = 49 INFO @ Wed, 08 Dec 2021 14:27:50: #1 total tags in treatment: 25107047 INFO @ Wed, 08 Dec 2021 14:27:50: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:27:50: #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 14:27:51: #1 tags after filtering in treatment: 25107047 INFO @ Wed, 08 Dec 2021 14:27:51: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:27:51: #1 finished! INFO @ Wed, 08 Dec 2021 14:27:51: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:27:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:27:53: #2 number of paired peaks: 127 WARNING @ Wed, 08 Dec 2021 14:27:53: Fewer paired peaks (127) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 127 pairs to build model! INFO @ Wed, 08 Dec 2021 14:27:53: start model_add_line... INFO @ Wed, 08 Dec 2021 14:27:53: start X-correlation... INFO @ Wed, 08 Dec 2021 14:27:53: end of X-cor INFO @ Wed, 08 Dec 2021 14:27:53: #2 finished! INFO @ Wed, 08 Dec 2021 14:27:53: #2 predicted fragment length is 138 bps INFO @ Wed, 08 Dec 2021 14:27:53: #2 alternative fragment length(s) may be 3,66,97,138 bps INFO @ Wed, 08 Dec 2021 14:27:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.20_model.r INFO @ Wed, 08 Dec 2021 14:27:53: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:27:53: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:28:18: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.10_peaks.xls INFO @ Wed, 08 Dec 2021 14:28:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:28:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.10_summits.bed INFO @ Wed, 08 Dec 2021 14:28:18: Done! pass1 - making usageList (7 chroms): 5 millis pass2 - checking and writing primary data (9220 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 14:28:54: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:29:23: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.20_peaks.xls INFO @ Wed, 08 Dec 2021 14:29:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:29:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6799187/SRX6799187.20_summits.bed INFO @ Wed, 08 Dec 2021 14:29:23: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3408 records, 4 fields): 10 millis CompletedMACS2peakCalling