Job ID = 6626647 SRX = SRX7202523 Genome = ce11 sra ファイルのダウンロード中... Read layout: PAIRED 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 Error, fewer reads in file specified with -2 than in file specified with -1 terminate called after throwing an instance of 'int' (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped) 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_rmdup_core] processing reference chrI... [bam_rmdup_core] 142 unmatched pairs [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 5436602 / 13243550 = 0.4105 in library ' ' awk: cmd. line:1: (FILENAME=- FNR=1) fatal: division by zero attempted BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:19:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.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 @ Tue, 14 Jul 2020 08:19:06: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:19:06: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:19:10: 1000000 INFO @ Tue, 14 Jul 2020 08:19:14: 2000000 INFO @ Tue, 14 Jul 2020 08:19:18: 3000000 INFO @ Tue, 14 Jul 2020 08:19:22: 4000000 INFO @ Tue, 14 Jul 2020 08:19:26: 5000000 INFO @ Tue, 14 Jul 2020 08:19:31: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:19:35: 7000000 INFO @ Tue, 14 Jul 2020 08:19:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.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 @ Tue, 14 Jul 2020 08:19:36: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:19:36: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:19:39: 8000000 INFO @ Tue, 14 Jul 2020 08:19:40: 1000000 INFO @ Tue, 14 Jul 2020 08:19:43: 9000000 INFO @ Tue, 14 Jul 2020 08:19:44: 2000000 INFO @ Tue, 14 Jul 2020 08:19:47: 10000000 INFO @ Tue, 14 Jul 2020 08:19:49: 3000000 INFO @ Tue, 14 Jul 2020 08:19:51: 11000000 INFO @ Tue, 14 Jul 2020 08:19:53: 4000000 INFO @ Tue, 14 Jul 2020 08:19:55: 12000000 INFO @ Tue, 14 Jul 2020 08:19:57: 5000000 INFO @ Tue, 14 Jul 2020 08:19:59: 13000000 INFO @ Tue, 14 Jul 2020 08:20:01: 6000000 INFO @ Tue, 14 Jul 2020 08:20:04: 14000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:20:05: 7000000 INFO @ Tue, 14 Jul 2020 08:20:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.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 @ Tue, 14 Jul 2020 08:20:06: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:20:06: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:20:08: 15000000 INFO @ Tue, 14 Jul 2020 08:20:09: 8000000 INFO @ Tue, 14 Jul 2020 08:20:11: 1000000 INFO @ Tue, 14 Jul 2020 08:20:12: 16000000 INFO @ Tue, 14 Jul 2020 08:20:12: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:20:12: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:20:12: #1 total tags in treatment: 6733234 INFO @ Tue, 14 Jul 2020 08:20:12: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:20:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:20:12: #1 tags after filtering in treatment: 6211063 INFO @ Tue, 14 Jul 2020 08:20:12: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 14 Jul 2020 08:20:12: #1 finished! INFO @ Tue, 14 Jul 2020 08:20:12: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:20:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:20:13: #2 number of paired peaks: 3995 INFO @ Tue, 14 Jul 2020 08:20:13: start model_add_line... INFO @ Tue, 14 Jul 2020 08:20:13: start X-correlation... INFO @ Tue, 14 Jul 2020 08:20:13: end of X-cor INFO @ Tue, 14 Jul 2020 08:20:13: #2 finished! INFO @ Tue, 14 Jul 2020 08:20:13: #2 predicted fragment length is 273 bps INFO @ Tue, 14 Jul 2020 08:20:13: #2 alternative fragment length(s) may be 4,273 bps INFO @ Tue, 14 Jul 2020 08:20:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.05_model.r INFO @ Tue, 14 Jul 2020 08:20:13: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:20:13: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:20:13: 9000000 INFO @ Tue, 14 Jul 2020 08:20:15: 2000000 INFO @ Tue, 14 Jul 2020 08:20:18: 10000000 INFO @ Tue, 14 Jul 2020 08:20:19: 3000000 INFO @ Tue, 14 Jul 2020 08:20:22: 11000000 INFO @ Tue, 14 Jul 2020 08:20:23: 4000000 INFO @ Tue, 14 Jul 2020 08:20:26: 12000000 INFO @ Tue, 14 Jul 2020 08:20:27: 5000000 INFO @ Tue, 14 Jul 2020 08:20:30: 13000000 INFO @ Tue, 14 Jul 2020 08:20:30: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:20:31: 6000000 INFO @ Tue, 14 Jul 2020 08:20:34: 14000000 INFO @ Tue, 14 Jul 2020 08:20:36: 7000000 INFO @ Tue, 14 Jul 2020 08:20:38: 15000000 INFO @ Tue, 14 Jul 2020 08:20:38: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:20:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:20:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.05_summits.bed INFO @ Tue, 14 Jul 2020 08:20:38: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (7274 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:20:40: 8000000 INFO @ Tue, 14 Jul 2020 08:20:42: 16000000 INFO @ Tue, 14 Jul 2020 08:20:42: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:20:42: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:20:42: #1 total tags in treatment: 6733234 INFO @ Tue, 14 Jul 2020 08:20:42: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:20:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:20:42: #1 tags after filtering in treatment: 6211063 INFO @ Tue, 14 Jul 2020 08:20:42: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 14 Jul 2020 08:20:42: #1 finished! INFO @ Tue, 14 Jul 2020 08:20:42: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:20:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:20:43: #2 number of paired peaks: 3995 INFO @ Tue, 14 Jul 2020 08:20:43: start model_add_line... INFO @ Tue, 14 Jul 2020 08:20:43: start X-correlation... INFO @ Tue, 14 Jul 2020 08:20:43: end of X-cor INFO @ Tue, 14 Jul 2020 08:20:43: #2 finished! INFO @ Tue, 14 Jul 2020 08:20:43: #2 predicted fragment length is 273 bps INFO @ Tue, 14 Jul 2020 08:20:43: #2 alternative fragment length(s) may be 4,273 bps INFO @ Tue, 14 Jul 2020 08:20:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.10_model.r INFO @ Tue, 14 Jul 2020 08:20:43: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:20:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:20:44: 9000000 INFO @ Tue, 14 Jul 2020 08:20:48: 10000000 INFO @ Tue, 14 Jul 2020 08:20:52: 11000000 INFO @ Tue, 14 Jul 2020 08:20:56: 12000000 INFO @ Tue, 14 Jul 2020 08:21:00: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:21:00: 13000000 INFO @ Tue, 14 Jul 2020 08:21:04: 14000000 INFO @ Tue, 14 Jul 2020 08:21:08: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:21:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:21:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.10_summits.bed INFO @ Tue, 14 Jul 2020 08:21:08: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5569 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:21:09: 15000000 INFO @ Tue, 14 Jul 2020 08:21:13: 16000000 INFO @ Tue, 14 Jul 2020 08:21:13: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:21:13: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:21:13: #1 total tags in treatment: 6733234 INFO @ Tue, 14 Jul 2020 08:21:13: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:21:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:21:13: #1 tags after filtering in treatment: 6211063 INFO @ Tue, 14 Jul 2020 08:21:13: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 14 Jul 2020 08:21:13: #1 finished! INFO @ Tue, 14 Jul 2020 08:21:13: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:21:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:21:14: #2 number of paired peaks: 3995 INFO @ Tue, 14 Jul 2020 08:21:14: start model_add_line... INFO @ Tue, 14 Jul 2020 08:21:14: start X-correlation... INFO @ Tue, 14 Jul 2020 08:21:14: end of X-cor INFO @ Tue, 14 Jul 2020 08:21:14: #2 finished! INFO @ Tue, 14 Jul 2020 08:21:14: #2 predicted fragment length is 273 bps INFO @ Tue, 14 Jul 2020 08:21:14: #2 alternative fragment length(s) may be 4,273 bps INFO @ Tue, 14 Jul 2020 08:21:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.20_model.r INFO @ Tue, 14 Jul 2020 08:21:14: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:21:14: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:21:30: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:21:37: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:21:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:21:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202523/SRX7202523.20_summits.bed INFO @ Tue, 14 Jul 2020 08:21:37: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2951 records, 4 fields): 4 millis CompletedMACS2peakCalling BigWig に変換しました。