Job ID = 6626611 SRX = SRX7202524 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] 40 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] 3592911 / 14041482 = 0.2559 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 08:04:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.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 08:04:57: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:04:57: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:05:03: 1000000 INFO @ Tue, 14 Jul 2020 08:05:08: 2000000 INFO @ Tue, 14 Jul 2020 08:05:14: 3000000 INFO @ Tue, 14 Jul 2020 08:05:20: 4000000 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 08:05:26: 5000000 INFO @ Tue, 14 Jul 2020 08:05:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.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 08:05:27: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:05:27: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:05:32: 6000000 INFO @ Tue, 14 Jul 2020 08:05:32: 1000000 INFO @ Tue, 14 Jul 2020 08:05:38: 2000000 INFO @ Tue, 14 Jul 2020 08:05:38: 7000000 INFO @ Tue, 14 Jul 2020 08:05:43: 3000000 INFO @ Tue, 14 Jul 2020 08:05:44: 8000000 INFO @ Tue, 14 Jul 2020 08:05:49: 4000000 INFO @ Tue, 14 Jul 2020 08:05:50: 9000000 INFO @ Tue, 14 Jul 2020 08:05:54: 5000000 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 08:05:56: 10000000 INFO @ Tue, 14 Jul 2020 08:05:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.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 08:05:57: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:05:57: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:05:59: 6000000 INFO @ Tue, 14 Jul 2020 08:06:02: 11000000 INFO @ Tue, 14 Jul 2020 08:06:03: 1000000 INFO @ Tue, 14 Jul 2020 08:06:05: 7000000 INFO @ Tue, 14 Jul 2020 08:06:09: 12000000 INFO @ Tue, 14 Jul 2020 08:06:10: 2000000 INFO @ Tue, 14 Jul 2020 08:06:10: 8000000 INFO @ Tue, 14 Jul 2020 08:06:15: 13000000 INFO @ Tue, 14 Jul 2020 08:06:16: 9000000 INFO @ Tue, 14 Jul 2020 08:06:16: 3000000 INFO @ Tue, 14 Jul 2020 08:06:21: 10000000 INFO @ Tue, 14 Jul 2020 08:06:21: 14000000 INFO @ Tue, 14 Jul 2020 08:06:23: 4000000 INFO @ Tue, 14 Jul 2020 08:06:27: 11000000 INFO @ Tue, 14 Jul 2020 08:06:28: 15000000 INFO @ Tue, 14 Jul 2020 08:06:29: 5000000 INFO @ Tue, 14 Jul 2020 08:06:32: 12000000 INFO @ Tue, 14 Jul 2020 08:06:34: 16000000 INFO @ Tue, 14 Jul 2020 08:06:35: 6000000 INFO @ Tue, 14 Jul 2020 08:06:37: 13000000 INFO @ Tue, 14 Jul 2020 08:06:41: 17000000 INFO @ Tue, 14 Jul 2020 08:06:42: 7000000 INFO @ Tue, 14 Jul 2020 08:06:43: 14000000 INFO @ Tue, 14 Jul 2020 08:06:47: 18000000 INFO @ Tue, 14 Jul 2020 08:06:48: 8000000 INFO @ Tue, 14 Jul 2020 08:06:48: 15000000 INFO @ Tue, 14 Jul 2020 08:06:53: 19000000 INFO @ Tue, 14 Jul 2020 08:06:54: 16000000 INFO @ Tue, 14 Jul 2020 08:06:54: 9000000 INFO @ Tue, 14 Jul 2020 08:06:59: 20000000 INFO @ Tue, 14 Jul 2020 08:06:59: 17000000 INFO @ Tue, 14 Jul 2020 08:07:01: 10000000 INFO @ Tue, 14 Jul 2020 08:07:05: 18000000 INFO @ Tue, 14 Jul 2020 08:07:05: 21000000 INFO @ Tue, 14 Jul 2020 08:07:06: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:07:06: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:07:06: #1 total tags in treatment: 9493117 INFO @ Tue, 14 Jul 2020 08:07:06: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:07:06: #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 08:07:07: #1 tags after filtering in treatment: 8313131 INFO @ Tue, 14 Jul 2020 08:07:07: #1 Redundant rate of treatment: 0.12 INFO @ Tue, 14 Jul 2020 08:07:07: #1 finished! INFO @ Tue, 14 Jul 2020 08:07:07: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:07:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:07:07: 11000000 INFO @ Tue, 14 Jul 2020 08:07:07: #2 number of paired peaks: 5068 INFO @ Tue, 14 Jul 2020 08:07:07: start model_add_line... INFO @ Tue, 14 Jul 2020 08:07:08: start X-correlation... INFO @ Tue, 14 Jul 2020 08:07:08: end of X-cor INFO @ Tue, 14 Jul 2020 08:07:08: #2 finished! INFO @ Tue, 14 Jul 2020 08:07:08: #2 predicted fragment length is 269 bps INFO @ Tue, 14 Jul 2020 08:07:08: #2 alternative fragment length(s) may be 4,269 bps INFO @ Tue, 14 Jul 2020 08:07:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.05_model.r INFO @ Tue, 14 Jul 2020 08:07:08: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:07:08: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:07:10: 19000000 INFO @ Tue, 14 Jul 2020 08:07:13: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:07:15: 20000000 INFO @ Tue, 14 Jul 2020 08:07:19: 13000000 INFO @ Tue, 14 Jul 2020 08:07:21: 21000000 INFO @ Tue, 14 Jul 2020 08:07:22: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:07:22: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:07:22: #1 total tags in treatment: 9493117 INFO @ Tue, 14 Jul 2020 08:07:22: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:07:22: #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 08:07:22: #1 tags after filtering in treatment: 8313131 INFO @ Tue, 14 Jul 2020 08:07:22: #1 Redundant rate of treatment: 0.12 INFO @ Tue, 14 Jul 2020 08:07:22: #1 finished! INFO @ Tue, 14 Jul 2020 08:07:22: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:07:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:07:23: #2 number of paired peaks: 5068 INFO @ Tue, 14 Jul 2020 08:07:23: start model_add_line... INFO @ Tue, 14 Jul 2020 08:07:23: start X-correlation... INFO @ Tue, 14 Jul 2020 08:07:23: end of X-cor INFO @ Tue, 14 Jul 2020 08:07:23: #2 finished! INFO @ Tue, 14 Jul 2020 08:07:23: #2 predicted fragment length is 269 bps INFO @ Tue, 14 Jul 2020 08:07:23: #2 alternative fragment length(s) may be 4,269 bps INFO @ Tue, 14 Jul 2020 08:07:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.10_model.r INFO @ Tue, 14 Jul 2020 08:07:23: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:07:23: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:07:25: 14000000 INFO @ Tue, 14 Jul 2020 08:07:31: 15000000 INFO @ Tue, 14 Jul 2020 08:07:32: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:07:37: 16000000 INFO @ Tue, 14 Jul 2020 08:07:42: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:07:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:07:42: 17000000 INFO @ Tue, 14 Jul 2020 08:07:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.05_summits.bed INFO @ Tue, 14 Jul 2020 08:07:42: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (8147 records, 4 fields): 8 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:07:48: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:07:48: 18000000 INFO @ Tue, 14 Jul 2020 08:07:54: 19000000 INFO @ Tue, 14 Jul 2020 08:07:57: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:07:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:07:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.10_summits.bed INFO @ Tue, 14 Jul 2020 08:07:57: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (6558 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:07:59: 20000000 INFO @ Tue, 14 Jul 2020 08:08:05: 21000000 INFO @ Tue, 14 Jul 2020 08:08:06: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:08:06: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:08:06: #1 total tags in treatment: 9493117 INFO @ Tue, 14 Jul 2020 08:08:06: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:08:06: #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 08:08:06: #1 tags after filtering in treatment: 8313131 INFO @ Tue, 14 Jul 2020 08:08:06: #1 Redundant rate of treatment: 0.12 INFO @ Tue, 14 Jul 2020 08:08:06: #1 finished! INFO @ Tue, 14 Jul 2020 08:08:06: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:08:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:08:07: #2 number of paired peaks: 5068 INFO @ Tue, 14 Jul 2020 08:08:07: start model_add_line... INFO @ Tue, 14 Jul 2020 08:08:07: start X-correlation... INFO @ Tue, 14 Jul 2020 08:08:07: end of X-cor INFO @ Tue, 14 Jul 2020 08:08:07: #2 finished! INFO @ Tue, 14 Jul 2020 08:08:07: #2 predicted fragment length is 269 bps INFO @ Tue, 14 Jul 2020 08:08:07: #2 alternative fragment length(s) may be 4,269 bps INFO @ Tue, 14 Jul 2020 08:08:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.20_model.r INFO @ Tue, 14 Jul 2020 08:08:07: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:08:07: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:08:32: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:08:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:08:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:08:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202524/SRX7202524.20_summits.bed INFO @ Tue, 14 Jul 2020 08:08:41: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4190 records, 4 fields): 9 millis CompletedMACS2peakCalling