Job ID = 6626919 SRX = SRX7202525 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 16 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] 9 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] 1951394 / 16223486 = 0.1203 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 09:13:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.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 09:13:42: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:13:42: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:13:47: 1000000 INFO @ Tue, 14 Jul 2020 09:13:52: 2000000 INFO @ Tue, 14 Jul 2020 09:13:57: 3000000 INFO @ Tue, 14 Jul 2020 09:14:02: 4000000 INFO @ Tue, 14 Jul 2020 09:14:07: 5000000 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 09:14:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.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 09:14:12: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:14:12: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:14:12: 6000000 INFO @ Tue, 14 Jul 2020 09:14:18: 1000000 INFO @ Tue, 14 Jul 2020 09:14:18: 7000000 INFO @ Tue, 14 Jul 2020 09:14:24: 2000000 INFO @ Tue, 14 Jul 2020 09:14:24: 8000000 INFO @ Tue, 14 Jul 2020 09:14:30: 3000000 INFO @ Tue, 14 Jul 2020 09:14:30: 9000000 INFO @ Tue, 14 Jul 2020 09:14:36: 4000000 INFO @ Tue, 14 Jul 2020 09:14:36: 10000000 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 09:14:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.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 09:14:42: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:14:42: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:14:42: 5000000 INFO @ Tue, 14 Jul 2020 09:14:42: 11000000 INFO @ Tue, 14 Jul 2020 09:14:48: 6000000 INFO @ Tue, 14 Jul 2020 09:14:48: 12000000 INFO @ Tue, 14 Jul 2020 09:14:49: 1000000 INFO @ Tue, 14 Jul 2020 09:14:55: 7000000 INFO @ Tue, 14 Jul 2020 09:14:55: 13000000 INFO @ Tue, 14 Jul 2020 09:14:55: 2000000 INFO @ Tue, 14 Jul 2020 09:15:01: 8000000 INFO @ Tue, 14 Jul 2020 09:15:01: 14000000 INFO @ Tue, 14 Jul 2020 09:15:02: 3000000 INFO @ Tue, 14 Jul 2020 09:15:08: 9000000 INFO @ Tue, 14 Jul 2020 09:15:08: 15000000 INFO @ Tue, 14 Jul 2020 09:15:08: 4000000 INFO @ Tue, 14 Jul 2020 09:15:14: 16000000 INFO @ Tue, 14 Jul 2020 09:15:14: 10000000 INFO @ Tue, 14 Jul 2020 09:15:14: 5000000 INFO @ Tue, 14 Jul 2020 09:15:21: 17000000 INFO @ Tue, 14 Jul 2020 09:15:21: 6000000 INFO @ Tue, 14 Jul 2020 09:15:21: 11000000 INFO @ Tue, 14 Jul 2020 09:15:27: 18000000 INFO @ Tue, 14 Jul 2020 09:15:27: 7000000 INFO @ Tue, 14 Jul 2020 09:15:27: 12000000 INFO @ Tue, 14 Jul 2020 09:15:33: 19000000 INFO @ Tue, 14 Jul 2020 09:15:33: 8000000 INFO @ Tue, 14 Jul 2020 09:15:33: 13000000 INFO @ Tue, 14 Jul 2020 09:15:39: 9000000 INFO @ Tue, 14 Jul 2020 09:15:40: 20000000 INFO @ Tue, 14 Jul 2020 09:15:40: 14000000 INFO @ Tue, 14 Jul 2020 09:15:46: 10000000 INFO @ Tue, 14 Jul 2020 09:15:46: 21000000 INFO @ Tue, 14 Jul 2020 09:15:46: 15000000 INFO @ Tue, 14 Jul 2020 09:15:52: 11000000 INFO @ Tue, 14 Jul 2020 09:15:52: 22000000 INFO @ Tue, 14 Jul 2020 09:15:52: 16000000 INFO @ Tue, 14 Jul 2020 09:15:58: 12000000 INFO @ Tue, 14 Jul 2020 09:15:58: 23000000 INFO @ Tue, 14 Jul 2020 09:15:58: 17000000 INFO @ Tue, 14 Jul 2020 09:16:05: 13000000 INFO @ Tue, 14 Jul 2020 09:16:05: 18000000 INFO @ Tue, 14 Jul 2020 09:16:05: 24000000 INFO @ Tue, 14 Jul 2020 09:16:11: 14000000 INFO @ Tue, 14 Jul 2020 09:16:12: 19000000 INFO @ Tue, 14 Jul 2020 09:16:13: 25000000 INFO @ Tue, 14 Jul 2020 09:16:18: 15000000 INFO @ Tue, 14 Jul 2020 09:16:18: 20000000 INFO @ Tue, 14 Jul 2020 09:16:19: 26000000 INFO @ Tue, 14 Jul 2020 09:16:24: 16000000 INFO @ Tue, 14 Jul 2020 09:16:25: 21000000 INFO @ Tue, 14 Jul 2020 09:16:26: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 09:16:31: 17000000 INFO @ Tue, 14 Jul 2020 09:16:31: 22000000 INFO @ Tue, 14 Jul 2020 09:16:32: 28000000 INFO @ Tue, 14 Jul 2020 09:16:38: 18000000 INFO @ Tue, 14 Jul 2020 09:16:38: 23000000 INFO @ Tue, 14 Jul 2020 09:16:39: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 09:16:39: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 09:16:39: #1 total tags in treatment: 13135042 INFO @ Tue, 14 Jul 2020 09:16:39: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:16:39: #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 09:16:39: #1 tags after filtering in treatment: 11871616 INFO @ Tue, 14 Jul 2020 09:16:39: #1 Redundant rate of treatment: 0.10 INFO @ Tue, 14 Jul 2020 09:16:39: #1 finished! INFO @ Tue, 14 Jul 2020 09:16:39: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:16:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:16:40: #2 number of paired peaks: 1514 INFO @ Tue, 14 Jul 2020 09:16:40: start model_add_line... INFO @ Tue, 14 Jul 2020 09:16:40: start X-correlation... INFO @ Tue, 14 Jul 2020 09:16:40: end of X-cor INFO @ Tue, 14 Jul 2020 09:16:40: #2 finished! INFO @ Tue, 14 Jul 2020 09:16:40: #2 predicted fragment length is 256 bps INFO @ Tue, 14 Jul 2020 09:16:40: #2 alternative fragment length(s) may be 4,249,256 bps INFO @ Tue, 14 Jul 2020 09:16:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.05_model.r INFO @ Tue, 14 Jul 2020 09:16:40: #3 Call peaks... INFO @ Tue, 14 Jul 2020 09:16:40: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 09:16:44: 19000000 INFO @ Tue, 14 Jul 2020 09:16:44: 24000000 INFO @ Tue, 14 Jul 2020 09:16:50: 20000000 INFO @ Tue, 14 Jul 2020 09:16:51: 25000000 INFO @ Tue, 14 Jul 2020 09:16:57: 21000000 INFO @ Tue, 14 Jul 2020 09:16:57: 26000000 INFO @ Tue, 14 Jul 2020 09:17:03: 22000000 INFO @ Tue, 14 Jul 2020 09:17:03: 27000000 INFO @ Tue, 14 Jul 2020 09:17:09: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 09:17:09: 23000000 INFO @ Tue, 14 Jul 2020 09:17:09: 28000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 09:17:15: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 09:17:15: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 09:17:15: #1 total tags in treatment: 13135042 INFO @ Tue, 14 Jul 2020 09:17:15: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:17:15: #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 09:17:15: 24000000 INFO @ Tue, 14 Jul 2020 09:17:15: #1 tags after filtering in treatment: 11871616 INFO @ Tue, 14 Jul 2020 09:17:15: #1 Redundant rate of treatment: 0.10 INFO @ Tue, 14 Jul 2020 09:17:15: #1 finished! INFO @ Tue, 14 Jul 2020 09:17:15: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:17:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:17:16: #2 number of paired peaks: 1514 INFO @ Tue, 14 Jul 2020 09:17:16: start model_add_line... INFO @ Tue, 14 Jul 2020 09:17:16: start X-correlation... INFO @ Tue, 14 Jul 2020 09:17:16: end of X-cor INFO @ Tue, 14 Jul 2020 09:17:16: #2 finished! INFO @ Tue, 14 Jul 2020 09:17:16: #2 predicted fragment length is 256 bps INFO @ Tue, 14 Jul 2020 09:17:16: #2 alternative fragment length(s) may be 4,249,256 bps INFO @ Tue, 14 Jul 2020 09:17:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.10_model.r INFO @ Tue, 14 Jul 2020 09:17:16: #3 Call peaks... INFO @ Tue, 14 Jul 2020 09:17:16: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 09:17:21: 25000000 INFO @ Tue, 14 Jul 2020 09:17:22: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.05_peaks.xls INFO @ Tue, 14 Jul 2020 09:17:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 09:17:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.05_summits.bed INFO @ Tue, 14 Jul 2020 09:17:22: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (8166 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:17:27: 26000000 INFO @ Tue, 14 Jul 2020 09:17:33: 27000000 INFO @ Tue, 14 Jul 2020 09:17:38: 28000000 INFO @ Tue, 14 Jul 2020 09:17:44: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 09:17:44: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 09:17:44: #1 total tags in treatment: 13135042 INFO @ Tue, 14 Jul 2020 09:17:44: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:17:44: #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 09:17:44: #1 tags after filtering in treatment: 11871616 INFO @ Tue, 14 Jul 2020 09:17:44: #1 Redundant rate of treatment: 0.10 INFO @ Tue, 14 Jul 2020 09:17:44: #1 finished! INFO @ Tue, 14 Jul 2020 09:17:44: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:17:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:17:44: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 09:17:45: #2 number of paired peaks: 1514 INFO @ Tue, 14 Jul 2020 09:17:45: start model_add_line... INFO @ Tue, 14 Jul 2020 09:17:45: start X-correlation... INFO @ Tue, 14 Jul 2020 09:17:45: end of X-cor INFO @ Tue, 14 Jul 2020 09:17:45: #2 finished! INFO @ Tue, 14 Jul 2020 09:17:45: #2 predicted fragment length is 256 bps INFO @ Tue, 14 Jul 2020 09:17:45: #2 alternative fragment length(s) may be 4,249,256 bps INFO @ Tue, 14 Jul 2020 09:17:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.20_model.r INFO @ Tue, 14 Jul 2020 09:17:45: #3 Call peaks... INFO @ Tue, 14 Jul 2020 09:17:45: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 09:17:57: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.10_peaks.xls INFO @ Tue, 14 Jul 2020 09:17:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 09:17:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.10_summits.bed INFO @ Tue, 14 Jul 2020 09:17:57: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (6189 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:18:14: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 09:18:27: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.20_peaks.xls INFO @ Tue, 14 Jul 2020 09:18:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 09:18:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202525/SRX7202525.20_summits.bed INFO @ Tue, 14 Jul 2020 09:18:27: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (3349 records, 4 fields): 5 millis CompletedMACS2peakCalling