Job ID = 6626704 SRX = SRX7202519 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: 00:00:01 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] 41 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] 2686476 / 13674898 = 0.1965 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 08:38:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.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 08:38:38: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:38:38: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:38:44: 1000000 INFO @ Tue, 14 Jul 2020 08:38:50: 2000000 INFO @ Tue, 14 Jul 2020 08:38:56: 3000000 INFO @ Tue, 14 Jul 2020 08:39:02: 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 08:39:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.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 08:39:08: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:39:08: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:39:09: 5000000 INFO @ Tue, 14 Jul 2020 08:39:16: 6000000 INFO @ Tue, 14 Jul 2020 08:39:19: 1000000 INFO @ Tue, 14 Jul 2020 08:39:24: 7000000 INFO @ Tue, 14 Jul 2020 08:39:26: 2000000 INFO @ Tue, 14 Jul 2020 08:39:31: 8000000 INFO @ Tue, 14 Jul 2020 08:39:33: 3000000 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 08:39:38: 9000000 INFO @ Tue, 14 Jul 2020 08:39:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.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 08:39:38: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:39:38: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:39:40: 4000000 INFO @ Tue, 14 Jul 2020 08:39:46: 10000000 INFO @ Tue, 14 Jul 2020 08:39:46: 1000000 INFO @ Tue, 14 Jul 2020 08:39:48: 5000000 INFO @ Tue, 14 Jul 2020 08:39:53: 11000000 INFO @ Tue, 14 Jul 2020 08:39:54: 2000000 INFO @ Tue, 14 Jul 2020 08:39:55: 6000000 INFO @ Tue, 14 Jul 2020 08:40:01: 12000000 INFO @ Tue, 14 Jul 2020 08:40:01: 3000000 INFO @ Tue, 14 Jul 2020 08:40:02: 7000000 INFO @ Tue, 14 Jul 2020 08:40:08: 13000000 INFO @ Tue, 14 Jul 2020 08:40:08: 4000000 INFO @ Tue, 14 Jul 2020 08:40:10: 8000000 INFO @ Tue, 14 Jul 2020 08:40:15: 14000000 INFO @ Tue, 14 Jul 2020 08:40:16: 5000000 INFO @ Tue, 14 Jul 2020 08:40:17: 9000000 INFO @ Tue, 14 Jul 2020 08:40:23: 15000000 INFO @ Tue, 14 Jul 2020 08:40:24: 6000000 INFO @ Tue, 14 Jul 2020 08:40:24: 10000000 INFO @ Tue, 14 Jul 2020 08:40:30: 16000000 INFO @ Tue, 14 Jul 2020 08:40:31: 7000000 INFO @ Tue, 14 Jul 2020 08:40:31: 11000000 INFO @ Tue, 14 Jul 2020 08:40:37: 17000000 INFO @ Tue, 14 Jul 2020 08:40:39: 12000000 INFO @ Tue, 14 Jul 2020 08:40:39: 8000000 INFO @ Tue, 14 Jul 2020 08:40:45: 18000000 INFO @ Tue, 14 Jul 2020 08:40:46: 13000000 INFO @ Tue, 14 Jul 2020 08:40:47: 9000000 INFO @ Tue, 14 Jul 2020 08:40:52: 19000000 INFO @ Tue, 14 Jul 2020 08:40:54: 14000000 INFO @ Tue, 14 Jul 2020 08:40:54: 10000000 INFO @ Tue, 14 Jul 2020 08:41:00: 20000000 INFO @ Tue, 14 Jul 2020 08:41:01: 15000000 INFO @ Tue, 14 Jul 2020 08:41:02: 11000000 INFO @ Tue, 14 Jul 2020 08:41:07: 21000000 INFO @ Tue, 14 Jul 2020 08:41:08: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:41:10: 12000000 INFO @ Tue, 14 Jul 2020 08:41:14: 22000000 INFO @ Tue, 14 Jul 2020 08:41:16: 17000000 INFO @ Tue, 14 Jul 2020 08:41:18: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:41:18: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:41:18: #1 total tags in treatment: 9321948 INFO @ Tue, 14 Jul 2020 08:41:18: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:41:18: #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 08:41:18: 13000000 INFO @ Tue, 14 Jul 2020 08:41:18: #1 tags after filtering in treatment: 8044103 INFO @ Tue, 14 Jul 2020 08:41:18: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 08:41:18: #1 finished! INFO @ Tue, 14 Jul 2020 08:41:18: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:41:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:41:19: #2 number of paired peaks: 5424 INFO @ Tue, 14 Jul 2020 08:41:19: start model_add_line... INFO @ Tue, 14 Jul 2020 08:41:19: start X-correlation... INFO @ Tue, 14 Jul 2020 08:41:19: end of X-cor INFO @ Tue, 14 Jul 2020 08:41:19: #2 finished! INFO @ Tue, 14 Jul 2020 08:41:19: #2 predicted fragment length is 285 bps INFO @ Tue, 14 Jul 2020 08:41:19: #2 alternative fragment length(s) may be 285 bps INFO @ Tue, 14 Jul 2020 08:41:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.05_model.r INFO @ Tue, 14 Jul 2020 08:41:19: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:41:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:41:23: 18000000 INFO @ Tue, 14 Jul 2020 08:41:26: 14000000 INFO @ Tue, 14 Jul 2020 08:41:30: 19000000 INFO @ Tue, 14 Jul 2020 08:41:33: 15000000 INFO @ Tue, 14 Jul 2020 08:41:37: 20000000 INFO @ Tue, 14 Jul 2020 08:41:40: 16000000 INFO @ Tue, 14 Jul 2020 08:41:44: 21000000 INFO @ Tue, 14 Jul 2020 08:41:45: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:41:48: 17000000 INFO @ Tue, 14 Jul 2020 08:41:52: 22000000 INFO @ Tue, 14 Jul 2020 08:41:55: 18000000 INFO @ Tue, 14 Jul 2020 08:41:55: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:41:55: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:41:55: #1 total tags in treatment: 9321948 INFO @ Tue, 14 Jul 2020 08:41:55: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:41:55: #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 08:41:55: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:41:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:41:56: #1 tags after filtering in treatment: 8044103 INFO @ Tue, 14 Jul 2020 08:41:56: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 08:41:56: #1 finished! INFO @ Tue, 14 Jul 2020 08:41:56: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:41:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:41:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.05_summits.bed INFO @ Tue, 14 Jul 2020 08:41:56: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6135 records, 4 fields): 41 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:41:56: #2 number of paired peaks: 5424 INFO @ Tue, 14 Jul 2020 08:41:56: start model_add_line... INFO @ Tue, 14 Jul 2020 08:41:57: start X-correlation... INFO @ Tue, 14 Jul 2020 08:41:57: end of X-cor INFO @ Tue, 14 Jul 2020 08:41:57: #2 finished! INFO @ Tue, 14 Jul 2020 08:41:57: #2 predicted fragment length is 285 bps INFO @ Tue, 14 Jul 2020 08:41:57: #2 alternative fragment length(s) may be 285 bps INFO @ Tue, 14 Jul 2020 08:41:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.10_model.r INFO @ Tue, 14 Jul 2020 08:41:57: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:41:57: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:42:02: 19000000 INFO @ Tue, 14 Jul 2020 08:42:08: 20000000 INFO @ Tue, 14 Jul 2020 08:42:14: 21000000 INFO @ Tue, 14 Jul 2020 08:42:21: 22000000 INFO @ Tue, 14 Jul 2020 08:42:24: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:42:24: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:42:24: #1 total tags in treatment: 9321948 INFO @ Tue, 14 Jul 2020 08:42:24: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:42:24: #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 08:42:24: #1 tags after filtering in treatment: 8044103 INFO @ Tue, 14 Jul 2020 08:42:24: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 08:42:24: #1 finished! INFO @ Tue, 14 Jul 2020 08:42:24: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:42:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:42:24: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:42:25: #2 number of paired peaks: 5424 INFO @ Tue, 14 Jul 2020 08:42:25: start model_add_line... INFO @ Tue, 14 Jul 2020 08:42:25: start X-correlation... INFO @ Tue, 14 Jul 2020 08:42:25: end of X-cor INFO @ Tue, 14 Jul 2020 08:42:25: #2 finished! INFO @ Tue, 14 Jul 2020 08:42:25: #2 predicted fragment length is 285 bps INFO @ Tue, 14 Jul 2020 08:42:25: #2 alternative fragment length(s) may be 285 bps INFO @ Tue, 14 Jul 2020 08:42:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.20_model.r INFO @ Tue, 14 Jul 2020 08:42:25: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:42:25: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:42:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:42:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:42:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.10_summits.bed INFO @ Tue, 14 Jul 2020 08:42:35: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5121 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:42:52: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:43:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:43:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:43:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202519/SRX7202519.20_summits.bed INFO @ Tue, 14 Jul 2020 08:43:03: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3905 records, 4 fields): 6 millis CompletedMACS2peakCalling