Job ID = 6626688 SRX = SRX7202520 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] 110 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] 5390517 / 15371440 = 0.3507 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 08:32:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.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 08:32:58: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:32:58: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:33:04: 1000000 INFO @ Tue, 14 Jul 2020 08:33:10: 2000000 INFO @ Tue, 14 Jul 2020 08:33:15: 3000000 INFO @ Tue, 14 Jul 2020 08:33:21: 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 08:33:28: 5000000 INFO @ Tue, 14 Jul 2020 08:33:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.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 08:33:28: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:33:28: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:33:32: 1000000 INFO @ Tue, 14 Jul 2020 08:33:34: 6000000 INFO @ Tue, 14 Jul 2020 08:33:37: 2000000 INFO @ Tue, 14 Jul 2020 08:33:39: 7000000 INFO @ Tue, 14 Jul 2020 08:33:41: 3000000 INFO @ Tue, 14 Jul 2020 08:33:45: 4000000 INFO @ Tue, 14 Jul 2020 08:33:46: 8000000 INFO @ Tue, 14 Jul 2020 08:33:50: 5000000 INFO @ Tue, 14 Jul 2020 08:33:52: 9000000 INFO @ Tue, 14 Jul 2020 08:33:54: 6000000 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 08:33:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.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 08:33:58: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:33:58: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:33:58: 10000000 INFO @ Tue, 14 Jul 2020 08:33:59: 7000000 INFO @ Tue, 14 Jul 2020 08:34:03: 1000000 INFO @ Tue, 14 Jul 2020 08:34:03: 8000000 INFO @ Tue, 14 Jul 2020 08:34:04: 11000000 INFO @ Tue, 14 Jul 2020 08:34:08: 2000000 INFO @ Tue, 14 Jul 2020 08:34:08: 9000000 INFO @ Tue, 14 Jul 2020 08:34:11: 12000000 INFO @ Tue, 14 Jul 2020 08:34:12: 10000000 INFO @ Tue, 14 Jul 2020 08:34:13: 3000000 INFO @ Tue, 14 Jul 2020 08:34:17: 13000000 INFO @ Tue, 14 Jul 2020 08:34:17: 11000000 INFO @ Tue, 14 Jul 2020 08:34:18: 4000000 INFO @ Tue, 14 Jul 2020 08:34:21: 12000000 INFO @ Tue, 14 Jul 2020 08:34:23: 14000000 INFO @ Tue, 14 Jul 2020 08:34:23: 5000000 INFO @ Tue, 14 Jul 2020 08:34:26: 13000000 INFO @ Tue, 14 Jul 2020 08:34:28: 6000000 INFO @ Tue, 14 Jul 2020 08:34:29: 15000000 INFO @ Tue, 14 Jul 2020 08:34:30: 14000000 INFO @ Tue, 14 Jul 2020 08:34:33: 7000000 INFO @ Tue, 14 Jul 2020 08:34:35: 16000000 INFO @ Tue, 14 Jul 2020 08:34:35: 15000000 INFO @ Tue, 14 Jul 2020 08:34:38: 8000000 INFO @ Tue, 14 Jul 2020 08:34:39: 16000000 INFO @ Tue, 14 Jul 2020 08:34:41: 17000000 INFO @ Tue, 14 Jul 2020 08:34:43: 9000000 INFO @ Tue, 14 Jul 2020 08:34:44: 17000000 INFO @ Tue, 14 Jul 2020 08:34:46: 18000000 INFO @ Tue, 14 Jul 2020 08:34:48: 18000000 INFO @ Tue, 14 Jul 2020 08:34:48: 10000000 INFO @ Tue, 14 Jul 2020 08:34:53: 19000000 INFO @ Tue, 14 Jul 2020 08:34:53: 19000000 INFO @ Tue, 14 Jul 2020 08:34:54: 11000000 INFO @ Tue, 14 Jul 2020 08:34:58: 20000000 INFO @ Tue, 14 Jul 2020 08:34:59: 20000000 INFO @ Tue, 14 Jul 2020 08:34:59: 12000000 INFO @ Tue, 14 Jul 2020 08:35:00: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:35:00: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:35:00: #1 total tags in treatment: 8556482 INFO @ Tue, 14 Jul 2020 08:35:00: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:35:00: #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 08:35:00: #1 tags after filtering in treatment: 7361855 INFO @ Tue, 14 Jul 2020 08:35:00: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 08:35:00: #1 finished! INFO @ Tue, 14 Jul 2020 08:35:00: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:35:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:35:01: #2 number of paired peaks: 5374 INFO @ Tue, 14 Jul 2020 08:35:01: start model_add_line... INFO @ Tue, 14 Jul 2020 08:35:01: start X-correlation... INFO @ Tue, 14 Jul 2020 08:35:01: end of X-cor INFO @ Tue, 14 Jul 2020 08:35:01: #2 finished! INFO @ Tue, 14 Jul 2020 08:35:01: #2 predicted fragment length is 300 bps INFO @ Tue, 14 Jul 2020 08:35:01: #2 alternative fragment length(s) may be 300 bps INFO @ Tue, 14 Jul 2020 08:35:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.10_model.r INFO @ Tue, 14 Jul 2020 08:35:01: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:35:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:35:01: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:35:01: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:35:01: #1 total tags in treatment: 8556482 INFO @ Tue, 14 Jul 2020 08:35:01: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:35:01: #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 08:35:02: #1 tags after filtering in treatment: 7361855 INFO @ Tue, 14 Jul 2020 08:35:02: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 08:35:02: #1 finished! INFO @ Tue, 14 Jul 2020 08:35:02: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:35:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:35:02: #2 number of paired peaks: 5374 INFO @ Tue, 14 Jul 2020 08:35:02: start model_add_line... INFO @ Tue, 14 Jul 2020 08:35:02: start X-correlation... INFO @ Tue, 14 Jul 2020 08:35:02: end of X-cor INFO @ Tue, 14 Jul 2020 08:35:02: #2 finished! INFO @ Tue, 14 Jul 2020 08:35:02: #2 predicted fragment length is 300 bps INFO @ Tue, 14 Jul 2020 08:35:02: #2 alternative fragment length(s) may be 300 bps INFO @ Tue, 14 Jul 2020 08:35:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.05_model.r INFO @ Tue, 14 Jul 2020 08:35:02: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:35:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:35:04: 13000000 INFO @ Tue, 14 Jul 2020 08:35:09: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:35:14: 15000000 INFO @ Tue, 14 Jul 2020 08:35:19: 16000000 INFO @ Tue, 14 Jul 2020 08:35:23: 17000000 INFO @ Tue, 14 Jul 2020 08:35:25: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:35:28: 18000000 INFO @ Tue, 14 Jul 2020 08:35:28: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:35:33: 19000000 INFO @ Tue, 14 Jul 2020 08:35:34: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:35:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:35:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.10_summits.bed INFO @ Tue, 14 Jul 2020 08:35:34: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4569 records, 4 fields): 6 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:35:38: 20000000 INFO @ Tue, 14 Jul 2020 08:35:38: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:35:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:35:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.05_summits.bed INFO @ Tue, 14 Jul 2020 08:35:38: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5514 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:35:40: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:35:40: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:35:40: #1 total tags in treatment: 8556482 INFO @ Tue, 14 Jul 2020 08:35:40: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:35:40: #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 08:35:40: #1 tags after filtering in treatment: 7361855 INFO @ Tue, 14 Jul 2020 08:35:40: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 08:35:40: #1 finished! INFO @ Tue, 14 Jul 2020 08:35:40: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:35:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:35:41: #2 number of paired peaks: 5374 INFO @ Tue, 14 Jul 2020 08:35:41: start model_add_line... INFO @ Tue, 14 Jul 2020 08:35:41: start X-correlation... INFO @ Tue, 14 Jul 2020 08:35:41: end of X-cor INFO @ Tue, 14 Jul 2020 08:35:41: #2 finished! INFO @ Tue, 14 Jul 2020 08:35:41: #2 predicted fragment length is 300 bps INFO @ Tue, 14 Jul 2020 08:35:41: #2 alternative fragment length(s) may be 300 bps INFO @ Tue, 14 Jul 2020 08:35:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.20_model.r INFO @ Tue, 14 Jul 2020 08:35:41: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:35:41: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:36:05: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:36:14: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:36:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:36:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202520/SRX7202520.20_summits.bed INFO @ Tue, 14 Jul 2020 08:36:14: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (3361 records, 4 fields): 5 millis CompletedMACS2peakCalling