Job ID = 6627115 SRX = SRX7202522 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: 00:00:01 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 20 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] 17 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] 2282887 / 19759081 = 0.1155 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 10:21:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.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 10:21:11: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:21:11: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:21:17: 1000000 INFO @ Tue, 14 Jul 2020 10:21:23: 2000000 INFO @ Tue, 14 Jul 2020 10:21:29: 3000000 INFO @ Tue, 14 Jul 2020 10:21:34: 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 10:21:40: 5000000 INFO @ Tue, 14 Jul 2020 10:21:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.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 10:21:42: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:21:42: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:21:46: 6000000 INFO @ Tue, 14 Jul 2020 10:21:48: 1000000 INFO @ Tue, 14 Jul 2020 10:21:52: 7000000 INFO @ Tue, 14 Jul 2020 10:21:54: 2000000 INFO @ Tue, 14 Jul 2020 10:21:58: 8000000 INFO @ Tue, 14 Jul 2020 10:21:59: 3000000 INFO @ Tue, 14 Jul 2020 10:22:04: 9000000 INFO @ Tue, 14 Jul 2020 10:22:05: 4000000 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 10:22:10: 10000000 INFO @ Tue, 14 Jul 2020 10:22:11: 5000000 INFO @ Tue, 14 Jul 2020 10:22:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.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 10:22:11: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:22:11: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:22:17: 11000000 INFO @ Tue, 14 Jul 2020 10:22:17: 6000000 INFO @ Tue, 14 Jul 2020 10:22:18: 1000000 INFO @ Tue, 14 Jul 2020 10:22:23: 12000000 INFO @ Tue, 14 Jul 2020 10:22:23: 7000000 INFO @ Tue, 14 Jul 2020 10:22:26: 2000000 INFO @ Tue, 14 Jul 2020 10:22:29: 13000000 INFO @ Tue, 14 Jul 2020 10:22:29: 8000000 INFO @ Tue, 14 Jul 2020 10:22:33: 3000000 INFO @ Tue, 14 Jul 2020 10:22:35: 14000000 INFO @ Tue, 14 Jul 2020 10:22:35: 9000000 INFO @ Tue, 14 Jul 2020 10:22:41: 4000000 INFO @ Tue, 14 Jul 2020 10:22:41: 15000000 INFO @ Tue, 14 Jul 2020 10:22:41: 10000000 INFO @ Tue, 14 Jul 2020 10:22:47: 11000000 INFO @ Tue, 14 Jul 2020 10:22:47: 16000000 INFO @ Tue, 14 Jul 2020 10:22:48: 5000000 INFO @ Tue, 14 Jul 2020 10:22:53: 12000000 INFO @ Tue, 14 Jul 2020 10:22:53: 17000000 INFO @ Tue, 14 Jul 2020 10:22:56: 6000000 INFO @ Tue, 14 Jul 2020 10:22:59: 13000000 INFO @ Tue, 14 Jul 2020 10:22:59: 18000000 INFO @ Tue, 14 Jul 2020 10:23:03: 7000000 INFO @ Tue, 14 Jul 2020 10:23:05: 14000000 INFO @ Tue, 14 Jul 2020 10:23:05: 19000000 INFO @ Tue, 14 Jul 2020 10:23:10: 15000000 INFO @ Tue, 14 Jul 2020 10:23:11: 20000000 INFO @ Tue, 14 Jul 2020 10:23:11: 8000000 INFO @ Tue, 14 Jul 2020 10:23:16: 16000000 INFO @ Tue, 14 Jul 2020 10:23:17: 21000000 INFO @ Tue, 14 Jul 2020 10:23:19: 9000000 INFO @ Tue, 14 Jul 2020 10:23:22: 17000000 INFO @ Tue, 14 Jul 2020 10:23:22: 22000000 INFO @ Tue, 14 Jul 2020 10:23:26: 10000000 INFO @ Tue, 14 Jul 2020 10:23:28: 18000000 INFO @ Tue, 14 Jul 2020 10:23:28: 23000000 INFO @ Tue, 14 Jul 2020 10:23:34: 19000000 INFO @ Tue, 14 Jul 2020 10:23:34: 11000000 INFO @ Tue, 14 Jul 2020 10:23:34: 24000000 INFO @ Tue, 14 Jul 2020 10:23:39: 20000000 INFO @ Tue, 14 Jul 2020 10:23:40: 25000000 INFO @ Tue, 14 Jul 2020 10:23:41: 12000000 INFO @ Tue, 14 Jul 2020 10:23:45: 21000000 INFO @ Tue, 14 Jul 2020 10:23:46: 26000000 INFO @ Tue, 14 Jul 2020 10:23:49: 13000000 INFO @ Tue, 14 Jul 2020 10:23:51: 22000000 INFO @ Tue, 14 Jul 2020 10:23:52: 27000000 INFO @ Tue, 14 Jul 2020 10:23:56: 14000000 INFO @ Tue, 14 Jul 2020 10:23:57: 23000000 INFO @ Tue, 14 Jul 2020 10:23:57: 28000000 INFO @ Tue, 14 Jul 2020 10:24:02: 24000000 INFO @ Tue, 14 Jul 2020 10:24:03: 29000000 INFO @ Tue, 14 Jul 2020 10:24:04: 15000000 INFO @ Tue, 14 Jul 2020 10:24:08: 25000000 INFO @ Tue, 14 Jul 2020 10:24:09: 30000000 INFO @ Tue, 14 Jul 2020 10:24:11: 16000000 INFO @ Tue, 14 Jul 2020 10:24:14: 26000000 INFO @ Tue, 14 Jul 2020 10:24:15: 31000000 INFO @ Tue, 14 Jul 2020 10:24:19: 17000000 INFO @ Tue, 14 Jul 2020 10:24:20: 27000000 INFO @ Tue, 14 Jul 2020 10:24:21: 32000000 INFO @ Tue, 14 Jul 2020 10:24:26: 28000000 INFO @ Tue, 14 Jul 2020 10:24:26: 33000000 INFO @ Tue, 14 Jul 2020 10:24:26: 18000000 INFO @ Tue, 14 Jul 2020 10:24:31: 29000000 INFO @ Tue, 14 Jul 2020 10:24:32: 34000000 INFO @ Tue, 14 Jul 2020 10:24:34: 19000000 INFO @ Tue, 14 Jul 2020 10:24:37: 30000000 INFO @ Tue, 14 Jul 2020 10:24:38: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 10:24:41: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 10:24:41: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 10:24:41: #1 total tags in treatment: 15696811 INFO @ Tue, 14 Jul 2020 10:24:41: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:24:41: #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 10:24:42: #1 tags after filtering in treatment: 13679051 INFO @ Tue, 14 Jul 2020 10:24:42: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 14 Jul 2020 10:24:42: #1 finished! INFO @ Tue, 14 Jul 2020 10:24:42: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:24:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:24:42: 20000000 INFO @ Tue, 14 Jul 2020 10:24:43: 31000000 INFO @ Tue, 14 Jul 2020 10:24:43: #2 number of paired peaks: 1946 INFO @ Tue, 14 Jul 2020 10:24:43: start model_add_line... INFO @ Tue, 14 Jul 2020 10:24:43: start X-correlation... INFO @ Tue, 14 Jul 2020 10:24:43: end of X-cor INFO @ Tue, 14 Jul 2020 10:24:43: #2 finished! INFO @ Tue, 14 Jul 2020 10:24:43: #2 predicted fragment length is 272 bps INFO @ Tue, 14 Jul 2020 10:24:43: #2 alternative fragment length(s) may be 4,272 bps INFO @ Tue, 14 Jul 2020 10:24:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.05_model.r INFO @ Tue, 14 Jul 2020 10:24:43: #3 Call peaks... INFO @ Tue, 14 Jul 2020 10:24:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 10:24:48: 32000000 INFO @ Tue, 14 Jul 2020 10:24:49: 21000000 INFO @ Tue, 14 Jul 2020 10:24:54: 33000000 INFO @ Tue, 14 Jul 2020 10:24:56: 22000000 INFO @ Tue, 14 Jul 2020 10:25:00: 34000000 INFO @ Tue, 14 Jul 2020 10:25:04: 23000000 INFO @ Tue, 14 Jul 2020 10:25:05: 35000000 INFO @ Tue, 14 Jul 2020 10:25:09: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 10:25:09: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 10:25:09: #1 total tags in treatment: 15696811 INFO @ Tue, 14 Jul 2020 10:25:09: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:25:09: #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 10:25:09: #1 tags after filtering in treatment: 13679051 INFO @ Tue, 14 Jul 2020 10:25:09: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 14 Jul 2020 10:25:09: #1 finished! INFO @ Tue, 14 Jul 2020 10:25:09: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:25:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:25:10: #2 number of paired peaks: 1946 INFO @ Tue, 14 Jul 2020 10:25:10: start model_add_line... INFO @ Tue, 14 Jul 2020 10:25:10: start X-correlation... INFO @ Tue, 14 Jul 2020 10:25:10: end of X-cor INFO @ Tue, 14 Jul 2020 10:25:10: #2 finished! INFO @ Tue, 14 Jul 2020 10:25:10: #2 predicted fragment length is 272 bps INFO @ Tue, 14 Jul 2020 10:25:10: #2 alternative fragment length(s) may be 4,272 bps INFO @ Tue, 14 Jul 2020 10:25:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.10_model.r INFO @ Tue, 14 Jul 2020 10:25:10: #3 Call peaks... INFO @ Tue, 14 Jul 2020 10:25:10: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 10:25:11: 24000000 INFO @ Tue, 14 Jul 2020 10:25:18: 25000000 INFO @ Tue, 14 Jul 2020 10:25:24: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 10:25:25: 26000000 INFO @ Tue, 14 Jul 2020 10:25:32: 27000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 10:25:40: 28000000 INFO @ Tue, 14 Jul 2020 10:25:42: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.05_peaks.xls INFO @ Tue, 14 Jul 2020 10:25:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 10:25:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.05_summits.bed INFO @ Tue, 14 Jul 2020 10:25:43: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6104 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 10:25:47: 29000000 INFO @ Tue, 14 Jul 2020 10:25:52: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 10:25:54: 30000000 INFO @ Tue, 14 Jul 2020 10:26:02: 31000000 INFO @ Tue, 14 Jul 2020 10:26:09: 32000000 INFO @ Tue, 14 Jul 2020 10:26:10: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.10_peaks.xls INFO @ Tue, 14 Jul 2020 10:26:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 10:26:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.10_summits.bed INFO @ Tue, 14 Jul 2020 10:26:10: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4950 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 10:26:17: 33000000 INFO @ Tue, 14 Jul 2020 10:26:24: 34000000 INFO @ Tue, 14 Jul 2020 10:26:31: 35000000 INFO @ Tue, 14 Jul 2020 10:26:36: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 10:26:36: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 10:26:36: #1 total tags in treatment: 15696811 INFO @ Tue, 14 Jul 2020 10:26:36: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:26:36: #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 10:26:36: #1 tags after filtering in treatment: 13679051 INFO @ Tue, 14 Jul 2020 10:26:36: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 14 Jul 2020 10:26:36: #1 finished! INFO @ Tue, 14 Jul 2020 10:26:36: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:26:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:26:37: #2 number of paired peaks: 1946 INFO @ Tue, 14 Jul 2020 10:26:37: start model_add_line... INFO @ Tue, 14 Jul 2020 10:26:37: start X-correlation... INFO @ Tue, 14 Jul 2020 10:26:37: end of X-cor INFO @ Tue, 14 Jul 2020 10:26:37: #2 finished! INFO @ Tue, 14 Jul 2020 10:26:37: #2 predicted fragment length is 272 bps INFO @ Tue, 14 Jul 2020 10:26:37: #2 alternative fragment length(s) may be 4,272 bps INFO @ Tue, 14 Jul 2020 10:26:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.20_model.r INFO @ Tue, 14 Jul 2020 10:26:37: #3 Call peaks... INFO @ Tue, 14 Jul 2020 10:26:37: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 10:27:21: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 10:27:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.20_peaks.xls INFO @ Tue, 14 Jul 2020 10:27:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 10:27:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7202522/SRX7202522.20_summits.bed INFO @ Tue, 14 Jul 2020 10:27:41: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3580 records, 4 fields): 5 millis CompletedMACS2peakCalling