Job ID = 6626349 SRX = SRX7202524 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Rejected 459820 READS because READLEN < 1 Read 14692078 spots for SRR10517645/SRR10517645.sra Written 14692078 spots for SRR10517645/SRR10517645.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626611 ("srTce11") has been submitted 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] 3592850 / 14041290 = 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 07:15:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 07:15:56: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:15:56: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:16:01: 1000000 INFO @ Tue, 14 Jul 2020 07:16:06: 2000000 INFO @ Tue, 14 Jul 2020 07:16:11: 3000000 INFO @ Tue, 14 Jul 2020 07:16:16: 4000000 INFO @ Tue, 14 Jul 2020 07:16:21: 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 07:16:26: 6000000 INFO @ Tue, 14 Jul 2020 07:16:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 07:16:26: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:16:26: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:16:30: 7000000 INFO @ Tue, 14 Jul 2020 07:16:31: 1000000 INFO @ Tue, 14 Jul 2020 07:16:35: 8000000 INFO @ Tue, 14 Jul 2020 07:16:36: 2000000 INFO @ Tue, 14 Jul 2020 07:16:40: 9000000 INFO @ Tue, 14 Jul 2020 07:16:42: 3000000 INFO @ Tue, 14 Jul 2020 07:16:46: 10000000 INFO @ Tue, 14 Jul 2020 07:16:47: 4000000 INFO @ Tue, 14 Jul 2020 07:16:52: 11000000 INFO @ Tue, 14 Jul 2020 07:16:52: 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 07:16:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 07:16:57: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:16:57: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:16:57: 12000000 INFO @ Tue, 14 Jul 2020 07:16:58: 6000000 INFO @ Tue, 14 Jul 2020 07:17:03: 1000000 INFO @ Tue, 14 Jul 2020 07:17:03: 13000000 INFO @ Tue, 14 Jul 2020 07:17:04: 7000000 INFO @ Tue, 14 Jul 2020 07:17:09: 2000000 INFO @ Tue, 14 Jul 2020 07:17:09: 14000000 INFO @ Tue, 14 Jul 2020 07:17:10: 8000000 INFO @ Tue, 14 Jul 2020 07:17:15: 3000000 INFO @ Tue, 14 Jul 2020 07:17:15: 15000000 INFO @ Tue, 14 Jul 2020 07:17:15: 9000000 INFO @ Tue, 14 Jul 2020 07:17:20: 4000000 INFO @ Tue, 14 Jul 2020 07:17:21: 16000000 INFO @ Tue, 14 Jul 2020 07:17:21: 10000000 INFO @ Tue, 14 Jul 2020 07:17:26: 5000000 INFO @ Tue, 14 Jul 2020 07:17:27: 17000000 INFO @ Tue, 14 Jul 2020 07:17:27: 11000000 INFO @ Tue, 14 Jul 2020 07:17:31: 6000000 INFO @ Tue, 14 Jul 2020 07:17:32: 12000000 INFO @ Tue, 14 Jul 2020 07:17:32: 18000000 INFO @ Tue, 14 Jul 2020 07:17:38: 7000000 INFO @ Tue, 14 Jul 2020 07:17:39: 13000000 INFO @ Tue, 14 Jul 2020 07:17:39: 19000000 INFO @ Tue, 14 Jul 2020 07:17:46: 8000000 INFO @ Tue, 14 Jul 2020 07:17:46: 20000000 INFO @ Tue, 14 Jul 2020 07:17:47: 14000000 INFO @ Tue, 14 Jul 2020 07:17:51: 9000000 INFO @ Tue, 14 Jul 2020 07:17:52: 15000000 INFO @ Tue, 14 Jul 2020 07:17:52: 21000000 INFO @ Tue, 14 Jul 2020 07:17:54: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:17:54: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:17:54: #1 total tags in treatment: 9493080 INFO @ Tue, 14 Jul 2020 07:17:54: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:17:54: #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 07:17:54: #1 tags after filtering in treatment: 8313090 INFO @ Tue, 14 Jul 2020 07:17:54: #1 Redundant rate of treatment: 0.12 INFO @ Tue, 14 Jul 2020 07:17:54: #1 finished! INFO @ Tue, 14 Jul 2020 07:17:54: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:17:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:17:55: #2 number of paired peaks: 5069 INFO @ Tue, 14 Jul 2020 07:17:55: start model_add_line... INFO @ Tue, 14 Jul 2020 07:17:55: start X-correlation... INFO @ Tue, 14 Jul 2020 07:17:55: end of X-cor INFO @ Tue, 14 Jul 2020 07:17:55: #2 finished! INFO @ Tue, 14 Jul 2020 07:17:55: #2 predicted fragment length is 269 bps INFO @ Tue, 14 Jul 2020 07:17:55: #2 alternative fragment length(s) may be 4,269 bps INFO @ Tue, 14 Jul 2020 07:17:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.05_model.r INFO @ Tue, 14 Jul 2020 07:17:55: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:17:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:17:58: 10000000 INFO @ Tue, 14 Jul 2020 07:17:59: 16000000 INFO @ Tue, 14 Jul 2020 07:18:04: 11000000 INFO @ Tue, 14 Jul 2020 07:18:05: 17000000 INFO @ Tue, 14 Jul 2020 07:18:10: 12000000 INFO @ Tue, 14 Jul 2020 07:18:11: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:18:16: 13000000 INFO @ Tue, 14 Jul 2020 07:18:18: 19000000 INFO @ Tue, 14 Jul 2020 07:18:21: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:18:22: 14000000 INFO @ Tue, 14 Jul 2020 07:18:24: 20000000 INFO @ Tue, 14 Jul 2020 07:18:28: 15000000 INFO @ Tue, 14 Jul 2020 07:18:30: 21000000 INFO @ Tue, 14 Jul 2020 07:18:31: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:18:31: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:18:31: #1 total tags in treatment: 9493080 INFO @ Tue, 14 Jul 2020 07:18:31: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:18:31: #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 07:18:31: #1 tags after filtering in treatment: 8313090 INFO @ Tue, 14 Jul 2020 07:18:31: #1 Redundant rate of treatment: 0.12 INFO @ Tue, 14 Jul 2020 07:18:31: #1 finished! INFO @ Tue, 14 Jul 2020 07:18:31: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:18:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:18:32: #2 number of paired peaks: 5069 INFO @ Tue, 14 Jul 2020 07:18:32: start model_add_line... INFO @ Tue, 14 Jul 2020 07:18:32: start X-correlation... INFO @ Tue, 14 Jul 2020 07:18:32: end of X-cor INFO @ Tue, 14 Jul 2020 07:18:32: #2 finished! INFO @ Tue, 14 Jul 2020 07:18:32: #2 predicted fragment length is 269 bps INFO @ Tue, 14 Jul 2020 07:18:32: #2 alternative fragment length(s) may be 4,269 bps INFO @ Tue, 14 Jul 2020 07:18:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.10_model.r INFO @ Tue, 14 Jul 2020 07:18:32: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:18:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:18:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:18:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:18:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.05_summits.bed INFO @ Tue, 14 Jul 2020 07:18:33: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (8148 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:18:34: 16000000 INFO @ Tue, 14 Jul 2020 07:18:39: 17000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:18:44: 18000000 INFO @ Tue, 14 Jul 2020 07:18:49: 19000000 INFO @ Tue, 14 Jul 2020 07:18:54: 20000000 INFO @ Tue, 14 Jul 2020 07:18:58: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:18:59: 21000000 INFO @ Tue, 14 Jul 2020 07:18:59: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:18:59: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:18:59: #1 total tags in treatment: 9493080 INFO @ Tue, 14 Jul 2020 07:18:59: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:18:59: #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 07:19:00: #1 tags after filtering in treatment: 8313090 INFO @ Tue, 14 Jul 2020 07:19:00: #1 Redundant rate of treatment: 0.12 INFO @ Tue, 14 Jul 2020 07:19:00: #1 finished! INFO @ Tue, 14 Jul 2020 07:19:00: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:19:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:19:01: #2 number of paired peaks: 5069 INFO @ Tue, 14 Jul 2020 07:19:01: start model_add_line... INFO @ Tue, 14 Jul 2020 07:19:01: start X-correlation... INFO @ Tue, 14 Jul 2020 07:19:01: end of X-cor INFO @ Tue, 14 Jul 2020 07:19:01: #2 finished! INFO @ Tue, 14 Jul 2020 07:19:01: #2 predicted fragment length is 269 bps INFO @ Tue, 14 Jul 2020 07:19:01: #2 alternative fragment length(s) may be 4,269 bps INFO @ Tue, 14 Jul 2020 07:19:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.20_model.r INFO @ Tue, 14 Jul 2020 07:19:01: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:19:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:19:08: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:19:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:19:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.10_summits.bed INFO @ Tue, 14 Jul 2020 07:19:08: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (6559 records, 4 fields): 43 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:19:25: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:19:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:19:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:19:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202524/SRX7202524.20_summits.bed INFO @ Tue, 14 Jul 2020 07:19:35: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4191 records, 4 fields): 40 millis CompletedMACS2peakCalling