Job ID = 6626350 SRX = SRX7202525 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Rejected 601271 READS because READLEN < 1 Read 17091793 spots for SRR10517646/SRR10517646.sra Written 17091793 spots for SRR10517646/SRR10517646.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626919 ("srTce11") has been submitted 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 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] 1951362 / 16223216 = 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 08:31:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 08:31:34: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:31:34: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:31:42: 1000000 INFO @ Tue, 14 Jul 2020 08:31:49: 2000000 INFO @ Tue, 14 Jul 2020 08:31:56: 3000000 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 08:32:04: 4000000 INFO @ Tue, 14 Jul 2020 08:32:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 08:32:05: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:32:05: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:32:12: 1000000 INFO @ Tue, 14 Jul 2020 08:32:12: 5000000 INFO @ Tue, 14 Jul 2020 08:32:19: 2000000 INFO @ Tue, 14 Jul 2020 08:32:20: 6000000 INFO @ Tue, 14 Jul 2020 08:32:26: 3000000 INFO @ Tue, 14 Jul 2020 08:32:28: 7000000 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 08:32:34: 4000000 INFO @ Tue, 14 Jul 2020 08:32:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 08:32:34: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:32:34: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:32:36: 8000000 INFO @ Tue, 14 Jul 2020 08:32:43: 1000000 INFO @ Tue, 14 Jul 2020 08:32:43: 5000000 INFO @ Tue, 14 Jul 2020 08:32:44: 9000000 INFO @ Tue, 14 Jul 2020 08:32:51: 6000000 INFO @ Tue, 14 Jul 2020 08:32:51: 2000000 INFO @ Tue, 14 Jul 2020 08:32:52: 10000000 INFO @ Tue, 14 Jul 2020 08:32:58: 7000000 INFO @ Tue, 14 Jul 2020 08:32:59: 3000000 INFO @ Tue, 14 Jul 2020 08:33:00: 11000000 INFO @ Tue, 14 Jul 2020 08:33:05: 8000000 INFO @ Tue, 14 Jul 2020 08:33:08: 4000000 INFO @ Tue, 14 Jul 2020 08:33:08: 12000000 INFO @ Tue, 14 Jul 2020 08:33:13: 9000000 INFO @ Tue, 14 Jul 2020 08:33:16: 5000000 INFO @ Tue, 14 Jul 2020 08:33:16: 13000000 INFO @ Tue, 14 Jul 2020 08:33:20: 10000000 INFO @ Tue, 14 Jul 2020 08:33:24: 6000000 INFO @ Tue, 14 Jul 2020 08:33:24: 14000000 INFO @ Tue, 14 Jul 2020 08:33:27: 11000000 INFO @ Tue, 14 Jul 2020 08:33:32: 7000000 INFO @ Tue, 14 Jul 2020 08:33:32: 15000000 INFO @ Tue, 14 Jul 2020 08:33:34: 12000000 INFO @ Tue, 14 Jul 2020 08:33:40: 16000000 INFO @ Tue, 14 Jul 2020 08:33:40: 8000000 INFO @ Tue, 14 Jul 2020 08:33:41: 13000000 INFO @ Tue, 14 Jul 2020 08:33:48: 17000000 INFO @ Tue, 14 Jul 2020 08:33:49: 9000000 INFO @ Tue, 14 Jul 2020 08:33:49: 14000000 INFO @ Tue, 14 Jul 2020 08:33:56: 18000000 INFO @ Tue, 14 Jul 2020 08:33:57: 10000000 INFO @ Tue, 14 Jul 2020 08:33:58: 15000000 INFO @ Tue, 14 Jul 2020 08:34:04: 19000000 INFO @ Tue, 14 Jul 2020 08:34:05: 11000000 INFO @ Tue, 14 Jul 2020 08:34:06: 16000000 INFO @ Tue, 14 Jul 2020 08:34:13: 20000000 INFO @ Tue, 14 Jul 2020 08:34:13: 12000000 INFO @ Tue, 14 Jul 2020 08:34:14: 17000000 INFO @ Tue, 14 Jul 2020 08:34:21: 18000000 INFO @ Tue, 14 Jul 2020 08:34:21: 21000000 INFO @ Tue, 14 Jul 2020 08:34:21: 13000000 INFO @ Tue, 14 Jul 2020 08:34:29: 19000000 INFO @ Tue, 14 Jul 2020 08:34:30: 22000000 INFO @ Tue, 14 Jul 2020 08:34:30: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:34:36: 20000000 INFO @ Tue, 14 Jul 2020 08:34:38: 15000000 INFO @ Tue, 14 Jul 2020 08:34:38: 23000000 INFO @ Tue, 14 Jul 2020 08:34:44: 21000000 INFO @ Tue, 14 Jul 2020 08:34:46: 16000000 INFO @ Tue, 14 Jul 2020 08:34:46: 24000000 INFO @ Tue, 14 Jul 2020 08:34:51: 22000000 INFO @ Tue, 14 Jul 2020 08:34:54: 17000000 INFO @ Tue, 14 Jul 2020 08:34:55: 25000000 INFO @ Tue, 14 Jul 2020 08:34:58: 23000000 INFO @ Tue, 14 Jul 2020 08:35:02: 18000000 INFO @ Tue, 14 Jul 2020 08:35:03: 26000000 INFO @ Tue, 14 Jul 2020 08:35:06: 24000000 INFO @ Tue, 14 Jul 2020 08:35:11: 19000000 INFO @ Tue, 14 Jul 2020 08:35:11: 27000000 INFO @ Tue, 14 Jul 2020 08:35:13: 25000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:35:19: 20000000 INFO @ Tue, 14 Jul 2020 08:35:19: 28000000 INFO @ Tue, 14 Jul 2020 08:35:21: 26000000 INFO @ Tue, 14 Jul 2020 08:35:27: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:35:27: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:35:27: #1 total tags in treatment: 13134925 INFO @ Tue, 14 Jul 2020 08:35:27: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:35:27: #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 08:35:27: #1 tags after filtering in treatment: 11871489 INFO @ Tue, 14 Jul 2020 08:35:27: #1 Redundant rate of treatment: 0.10 INFO @ Tue, 14 Jul 2020 08:35:27: #1 finished! INFO @ Tue, 14 Jul 2020 08:35:27: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:35:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:35:27: 21000000 INFO @ Tue, 14 Jul 2020 08:35:28: #2 number of paired peaks: 1511 INFO @ Tue, 14 Jul 2020 08:35:28: start model_add_line... INFO @ Tue, 14 Jul 2020 08:35:28: start X-correlation... INFO @ Tue, 14 Jul 2020 08:35:28: end of X-cor INFO @ Tue, 14 Jul 2020 08:35:28: #2 finished! INFO @ Tue, 14 Jul 2020 08:35:28: #2 predicted fragment length is 256 bps INFO @ Tue, 14 Jul 2020 08:35:28: #2 alternative fragment length(s) may be 4,249,256 bps INFO @ Tue, 14 Jul 2020 08:35:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.05_model.r INFO @ Tue, 14 Jul 2020 08:35:28: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:35:28: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:35:30: 27000000 INFO @ Tue, 14 Jul 2020 08:35:36: 22000000 INFO @ Tue, 14 Jul 2020 08:35:41: 28000000 INFO @ Tue, 14 Jul 2020 08:35:44: 23000000 INFO @ Tue, 14 Jul 2020 08:35:50: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:35:50: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:35:50: #1 total tags in treatment: 13134925 INFO @ Tue, 14 Jul 2020 08:35:50: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:35:50: #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 08:35:50: #1 tags after filtering in treatment: 11871489 INFO @ Tue, 14 Jul 2020 08:35:50: #1 Redundant rate of treatment: 0.10 INFO @ Tue, 14 Jul 2020 08:35:50: #1 finished! INFO @ Tue, 14 Jul 2020 08:35:50: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:35:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:35:51: #2 number of paired peaks: 1511 INFO @ Tue, 14 Jul 2020 08:35:51: start model_add_line... INFO @ Tue, 14 Jul 2020 08:35:51: start X-correlation... INFO @ Tue, 14 Jul 2020 08:35:51: end of X-cor INFO @ Tue, 14 Jul 2020 08:35:51: #2 finished! INFO @ Tue, 14 Jul 2020 08:35:51: #2 predicted fragment length is 256 bps INFO @ Tue, 14 Jul 2020 08:35:51: #2 alternative fragment length(s) may be 4,249,256 bps INFO @ Tue, 14 Jul 2020 08:35:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.10_model.r INFO @ Tue, 14 Jul 2020 08:35:51: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:35:51: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:35:52: 24000000 INFO @ Tue, 14 Jul 2020 08:35:58: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:35:59: 25000000 INFO @ Tue, 14 Jul 2020 08:36:07: 26000000 INFO @ Tue, 14 Jul 2020 08:36:13: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:36:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:36:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.05_summits.bed INFO @ Tue, 14 Jul 2020 08:36:13: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (8165 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:36:14: 27000000 INFO @ Tue, 14 Jul 2020 08:36:22: 28000000 INFO @ Tue, 14 Jul 2020 08:36:23: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:36:28: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:36:28: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:36:28: #1 total tags in treatment: 13134925 INFO @ Tue, 14 Jul 2020 08:36:28: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:36:28: #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 08:36:28: #1 tags after filtering in treatment: 11871489 INFO @ Tue, 14 Jul 2020 08:36:28: #1 Redundant rate of treatment: 0.10 INFO @ Tue, 14 Jul 2020 08:36:28: #1 finished! INFO @ Tue, 14 Jul 2020 08:36:28: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:36:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:36:29: #2 number of paired peaks: 1511 INFO @ Tue, 14 Jul 2020 08:36:29: start model_add_line... INFO @ Tue, 14 Jul 2020 08:36:29: start X-correlation... INFO @ Tue, 14 Jul 2020 08:36:29: end of X-cor INFO @ Tue, 14 Jul 2020 08:36:29: #2 finished! INFO @ Tue, 14 Jul 2020 08:36:29: #2 predicted fragment length is 256 bps INFO @ Tue, 14 Jul 2020 08:36:29: #2 alternative fragment length(s) may be 4,249,256 bps INFO @ Tue, 14 Jul 2020 08:36:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.20_model.r INFO @ Tue, 14 Jul 2020 08:36:30: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:36:30: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:36:38: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:36:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:36:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.10_summits.bed INFO @ Tue, 14 Jul 2020 08:36:38: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (6189 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:36:58: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:37:12: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:37:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:37:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202525/SRX7202525.20_summits.bed INFO @ Tue, 14 Jul 2020 08:37:12: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3350 records, 4 fields): 4 millis CompletedMACS2peakCalling