Job ID = 6626347 SRX = SRX7202522 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Rejected 923535 READS because READLEN < 1 Read 21068003 spots for SRR10517643/SRR10517643.sra Written 21068003 spots for SRR10517643/SRR10517643.sra fastq に変換しました。 bowtie でマッピング中... Your job 6627115 ("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 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] 2282853 / 19758769 = 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 09:22:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 09:22:23: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:22:23: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:22:28: 1000000 INFO @ Tue, 14 Jul 2020 09:22:33: 2000000 INFO @ Tue, 14 Jul 2020 09:22:39: 3000000 INFO @ Tue, 14 Jul 2020 09:22:44: 4000000 INFO @ Tue, 14 Jul 2020 09:22:49: 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 09:22:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 09:22:53: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:22:53: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:22:54: 6000000 INFO @ Tue, 14 Jul 2020 09:22:58: 1000000 INFO @ Tue, 14 Jul 2020 09:23:00: 7000000 INFO @ Tue, 14 Jul 2020 09:23:03: 2000000 INFO @ Tue, 14 Jul 2020 09:23:06: 8000000 INFO @ Tue, 14 Jul 2020 09:23:08: 3000000 INFO @ Tue, 14 Jul 2020 09:23:11: 9000000 INFO @ Tue, 14 Jul 2020 09:23:13: 4000000 INFO @ Tue, 14 Jul 2020 09:23:16: 10000000 INFO @ Tue, 14 Jul 2020 09:23:18: 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 09:23:21: 11000000 INFO @ Tue, 14 Jul 2020 09:23:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 09:23:23: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:23:23: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:23:23: 6000000 INFO @ Tue, 14 Jul 2020 09:23:27: 12000000 INFO @ Tue, 14 Jul 2020 09:23:28: 7000000 INFO @ Tue, 14 Jul 2020 09:23:28: 1000000 INFO @ Tue, 14 Jul 2020 09:23:32: 13000000 INFO @ Tue, 14 Jul 2020 09:23:34: 2000000 INFO @ Tue, 14 Jul 2020 09:23:34: 8000000 INFO @ Tue, 14 Jul 2020 09:23:37: 14000000 INFO @ Tue, 14 Jul 2020 09:23:40: 3000000 INFO @ Tue, 14 Jul 2020 09:23:40: 9000000 INFO @ Tue, 14 Jul 2020 09:23:42: 15000000 INFO @ Tue, 14 Jul 2020 09:23:46: 4000000 INFO @ Tue, 14 Jul 2020 09:23:47: 10000000 INFO @ Tue, 14 Jul 2020 09:23:48: 16000000 INFO @ Tue, 14 Jul 2020 09:23:52: 5000000 INFO @ Tue, 14 Jul 2020 09:23:53: 11000000 INFO @ Tue, 14 Jul 2020 09:23:53: 17000000 INFO @ Tue, 14 Jul 2020 09:23:57: 6000000 INFO @ Tue, 14 Jul 2020 09:23:58: 18000000 INFO @ Tue, 14 Jul 2020 09:23:59: 12000000 INFO @ Tue, 14 Jul 2020 09:24:03: 7000000 INFO @ Tue, 14 Jul 2020 09:24:04: 19000000 INFO @ Tue, 14 Jul 2020 09:24:05: 13000000 INFO @ Tue, 14 Jul 2020 09:24:09: 8000000 INFO @ Tue, 14 Jul 2020 09:24:09: 20000000 INFO @ Tue, 14 Jul 2020 09:24:11: 14000000 INFO @ Tue, 14 Jul 2020 09:24:14: 9000000 INFO @ Tue, 14 Jul 2020 09:24:14: 21000000 INFO @ Tue, 14 Jul 2020 09:24:17: 15000000 INFO @ Tue, 14 Jul 2020 09:24:20: 22000000 INFO @ Tue, 14 Jul 2020 09:24:20: 10000000 INFO @ Tue, 14 Jul 2020 09:24:23: 16000000 INFO @ Tue, 14 Jul 2020 09:24:25: 23000000 INFO @ Tue, 14 Jul 2020 09:24:25: 11000000 INFO @ Tue, 14 Jul 2020 09:24:29: 17000000 INFO @ Tue, 14 Jul 2020 09:24:30: 24000000 INFO @ Tue, 14 Jul 2020 09:24:31: 12000000 INFO @ Tue, 14 Jul 2020 09:24:35: 18000000 INFO @ Tue, 14 Jul 2020 09:24:36: 25000000 INFO @ Tue, 14 Jul 2020 09:24:36: 13000000 INFO @ Tue, 14 Jul 2020 09:24:41: 26000000 INFO @ Tue, 14 Jul 2020 09:24:41: 19000000 INFO @ Tue, 14 Jul 2020 09:24:42: 14000000 INFO @ Tue, 14 Jul 2020 09:24:46: 27000000 INFO @ Tue, 14 Jul 2020 09:24:47: 15000000 INFO @ Tue, 14 Jul 2020 09:24:47: 20000000 INFO @ Tue, 14 Jul 2020 09:24:51: 28000000 INFO @ Tue, 14 Jul 2020 09:24:53: 16000000 INFO @ Tue, 14 Jul 2020 09:24:53: 21000000 INFO @ Tue, 14 Jul 2020 09:24:57: 29000000 INFO @ Tue, 14 Jul 2020 09:24:58: 17000000 INFO @ Tue, 14 Jul 2020 09:25:00: 22000000 INFO @ Tue, 14 Jul 2020 09:25:02: 30000000 INFO @ Tue, 14 Jul 2020 09:25:04: 18000000 INFO @ Tue, 14 Jul 2020 09:25:06: 23000000 INFO @ Tue, 14 Jul 2020 09:25:07: 31000000 INFO @ Tue, 14 Jul 2020 09:25:09: 19000000 INFO @ Tue, 14 Jul 2020 09:25:12: 24000000 INFO @ Tue, 14 Jul 2020 09:25:12: 32000000 INFO @ Tue, 14 Jul 2020 09:25:15: 20000000 INFO @ Tue, 14 Jul 2020 09:25:18: 33000000 INFO @ Tue, 14 Jul 2020 09:25:18: 25000000 INFO @ Tue, 14 Jul 2020 09:25:20: 21000000 INFO @ Tue, 14 Jul 2020 09:25:23: 34000000 INFO @ Tue, 14 Jul 2020 09:25:24: 26000000 INFO @ Tue, 14 Jul 2020 09:25:26: 22000000 INFO @ Tue, 14 Jul 2020 09:25:28: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 09:25:30: 27000000 INFO @ Tue, 14 Jul 2020 09:25:31: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 09:25:31: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 09:25:31: #1 total tags in treatment: 15696702 INFO @ Tue, 14 Jul 2020 09:25:31: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:25:31: #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 09:25:31: #1 tags after filtering in treatment: 13678943 INFO @ Tue, 14 Jul 2020 09:25:31: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 14 Jul 2020 09:25:31: #1 finished! INFO @ Tue, 14 Jul 2020 09:25:31: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:25:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:25:31: 23000000 INFO @ Tue, 14 Jul 2020 09:25:32: #2 number of paired peaks: 1945 INFO @ Tue, 14 Jul 2020 09:25:32: start model_add_line... INFO @ Tue, 14 Jul 2020 09:25:32: start X-correlation... INFO @ Tue, 14 Jul 2020 09:25:32: end of X-cor INFO @ Tue, 14 Jul 2020 09:25:32: #2 finished! INFO @ Tue, 14 Jul 2020 09:25:32: #2 predicted fragment length is 272 bps INFO @ Tue, 14 Jul 2020 09:25:32: #2 alternative fragment length(s) may be 4,272 bps INFO @ Tue, 14 Jul 2020 09:25:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.05_model.r INFO @ Tue, 14 Jul 2020 09:25:32: #3 Call peaks... INFO @ Tue, 14 Jul 2020 09:25:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 09:25:36: 28000000 INFO @ Tue, 14 Jul 2020 09:25:37: 24000000 INFO @ Tue, 14 Jul 2020 09:25:42: 29000000 INFO @ Tue, 14 Jul 2020 09:25:42: 25000000 INFO @ Tue, 14 Jul 2020 09:25:47: 30000000 INFO @ Tue, 14 Jul 2020 09:25:48: 26000000 INFO @ Tue, 14 Jul 2020 09:25:53: 27000000 INFO @ Tue, 14 Jul 2020 09:25:53: 31000000 INFO @ Tue, 14 Jul 2020 09:25:58: 28000000 INFO @ Tue, 14 Jul 2020 09:25:59: 32000000 INFO @ Tue, 14 Jul 2020 09:26:03: 29000000 INFO @ Tue, 14 Jul 2020 09:26:05: 33000000 INFO @ Tue, 14 Jul 2020 09:26:08: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 09:26:08: 30000000 INFO @ Tue, 14 Jul 2020 09:26:10: 34000000 INFO @ Tue, 14 Jul 2020 09:26:14: 31000000 INFO @ Tue, 14 Jul 2020 09:26:16: 35000000 INFO @ Tue, 14 Jul 2020 09:26:19: 32000000 INFO @ Tue, 14 Jul 2020 09:26:19: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 09:26:20: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 09:26:20: #1 total tags in treatment: 15696702 INFO @ Tue, 14 Jul 2020 09:26:20: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:26:20: #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 09:26:20: #1 tags after filtering in treatment: 13678943 INFO @ Tue, 14 Jul 2020 09:26:20: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 14 Jul 2020 09:26:20: #1 finished! INFO @ Tue, 14 Jul 2020 09:26:20: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:26:20: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 09:26:21: #2 number of paired peaks: 1945 INFO @ Tue, 14 Jul 2020 09:26:21: start model_add_line... INFO @ Tue, 14 Jul 2020 09:26:21: start X-correlation... INFO @ Tue, 14 Jul 2020 09:26:21: end of X-cor INFO @ Tue, 14 Jul 2020 09:26:21: #2 finished! INFO @ Tue, 14 Jul 2020 09:26:21: #2 predicted fragment length is 272 bps INFO @ Tue, 14 Jul 2020 09:26:21: #2 alternative fragment length(s) may be 4,272 bps INFO @ Tue, 14 Jul 2020 09:26:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.10_model.r INFO @ Tue, 14 Jul 2020 09:26:21: #3 Call peaks... INFO @ Tue, 14 Jul 2020 09:26:21: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 09:26:22: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.05_peaks.xls INFO @ Tue, 14 Jul 2020 09:26:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 09:26:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.05_summits.bed INFO @ Tue, 14 Jul 2020 09:26:22: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6104 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:26:24: 33000000 INFO @ Tue, 14 Jul 2020 09:26:28: 34000000 INFO @ Tue, 14 Jul 2020 09:26:33: 35000000 INFO @ Tue, 14 Jul 2020 09:26:36: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 09:26:36: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 09:26:36: #1 total tags in treatment: 15696702 INFO @ Tue, 14 Jul 2020 09:26:36: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:26:36: #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 09:26:36: #1 tags after filtering in treatment: 13678943 INFO @ Tue, 14 Jul 2020 09:26:36: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 14 Jul 2020 09:26:36: #1 finished! INFO @ Tue, 14 Jul 2020 09:26:36: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:26:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:26:37: #2 number of paired peaks: 1945 INFO @ Tue, 14 Jul 2020 09:26:37: start model_add_line... INFO @ Tue, 14 Jul 2020 09:26:37: start X-correlation... INFO @ Tue, 14 Jul 2020 09:26:37: end of X-cor INFO @ Tue, 14 Jul 2020 09:26:37: #2 finished! INFO @ Tue, 14 Jul 2020 09:26:37: #2 predicted fragment length is 272 bps INFO @ Tue, 14 Jul 2020 09:26:37: #2 alternative fragment length(s) may be 4,272 bps INFO @ Tue, 14 Jul 2020 09:26:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.20_model.r INFO @ Tue, 14 Jul 2020 09:26:37: #3 Call peaks... INFO @ Tue, 14 Jul 2020 09:26:37: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 09:26:56: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 09:27:11: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.10_peaks.xls INFO @ Tue, 14 Jul 2020 09:27:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 09:27:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.10_summits.bed INFO @ Tue, 14 Jul 2020 09:27:11: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4949 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:27:12: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 09:27:27: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.20_peaks.xls INFO @ Tue, 14 Jul 2020 09:27:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 09:27:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202522/SRX7202522.20_summits.bed INFO @ Tue, 14 Jul 2020 09:27:27: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3580 records, 4 fields): 5 millis CompletedMACS2peakCalling