Job ID = 6626345 SRX = SRX7202519 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Rejected 982943 READS because READLEN < 1 Read 14989187 spots for SRR10517641/SRR10517641.sra Written 14989187 spots for SRR10517641/SRR10517641.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626704 ("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] 41 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] 2686406 / 13674587 = 0.1965 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 07:48:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.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 07:48:28: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:48:28: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:48:35: 1000000 INFO @ Tue, 14 Jul 2020 07:48:41: 2000000 INFO @ Tue, 14 Jul 2020 07:48:47: 3000000 INFO @ Tue, 14 Jul 2020 07:48:53: 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 07:48:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.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 07:48:57: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:48:57: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:49:00: 5000000 INFO @ Tue, 14 Jul 2020 07:49:04: 1000000 INFO @ Tue, 14 Jul 2020 07:49:07: 6000000 INFO @ Tue, 14 Jul 2020 07:49:10: 2000000 INFO @ Tue, 14 Jul 2020 07:49:14: 7000000 INFO @ Tue, 14 Jul 2020 07:49:17: 3000000 INFO @ Tue, 14 Jul 2020 07:49:21: 8000000 INFO @ Tue, 14 Jul 2020 07:49:23: 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 07:49:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.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 07:49:27: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:49:27: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:49:28: 9000000 INFO @ Tue, 14 Jul 2020 07:49:30: 5000000 INFO @ Tue, 14 Jul 2020 07:49:34: 1000000 INFO @ Tue, 14 Jul 2020 07:49:35: 10000000 INFO @ Tue, 14 Jul 2020 07:49:37: 6000000 INFO @ Tue, 14 Jul 2020 07:49:41: 2000000 INFO @ Tue, 14 Jul 2020 07:49:42: 11000000 INFO @ Tue, 14 Jul 2020 07:49:44: 7000000 INFO @ Tue, 14 Jul 2020 07:49:47: 3000000 INFO @ Tue, 14 Jul 2020 07:49:50: 12000000 INFO @ Tue, 14 Jul 2020 07:49:50: 8000000 INFO @ Tue, 14 Jul 2020 07:49:54: 4000000 INFO @ Tue, 14 Jul 2020 07:49:57: 13000000 INFO @ Tue, 14 Jul 2020 07:49:57: 9000000 INFO @ Tue, 14 Jul 2020 07:50:01: 5000000 INFO @ Tue, 14 Jul 2020 07:50:04: 10000000 INFO @ Tue, 14 Jul 2020 07:50:04: 14000000 INFO @ Tue, 14 Jul 2020 07:50:08: 6000000 INFO @ Tue, 14 Jul 2020 07:50:11: 11000000 INFO @ Tue, 14 Jul 2020 07:50:11: 15000000 INFO @ Tue, 14 Jul 2020 07:50:14: 7000000 INFO @ Tue, 14 Jul 2020 07:50:17: 12000000 INFO @ Tue, 14 Jul 2020 07:50:18: 16000000 INFO @ Tue, 14 Jul 2020 07:50:21: 8000000 INFO @ Tue, 14 Jul 2020 07:50:24: 13000000 INFO @ Tue, 14 Jul 2020 07:50:25: 17000000 INFO @ Tue, 14 Jul 2020 07:50:27: 9000000 INFO @ Tue, 14 Jul 2020 07:50:31: 14000000 INFO @ Tue, 14 Jul 2020 07:50:33: 18000000 INFO @ Tue, 14 Jul 2020 07:50:34: 10000000 INFO @ Tue, 14 Jul 2020 07:50:38: 15000000 INFO @ Tue, 14 Jul 2020 07:50:40: 19000000 INFO @ Tue, 14 Jul 2020 07:50:41: 11000000 INFO @ Tue, 14 Jul 2020 07:50:44: 16000000 INFO @ Tue, 14 Jul 2020 07:50:47: 20000000 INFO @ Tue, 14 Jul 2020 07:50:47: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:50:51: 17000000 INFO @ Tue, 14 Jul 2020 07:50:54: 13000000 INFO @ Tue, 14 Jul 2020 07:50:54: 21000000 INFO @ Tue, 14 Jul 2020 07:50:58: 18000000 INFO @ Tue, 14 Jul 2020 07:51:01: 14000000 INFO @ Tue, 14 Jul 2020 07:51:01: 22000000 INFO @ Tue, 14 Jul 2020 07:51:04: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:51:04: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:51:04: #1 total tags in treatment: 9321893 INFO @ Tue, 14 Jul 2020 07:51:04: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:51:04: #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 07:51:04: #1 tags after filtering in treatment: 8044062 INFO @ Tue, 14 Jul 2020 07:51:04: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 07:51:04: #1 finished! INFO @ Tue, 14 Jul 2020 07:51:04: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:51:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:51:05: 19000000 INFO @ Tue, 14 Jul 2020 07:51:05: #2 number of paired peaks: 5421 INFO @ Tue, 14 Jul 2020 07:51:05: start model_add_line... INFO @ Tue, 14 Jul 2020 07:51:05: start X-correlation... INFO @ Tue, 14 Jul 2020 07:51:05: end of X-cor INFO @ Tue, 14 Jul 2020 07:51:05: #2 finished! INFO @ Tue, 14 Jul 2020 07:51:05: #2 predicted fragment length is 285 bps INFO @ Tue, 14 Jul 2020 07:51:05: #2 alternative fragment length(s) may be 285 bps INFO @ Tue, 14 Jul 2020 07:51:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.05_model.r INFO @ Tue, 14 Jul 2020 07:51:05: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:51:05: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:51:07: 15000000 INFO @ Tue, 14 Jul 2020 07:51:11: 20000000 INFO @ Tue, 14 Jul 2020 07:51:14: 16000000 INFO @ Tue, 14 Jul 2020 07:51:18: 21000000 INFO @ Tue, 14 Jul 2020 07:51:20: 17000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:51:24: 22000000 INFO @ Tue, 14 Jul 2020 07:51:27: 18000000 INFO @ Tue, 14 Jul 2020 07:51:28: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:51:28: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:51:28: #1 total tags in treatment: 9321893 INFO @ Tue, 14 Jul 2020 07:51:28: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:51:28: #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 07:51:28: #1 tags after filtering in treatment: 8044062 INFO @ Tue, 14 Jul 2020 07:51:28: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 07:51:28: #1 finished! INFO @ Tue, 14 Jul 2020 07:51:28: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:51:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:51:29: #2 number of paired peaks: 5421 INFO @ Tue, 14 Jul 2020 07:51:29: start model_add_line... INFO @ Tue, 14 Jul 2020 07:51:29: start X-correlation... INFO @ Tue, 14 Jul 2020 07:51:29: end of X-cor INFO @ Tue, 14 Jul 2020 07:51:29: #2 finished! INFO @ Tue, 14 Jul 2020 07:51:29: #2 predicted fragment length is 285 bps INFO @ Tue, 14 Jul 2020 07:51:29: #2 alternative fragment length(s) may be 285 bps INFO @ Tue, 14 Jul 2020 07:51:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.10_model.r INFO @ Tue, 14 Jul 2020 07:51:29: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:51:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:51:30: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:51:33: 19000000 INFO @ Tue, 14 Jul 2020 07:51:38: 20000000 INFO @ Tue, 14 Jul 2020 07:51:39: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:51:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:51:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.05_summits.bed INFO @ Tue, 14 Jul 2020 07:51:40: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6136 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:51:44: 21000000 INFO @ Tue, 14 Jul 2020 07:51:50: 22000000 INFO @ Tue, 14 Jul 2020 07:51:53: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:51:53: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:51:53: #1 total tags in treatment: 9321893 INFO @ Tue, 14 Jul 2020 07:51:53: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:51:53: #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 07:51:53: #1 tags after filtering in treatment: 8044062 INFO @ Tue, 14 Jul 2020 07:51:53: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 07:51:53: #1 finished! INFO @ Tue, 14 Jul 2020 07:51:53: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:51:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:51:54: #2 number of paired peaks: 5421 INFO @ Tue, 14 Jul 2020 07:51:54: start model_add_line... INFO @ Tue, 14 Jul 2020 07:51:54: start X-correlation... INFO @ Tue, 14 Jul 2020 07:51:54: end of X-cor INFO @ Tue, 14 Jul 2020 07:51:54: #2 finished! INFO @ Tue, 14 Jul 2020 07:51:54: #2 predicted fragment length is 285 bps INFO @ Tue, 14 Jul 2020 07:51:54: #2 alternative fragment length(s) may be 285 bps INFO @ Tue, 14 Jul 2020 07:51:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.20_model.r INFO @ Tue, 14 Jul 2020 07:51:54: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:51:54: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:51:54: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:52:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:52:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:52:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.10_summits.bed INFO @ Tue, 14 Jul 2020 07:52:04: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5121 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:52:19: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:52:28: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:52:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:52:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7202519/SRX7202519.20_summits.bed INFO @ Tue, 14 Jul 2020 07:52:28: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3905 records, 4 fields): 11 millis CompletedMACS2peakCalling