Job ID = 7118058 SRX = SRX8639570 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:09:16 prefetch.2.10.7: 1) Downloading 'SRR12117008'... 2020-07-22T07:09:16 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:11:11 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:11:11 prefetch.2.10.7: 1) 'SRR12117008' was downloaded successfully 2020-07-22T07:11:11 prefetch.2.10.7: 'SRR12117008' has 0 unresolved dependencies Read 24061782 spots for SRR12117008/SRR12117008.sra Written 24061782 spots for SRR12117008/SRR12117008.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:29 24061782 reads; of these: 24061782 (100.00%) were paired; of these: 17548104 (72.93%) aligned concordantly 0 times 5885143 (24.46%) aligned concordantly exactly 1 time 628535 (2.61%) aligned concordantly >1 times ---- 17548104 pairs aligned concordantly 0 times; of these: 42737 (0.24%) aligned discordantly 1 time ---- 17505367 pairs aligned 0 times concordantly or discordantly; of these: 35010734 mates make up the pairs; of these: 34867588 (99.59%) aligned 0 times 114799 (0.33%) aligned exactly 1 time 28347 (0.08%) aligned >1 times 27.55% overall alignment rate Time searching: 00:05:29 Overall time: 00:05:29 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 66921 / 6550891 = 0.0102 in library ' ' 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 @ Wed, 22 Jul 2020 16:21:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 22 Jul 2020 16:21:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:21:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:21:48: 1000000 INFO @ Wed, 22 Jul 2020 16:21:53: 2000000 INFO @ Wed, 22 Jul 2020 16:21:58: 3000000 INFO @ Wed, 22 Jul 2020 16:22:04: 4000000 INFO @ Wed, 22 Jul 2020 16:22:09: 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 @ Wed, 22 Jul 2020 16:22:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 22 Jul 2020 16:22:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:22:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:22:15: 6000000 INFO @ Wed, 22 Jul 2020 16:22:19: 1000000 INFO @ Wed, 22 Jul 2020 16:22:21: 7000000 INFO @ Wed, 22 Jul 2020 16:22:26: 2000000 INFO @ Wed, 22 Jul 2020 16:22:27: 8000000 INFO @ Wed, 22 Jul 2020 16:22:33: 3000000 INFO @ Wed, 22 Jul 2020 16:22:34: 9000000 INFO @ Wed, 22 Jul 2020 16:22:40: 10000000 INFO @ Wed, 22 Jul 2020 16:22:40: 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 @ Wed, 22 Jul 2020 16:22:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 22 Jul 2020 16:22:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:22:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:22:46: 11000000 INFO @ Wed, 22 Jul 2020 16:22:47: 5000000 INFO @ Wed, 22 Jul 2020 16:22:49: 1000000 INFO @ Wed, 22 Jul 2020 16:22:52: 12000000 INFO @ Wed, 22 Jul 2020 16:22:54: 6000000 INFO @ Wed, 22 Jul 2020 16:22:55: 2000000 INFO @ Wed, 22 Jul 2020 16:22:59: 13000000 INFO @ Wed, 22 Jul 2020 16:23:00: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:23:00: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:23:00: #1 total tags in treatment: 6446792 INFO @ Wed, 22 Jul 2020 16:23:00: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:23:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:23:00: #1 tags after filtering in treatment: 4941910 INFO @ Wed, 22 Jul 2020 16:23:00: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Jul 2020 16:23:00: #1 finished! INFO @ Wed, 22 Jul 2020 16:23:00: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:23:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:23:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:23:00: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 16:23:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:23:01: 7000000 INFO @ Wed, 22 Jul 2020 16:23:01: 3000000 INFO @ Wed, 22 Jul 2020 16:23:07: 4000000 INFO @ Wed, 22 Jul 2020 16:23:08: 8000000 INFO @ Wed, 22 Jul 2020 16:23:14: 5000000 INFO @ Wed, 22 Jul 2020 16:23:15: 9000000 INFO @ Wed, 22 Jul 2020 16:23:20: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:23:22: 10000000 INFO @ Wed, 22 Jul 2020 16:23:26: 7000000 INFO @ Wed, 22 Jul 2020 16:23:30: 11000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:23:32: 8000000 INFO @ Wed, 22 Jul 2020 16:23:37: 12000000 INFO @ Wed, 22 Jul 2020 16:23:38: 9000000 INFO @ Wed, 22 Jul 2020 16:23:43: 13000000 INFO @ Wed, 22 Jul 2020 16:23:44: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:23:44: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:23:44: #1 total tags in treatment: 6446792 INFO @ Wed, 22 Jul 2020 16:23:44: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:23:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:23:44: #1 tags after filtering in treatment: 4941910 INFO @ Wed, 22 Jul 2020 16:23:44: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Jul 2020 16:23:44: #1 finished! INFO @ Wed, 22 Jul 2020 16:23:44: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:23:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:23:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:23:45: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 16:23:45: Process for pairing-model is terminated! INFO @ Wed, 22 Jul 2020 16:23:45: 10000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:23:50: 11000000 INFO @ Wed, 22 Jul 2020 16:23:56: 12000000 INFO @ Wed, 22 Jul 2020 16:24:02: 13000000 INFO @ Wed, 22 Jul 2020 16:24:03: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:24:03: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:24:03: #1 total tags in treatment: 6446792 INFO @ Wed, 22 Jul 2020 16:24:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:24:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:24:03: #1 tags after filtering in treatment: 4941910 INFO @ Wed, 22 Jul 2020 16:24:03: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Jul 2020 16:24:03: #1 finished! INFO @ Wed, 22 Jul 2020 16:24:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:24:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:24:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:24:04: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 16:24:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639570/SRX8639570.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling