Job ID = 7111644 SRX = SRX8357663 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:08:58 prefetch.2.10.7: 1) Downloading 'SRR11806251'... 2020-07-22T05:08:59 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:09:42 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:09:43 prefetch.2.10.7: 'SRR11806251' is valid 2020-07-22T05:09:43 prefetch.2.10.7: 1) 'SRR11806251' was downloaded successfully 2020-07-22T05:09:43 prefetch.2.10.7: 'SRR11806251' has 0 unresolved dependencies Read 12732108 spots for SRR11806251/SRR11806251.sra Written 12732108 spots for SRR11806251/SRR11806251.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: 00:07:44 12732108 reads; of these: 12732108 (100.00%) were paired; of these: 2944924 (23.13%) aligned concordantly 0 times 6682898 (52.49%) aligned concordantly exactly 1 time 3104286 (24.38%) aligned concordantly >1 times ---- 2944924 pairs aligned concordantly 0 times; of these: 55558 (1.89%) aligned discordantly 1 time ---- 2889366 pairs aligned 0 times concordantly or discordantly; of these: 5778732 mates make up the pairs; of these: 5278646 (91.35%) aligned 0 times 148123 (2.56%) aligned exactly 1 time 351963 (6.09%) aligned >1 times 79.27% overall alignment rate Time searching: 00:07:44 Overall time: 00:07:44 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 12 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] 4324068 / 9822342 = 0.4402 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 14:22:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.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 14:22:10: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:22:10: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:22:17: 1000000 INFO @ Wed, 22 Jul 2020 14:22:23: 2000000 INFO @ Wed, 22 Jul 2020 14:22:30: 3000000 INFO @ Wed, 22 Jul 2020 14:22:36: 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 @ Wed, 22 Jul 2020 14:22:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.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 14:22:40: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:22:40: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:22:43: 5000000 INFO @ Wed, 22 Jul 2020 14:22:48: 1000000 INFO @ Wed, 22 Jul 2020 14:22:50: 6000000 INFO @ Wed, 22 Jul 2020 14:22:55: 2000000 INFO @ Wed, 22 Jul 2020 14:22:58: 7000000 INFO @ Wed, 22 Jul 2020 14:23:02: 3000000 INFO @ Wed, 22 Jul 2020 14:23:05: 8000000 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 14:23:10: 4000000 INFO @ Wed, 22 Jul 2020 14:23:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.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 14:23:10: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:23:10: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:23:12: 9000000 INFO @ Wed, 22 Jul 2020 14:23:17: 5000000 INFO @ Wed, 22 Jul 2020 14:23:18: 1000000 INFO @ Wed, 22 Jul 2020 14:23:20: 10000000 INFO @ Wed, 22 Jul 2020 14:23:25: 6000000 INFO @ Wed, 22 Jul 2020 14:23:26: 2000000 INFO @ Wed, 22 Jul 2020 14:23:27: 11000000 INFO @ Wed, 22 Jul 2020 14:23:31: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:23:31: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:23:31: #1 total tags in treatment: 5479063 INFO @ Wed, 22 Jul 2020 14:23:31: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:23:31: #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 14:23:31: #1 tags after filtering in treatment: 3212243 INFO @ Wed, 22 Jul 2020 14:23:31: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Jul 2020 14:23:31: #1 finished! INFO @ Wed, 22 Jul 2020 14:23:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:23:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:23:31: #2 number of paired peaks: 30 WARNING @ Wed, 22 Jul 2020 14:23:31: Too few paired peaks (30) 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 14:23:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.05_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/SRX8357663/SRX8357663.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:23:33: 7000000 INFO @ Wed, 22 Jul 2020 14:23:33: 3000000 INFO @ Wed, 22 Jul 2020 14:23:41: 8000000 INFO @ Wed, 22 Jul 2020 14:23:41: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:23:48: 9000000 INFO @ Wed, 22 Jul 2020 14:23:48: 5000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:23:56: 6000000 INFO @ Wed, 22 Jul 2020 14:23:56: 10000000 INFO @ Wed, 22 Jul 2020 14:24:03: 7000000 INFO @ Wed, 22 Jul 2020 14:24:04: 11000000 INFO @ Wed, 22 Jul 2020 14:24:07: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:24:07: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:24:07: #1 total tags in treatment: 5479063 INFO @ Wed, 22 Jul 2020 14:24:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:24:07: #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 14:24:07: #1 tags after filtering in treatment: 3212243 INFO @ Wed, 22 Jul 2020 14:24:07: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Jul 2020 14:24:07: #1 finished! INFO @ Wed, 22 Jul 2020 14:24:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:24:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:24:08: #2 number of paired peaks: 30 WARNING @ Wed, 22 Jul 2020 14:24:08: Too few paired peaks (30) 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 14:24:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:24:10: 8000000 INFO @ Wed, 22 Jul 2020 14:24:17: 9000000 INFO @ Wed, 22 Jul 2020 14:24:24: 10000000 INFO @ Wed, 22 Jul 2020 14:24:30: 11000000 INFO @ Wed, 22 Jul 2020 14:24:33: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:24:33: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:24:33: #1 total tags in treatment: 5479063 INFO @ Wed, 22 Jul 2020 14:24:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:24:33: #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 14:24:34: #1 tags after filtering in treatment: 3212243 INFO @ Wed, 22 Jul 2020 14:24:34: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Jul 2020 14:24:34: #1 finished! INFO @ Wed, 22 Jul 2020 14:24:34: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:24:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:24:34: #2 number of paired peaks: 30 WARNING @ Wed, 22 Jul 2020 14:24:34: Too few paired peaks (30) 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 14:24:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.20_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/SRX8357663/SRX8357663.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357663/SRX8357663.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling