Job ID = 7112161 SRX = SRX8357682 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:19:33 prefetch.2.10.7: 1) Downloading 'SRR11806270'... 2020-07-22T05:19:33 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:25:11 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:25:11 prefetch.2.10.7: 1) 'SRR11806270' was downloaded successfully 2020-07-22T05:25:11 prefetch.2.10.7: 'SRR11806270' has 0 unresolved dependencies Read 27705142 spots for SRR11806270/SRR11806270.sra Written 27705142 spots for SRR11806270/SRR11806270.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: 00:32:21 27705142 reads; of these: 27705142 (100.00%) were paired; of these: 3958544 (14.29%) aligned concordantly 0 times 21067087 (76.04%) aligned concordantly exactly 1 time 2679511 (9.67%) aligned concordantly >1 times ---- 3958544 pairs aligned concordantly 0 times; of these: 2587555 (65.37%) aligned discordantly 1 time ---- 1370989 pairs aligned 0 times concordantly or discordantly; of these: 2741978 mates make up the pairs; of these: 1830927 (66.77%) aligned 0 times 251054 (9.16%) aligned exactly 1 time 659997 (24.07%) aligned >1 times 96.70% overall alignment rate Time searching: 00:32:21 Overall time: 00:32:21 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 40 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] 5907527 / 26121999 = 0.2262 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 15:17:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.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 15:17:04: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:17:04: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:17:12: 1000000 INFO @ Wed, 22 Jul 2020 15:17:20: 2000000 INFO @ Wed, 22 Jul 2020 15:17:28: 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 @ Wed, 22 Jul 2020 15:17:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.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 15:17:34: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:17:34: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:17:37: 4000000 INFO @ Wed, 22 Jul 2020 15:17:41: 1000000 INFO @ Wed, 22 Jul 2020 15:17:45: 5000000 INFO @ Wed, 22 Jul 2020 15:17:48: 2000000 INFO @ Wed, 22 Jul 2020 15:17:54: 6000000 INFO @ Wed, 22 Jul 2020 15:17:55: 3000000 BedGraph に変換中... INFO @ Wed, 22 Jul 2020 15:18:02: 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 15:18:02: 7000000 INFO @ Wed, 22 Jul 2020 15:18:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.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 15:18:04: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:18:04: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:18:09: 5000000 INFO @ Wed, 22 Jul 2020 15:18:11: 8000000 INFO @ Wed, 22 Jul 2020 15:18:12: 1000000 INFO @ Wed, 22 Jul 2020 15:18:16: 6000000 INFO @ Wed, 22 Jul 2020 15:18:20: 2000000 INFO @ Wed, 22 Jul 2020 15:18:20: 9000000 INFO @ Wed, 22 Jul 2020 15:18:23: 7000000 INFO @ Wed, 22 Jul 2020 15:18:27: 3000000 INFO @ Wed, 22 Jul 2020 15:18:28: 10000000 INFO @ Wed, 22 Jul 2020 15:18:30: 8000000 INFO @ Wed, 22 Jul 2020 15:18:34: 4000000 INFO @ Wed, 22 Jul 2020 15:18:37: 11000000 INFO @ Wed, 22 Jul 2020 15:18:38: 9000000 INFO @ Wed, 22 Jul 2020 15:18:41: 5000000 INFO @ Wed, 22 Jul 2020 15:18:45: 10000000 INFO @ Wed, 22 Jul 2020 15:18:45: 12000000 INFO @ Wed, 22 Jul 2020 15:18:49: 6000000 INFO @ Wed, 22 Jul 2020 15:18:52: 11000000 INFO @ Wed, 22 Jul 2020 15:18:54: 13000000 INFO @ Wed, 22 Jul 2020 15:18:57: 7000000 INFO @ Wed, 22 Jul 2020 15:18:59: 12000000 INFO @ Wed, 22 Jul 2020 15:19:03: 14000000 INFO @ Wed, 22 Jul 2020 15:19:05: 8000000 INFO @ Wed, 22 Jul 2020 15:19:06: 13000000 INFO @ Wed, 22 Jul 2020 15:19:12: 15000000 INFO @ Wed, 22 Jul 2020 15:19:13: 14000000 INFO @ Wed, 22 Jul 2020 15:19:13: 9000000 INFO @ Wed, 22 Jul 2020 15:19:20: 15000000 INFO @ Wed, 22 Jul 2020 15:19:20: 16000000 INFO @ Wed, 22 Jul 2020 15:19:21: 10000000 INFO @ Wed, 22 Jul 2020 15:19:26: 16000000 INFO @ Wed, 22 Jul 2020 15:19:29: 11000000 INFO @ Wed, 22 Jul 2020 15:19:29: 17000000 INFO @ Wed, 22 Jul 2020 15:19:33: 17000000 INFO @ Wed, 22 Jul 2020 15:19:36: 12000000 INFO @ Wed, 22 Jul 2020 15:19:37: 18000000 INFO @ Wed, 22 Jul 2020 15:19:41: 18000000 INFO @ Wed, 22 Jul 2020 15:19:45: 13000000 INFO @ Wed, 22 Jul 2020 15:19:46: 19000000 INFO @ Wed, 22 Jul 2020 15:19:48: 19000000 INFO @ Wed, 22 Jul 2020 15:19:53: 14000000 INFO @ Wed, 22 Jul 2020 15:19:55: 20000000 INFO @ Wed, 22 Jul 2020 15:19:55: 20000000 INFO @ Wed, 22 Jul 2020 15:20:01: 15000000 INFO @ Wed, 22 Jul 2020 15:20:03: 21000000 INFO @ Wed, 22 Jul 2020 15:20:04: 21000000 INFO @ Wed, 22 Jul 2020 15:20:09: 16000000 INFO @ Wed, 22 Jul 2020 15:20:12: 22000000 INFO @ Wed, 22 Jul 2020 15:20:13: 22000000 INFO @ Wed, 22 Jul 2020 15:20:18: 17000000 INFO @ Wed, 22 Jul 2020 15:20:20: 23000000 INFO @ Wed, 22 Jul 2020 15:20:21: 23000000 INFO @ Wed, 22 Jul 2020 15:20:26: 18000000 INFO @ Wed, 22 Jul 2020 15:20:29: 24000000 INFO @ Wed, 22 Jul 2020 15:20:29: 24000000 INFO @ Wed, 22 Jul 2020 15:20:35: 19000000 INFO @ Wed, 22 Jul 2020 15:20:37: 25000000 INFO @ Wed, 22 Jul 2020 15:20:38: 25000000 INFO @ Wed, 22 Jul 2020 15:20:43: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:20:46: 26000000 INFO @ Wed, 22 Jul 2020 15:20:47: 26000000 INFO @ Wed, 22 Jul 2020 15:20:52: 21000000 INFO @ Wed, 22 Jul 2020 15:20:54: 27000000 INFO @ Wed, 22 Jul 2020 15:20:55: 27000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:21:01: 22000000 INFO @ Wed, 22 Jul 2020 15:21:03: 28000000 INFO @ Wed, 22 Jul 2020 15:21:04: 28000000 INFO @ Wed, 22 Jul 2020 15:21:10: 23000000 INFO @ Wed, 22 Jul 2020 15:21:12: 29000000 INFO @ Wed, 22 Jul 2020 15:21:12: 29000000 INFO @ Wed, 22 Jul 2020 15:21:19: 24000000 INFO @ Wed, 22 Jul 2020 15:21:20: 30000000 INFO @ Wed, 22 Jul 2020 15:21:21: 30000000 INFO @ Wed, 22 Jul 2020 15:21:28: 25000000 INFO @ Wed, 22 Jul 2020 15:21:29: 31000000 INFO @ Wed, 22 Jul 2020 15:21:29: 31000000 INFO @ Wed, 22 Jul 2020 15:21:36: 26000000 INFO @ Wed, 22 Jul 2020 15:21:37: 32000000 INFO @ Wed, 22 Jul 2020 15:21:38: 32000000 INFO @ Wed, 22 Jul 2020 15:21:45: 27000000 INFO @ Wed, 22 Jul 2020 15:21:46: 33000000 INFO @ Wed, 22 Jul 2020 15:21:46: 33000000 INFO @ Wed, 22 Jul 2020 15:21:53: 28000000 INFO @ Wed, 22 Jul 2020 15:21:54: 34000000 INFO @ Wed, 22 Jul 2020 15:21:55: 34000000 INFO @ Wed, 22 Jul 2020 15:22:02: 29000000 INFO @ Wed, 22 Jul 2020 15:22:03: 35000000 INFO @ Wed, 22 Jul 2020 15:22:04: 35000000 INFO @ Wed, 22 Jul 2020 15:22:10: 30000000 INFO @ Wed, 22 Jul 2020 15:22:11: 36000000 INFO @ Wed, 22 Jul 2020 15:22:12: 36000000 INFO @ Wed, 22 Jul 2020 15:22:18: 31000000 INFO @ Wed, 22 Jul 2020 15:22:20: 37000000 INFO @ Wed, 22 Jul 2020 15:22:21: 37000000 INFO @ Wed, 22 Jul 2020 15:22:26: 32000000 INFO @ Wed, 22 Jul 2020 15:22:29: 38000000 INFO @ Wed, 22 Jul 2020 15:22:30: 38000000 INFO @ Wed, 22 Jul 2020 15:22:35: 33000000 INFO @ Wed, 22 Jul 2020 15:22:37: 39000000 INFO @ Wed, 22 Jul 2020 15:22:38: 39000000 INFO @ Wed, 22 Jul 2020 15:22:43: 34000000 INFO @ Wed, 22 Jul 2020 15:22:46: 40000000 INFO @ Wed, 22 Jul 2020 15:22:47: 40000000 INFO @ Wed, 22 Jul 2020 15:22:51: 35000000 INFO @ Wed, 22 Jul 2020 15:22:55: 41000000 INFO @ Wed, 22 Jul 2020 15:22:56: 41000000 INFO @ Wed, 22 Jul 2020 15:23:00: 36000000 INFO @ Wed, 22 Jul 2020 15:23:01: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:23:01: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:23:01: #1 total tags in treatment: 18236054 INFO @ Wed, 22 Jul 2020 15:23:01: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:23:01: #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 15:23:02: #1 tags after filtering in treatment: 6980569 INFO @ Wed, 22 Jul 2020 15:23:02: #1 Redundant rate of treatment: 0.62 INFO @ Wed, 22 Jul 2020 15:23:02: #1 finished! INFO @ Wed, 22 Jul 2020 15:23:02: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:23:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:23:02: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:23:02: 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 15:23:02: Process for pairing-model is terminated! INFO @ Wed, 22 Jul 2020 15:23:02: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:23:02: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:23:02: #1 total tags in treatment: 18236054 INFO @ Wed, 22 Jul 2020 15:23:02: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:23:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.05_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/SRX8357682/SRX8357682.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:23:03: #1 tags after filtering in treatment: 6980569 INFO @ Wed, 22 Jul 2020 15:23:03: #1 Redundant rate of treatment: 0.62 INFO @ Wed, 22 Jul 2020 15:23:03: #1 finished! INFO @ Wed, 22 Jul 2020 15:23:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:23:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:23:03: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:23:03: 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 15:23:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.10_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/SRX8357682/SRX8357682.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:23:08: 37000000 INFO @ Wed, 22 Jul 2020 15:23:15: 38000000 INFO @ Wed, 22 Jul 2020 15:23:23: 39000000 INFO @ Wed, 22 Jul 2020 15:23:31: 40000000 INFO @ Wed, 22 Jul 2020 15:23:38: 41000000 INFO @ Wed, 22 Jul 2020 15:23:45: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:23:45: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:23:45: #1 total tags in treatment: 18236054 INFO @ Wed, 22 Jul 2020 15:23:45: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:23:45: #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 15:23:45: #1 tags after filtering in treatment: 6980569 INFO @ Wed, 22 Jul 2020 15:23:45: #1 Redundant rate of treatment: 0.62 INFO @ Wed, 22 Jul 2020 15:23:45: #1 finished! INFO @ Wed, 22 Jul 2020 15:23:45: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:23:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:23:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:23:45: 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 15:23:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.20_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/SRX8357682/SRX8357682.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357682/SRX8357682.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling