Job ID = 6366543 SRX = SRX1769998 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T22:50:26 prefetch.2.10.7: 1) Downloading 'SRR3535778'... 2020-06-15T22:50:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:54:12 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:54:12 prefetch.2.10.7: 1) 'SRR3535778' was downloaded successfully Read 46198117 spots for SRR3535778/SRR3535778.sra Written 46198117 spots for SRR3535778/SRR3535778.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: 00:09:59 46198117 reads; of these: 46198117 (100.00%) were unpaired; of these: 4247112 (9.19%) aligned 0 times 36170084 (78.29%) aligned exactly 1 time 5780921 (12.51%) aligned >1 times 90.81% overall alignment rate Time searching: 00:09:59 Overall time: 00:09:59 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_rmdupse_core] 10990961 / 41951005 = 0.2620 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 @ Tue, 16 Jun 2020 08:15:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.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, 16 Jun 2020 08:15:40: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:15:40: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:15:46: 1000000 INFO @ Tue, 16 Jun 2020 08:15:53: 2000000 INFO @ Tue, 16 Jun 2020 08:16:00: 3000000 INFO @ Tue, 16 Jun 2020 08:16:06: 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, 16 Jun 2020 08:16:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.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, 16 Jun 2020 08:16:10: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:16:10: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:16:13: 5000000 INFO @ Tue, 16 Jun 2020 08:16:17: 1000000 INFO @ Tue, 16 Jun 2020 08:16:20: 6000000 INFO @ Tue, 16 Jun 2020 08:16:23: 2000000 INFO @ Tue, 16 Jun 2020 08:16:27: 7000000 INFO @ Tue, 16 Jun 2020 08:16:29: 3000000 INFO @ Tue, 16 Jun 2020 08:16:34: 8000000 INFO @ Tue, 16 Jun 2020 08:16:36: 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, 16 Jun 2020 08:16:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.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, 16 Jun 2020 08:16:40: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:16:40: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:16:41: 9000000 INFO @ Tue, 16 Jun 2020 08:16:42: 5000000 INFO @ Tue, 16 Jun 2020 08:16:46: 1000000 INFO @ Tue, 16 Jun 2020 08:16:47: 10000000 INFO @ Tue, 16 Jun 2020 08:16:48: 6000000 INFO @ Tue, 16 Jun 2020 08:16:53: 2000000 INFO @ Tue, 16 Jun 2020 08:16:54: 11000000 INFO @ Tue, 16 Jun 2020 08:16:54: 7000000 INFO @ Tue, 16 Jun 2020 08:16:59: 3000000 INFO @ Tue, 16 Jun 2020 08:17:01: 8000000 INFO @ Tue, 16 Jun 2020 08:17:01: 12000000 INFO @ Tue, 16 Jun 2020 08:17:05: 4000000 INFO @ Tue, 16 Jun 2020 08:17:07: 9000000 INFO @ Tue, 16 Jun 2020 08:17:08: 13000000 INFO @ Tue, 16 Jun 2020 08:17:11: 5000000 INFO @ Tue, 16 Jun 2020 08:17:13: 10000000 INFO @ Tue, 16 Jun 2020 08:17:15: 14000000 INFO @ Tue, 16 Jun 2020 08:17:17: 6000000 INFO @ Tue, 16 Jun 2020 08:17:19: 11000000 INFO @ Tue, 16 Jun 2020 08:17:21: 15000000 INFO @ Tue, 16 Jun 2020 08:17:23: 7000000 INFO @ Tue, 16 Jun 2020 08:17:25: 12000000 INFO @ Tue, 16 Jun 2020 08:17:28: 16000000 INFO @ Tue, 16 Jun 2020 08:17:29: 8000000 INFO @ Tue, 16 Jun 2020 08:17:31: 13000000 INFO @ Tue, 16 Jun 2020 08:17:35: 17000000 INFO @ Tue, 16 Jun 2020 08:17:35: 9000000 INFO @ Tue, 16 Jun 2020 08:17:38: 14000000 INFO @ Tue, 16 Jun 2020 08:17:42: 10000000 INFO @ Tue, 16 Jun 2020 08:17:42: 18000000 INFO @ Tue, 16 Jun 2020 08:17:44: 15000000 INFO @ Tue, 16 Jun 2020 08:17:48: 11000000 INFO @ Tue, 16 Jun 2020 08:17:49: 19000000 INFO @ Tue, 16 Jun 2020 08:17:50: 16000000 INFO @ Tue, 16 Jun 2020 08:17:54: 12000000 INFO @ Tue, 16 Jun 2020 08:17:56: 20000000 INFO @ Tue, 16 Jun 2020 08:17:56: 17000000 INFO @ Tue, 16 Jun 2020 08:18:00: 13000000 INFO @ Tue, 16 Jun 2020 08:18:02: 18000000 INFO @ Tue, 16 Jun 2020 08:18:03: 21000000 INFO @ Tue, 16 Jun 2020 08:18:06: 14000000 INFO @ Tue, 16 Jun 2020 08:18:09: 19000000 INFO @ Tue, 16 Jun 2020 08:18:10: 22000000 INFO @ Tue, 16 Jun 2020 08:18:12: 15000000 INFO @ Tue, 16 Jun 2020 08:18:15: 20000000 INFO @ Tue, 16 Jun 2020 08:18:17: 23000000 INFO @ Tue, 16 Jun 2020 08:18:18: 16000000 INFO @ Tue, 16 Jun 2020 08:18:21: 21000000 INFO @ Tue, 16 Jun 2020 08:18:23: 24000000 INFO @ Tue, 16 Jun 2020 08:18:25: 17000000 INFO @ Tue, 16 Jun 2020 08:18:27: 22000000 INFO @ Tue, 16 Jun 2020 08:18:31: 25000000 INFO @ Tue, 16 Jun 2020 08:18:31: 18000000 INFO @ Tue, 16 Jun 2020 08:18:34: 23000000 INFO @ Tue, 16 Jun 2020 08:18:37: 19000000 INFO @ Tue, 16 Jun 2020 08:18:38: 26000000 INFO @ Tue, 16 Jun 2020 08:18:40: 24000000 INFO @ Tue, 16 Jun 2020 08:18:43: 20000000 INFO @ Tue, 16 Jun 2020 08:18:45: 27000000 INFO @ Tue, 16 Jun 2020 08:18:46: 25000000 INFO @ Tue, 16 Jun 2020 08:18:50: 21000000 INFO @ Tue, 16 Jun 2020 08:18:52: 28000000 INFO @ Tue, 16 Jun 2020 08:18:52: 26000000 INFO @ Tue, 16 Jun 2020 08:18:56: 22000000 INFO @ Tue, 16 Jun 2020 08:18:58: 27000000 INFO @ Tue, 16 Jun 2020 08:18:59: 29000000 INFO @ Tue, 16 Jun 2020 08:19:02: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:19:05: 28000000 INFO @ Tue, 16 Jun 2020 08:19:06: 30000000 INFO @ Tue, 16 Jun 2020 08:19:09: 24000000 INFO @ Tue, 16 Jun 2020 08:19:11: 29000000 INFO @ Tue, 16 Jun 2020 08:19:13: #1 tag size is determined as 49 bps INFO @ Tue, 16 Jun 2020 08:19:13: #1 tag size = 49 INFO @ Tue, 16 Jun 2020 08:19:13: #1 total tags in treatment: 30960044 INFO @ Tue, 16 Jun 2020 08:19:13: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:19:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:19:13: #1 tags after filtering in treatment: 30960044 INFO @ Tue, 16 Jun 2020 08:19:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:19:13: #1 finished! INFO @ Tue, 16 Jun 2020 08:19:13: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:19:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:19:15: 25000000 INFO @ Tue, 16 Jun 2020 08:19:15: #2 number of paired peaks: 43 WARNING @ Tue, 16 Jun 2020 08:19:15: Too few paired peaks (43) 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 @ Tue, 16 Jun 2020 08:19:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.05_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/ce11/SRX1769998/SRX1769998.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:19:17: 30000000 INFO @ Tue, 16 Jun 2020 08:19:21: 26000000 INFO @ Tue, 16 Jun 2020 08:19:23: #1 tag size is determined as 49 bps INFO @ Tue, 16 Jun 2020 08:19:23: #1 tag size = 49 INFO @ Tue, 16 Jun 2020 08:19:23: #1 total tags in treatment: 30960044 INFO @ Tue, 16 Jun 2020 08:19:23: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:19:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:19:24: #1 tags after filtering in treatment: 30960044 INFO @ Tue, 16 Jun 2020 08:19:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:19:24: #1 finished! INFO @ Tue, 16 Jun 2020 08:19:24: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:19:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:19:26: #2 number of paired peaks: 43 WARNING @ Tue, 16 Jun 2020 08:19:26: Too few paired peaks (43) 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 @ Tue, 16 Jun 2020 08:19:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.10_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/ce11/SRX1769998/SRX1769998.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:19:27: 27000000 INFO @ Tue, 16 Jun 2020 08:19:33: 28000000 INFO @ Tue, 16 Jun 2020 08:19:38: 29000000 INFO @ Tue, 16 Jun 2020 08:19:44: 30000000 INFO @ Tue, 16 Jun 2020 08:19:50: #1 tag size is determined as 49 bps INFO @ Tue, 16 Jun 2020 08:19:50: #1 tag size = 49 INFO @ Tue, 16 Jun 2020 08:19:50: #1 total tags in treatment: 30960044 INFO @ Tue, 16 Jun 2020 08:19:50: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:19:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:19:50: #1 tags after filtering in treatment: 30960044 INFO @ Tue, 16 Jun 2020 08:19:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:19:50: #1 finished! INFO @ Tue, 16 Jun 2020 08:19:50: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:19:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:19:52: #2 number of paired peaks: 43 WARNING @ Tue, 16 Jun 2020 08:19:52: Too few paired peaks (43) 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 @ Tue, 16 Jun 2020 08:19:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.20_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/ce11/SRX1769998/SRX1769998.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1769998/SRX1769998.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。