Job ID = 6368781 SRX = SRX5702589 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-16T00:30:16 prefetch.2.10.7: 1) Downloading 'SRR8921257'... 2020-06-16T00:30:16 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:31:58 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:31:59 prefetch.2.10.7: 'SRR8921257' is valid 2020-06-16T00:31:59 prefetch.2.10.7: 1) 'SRR8921257' was downloaded successfully 2020-06-16T00:31:59 prefetch.2.10.7: 'SRR8921257' has 0 unresolved dependencies Read 21000911 spots for SRR8921257/SRR8921257.sra Written 21000911 spots for SRR8921257/SRR8921257.sra 2020-06-16T00:33:14 prefetch.2.10.7: 1) Downloading 'SRR8921258'... 2020-06-16T00:33:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:38:14 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:38:15 prefetch.2.10.7: 1) 'SRR8921258' was downloaded successfully 2020-06-16T00:38:15 prefetch.2.10.7: 'SRR8921258' has 0 unresolved dependencies Read 57656304 spots for SRR8921258/SRR8921258.sra Written 57656304 spots for SRR8921258/SRR8921258.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: 00:21:12 78657215 reads; of these: 78657215 (100.00%) were unpaired; of these: 22871046 (29.08%) aligned 0 times 41450574 (52.70%) aligned exactly 1 time 14335595 (18.23%) aligned >1 times 70.92% overall alignment rate Time searching: 00:21:12 Overall time: 00:21:12 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 24 files... [bam_rmdupse_core] 20883567 / 55786169 = 0.3744 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 10:16:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.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 10:16:57: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:16:57: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:17:03: 1000000 INFO @ Tue, 16 Jun 2020 10:17:09: 2000000 INFO @ Tue, 16 Jun 2020 10:17:15: 3000000 INFO @ Tue, 16 Jun 2020 10:17:22: 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 10:17:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.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 10:17:27: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:17:27: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:17:28: 5000000 INFO @ Tue, 16 Jun 2020 10:17:34: 6000000 INFO @ Tue, 16 Jun 2020 10:17:34: 1000000 INFO @ Tue, 16 Jun 2020 10:17:40: 7000000 INFO @ Tue, 16 Jun 2020 10:17:41: 2000000 INFO @ Tue, 16 Jun 2020 10:17:47: 8000000 INFO @ Tue, 16 Jun 2020 10:17:47: 3000000 INFO @ Tue, 16 Jun 2020 10:17:53: 9000000 INFO @ Tue, 16 Jun 2020 10:17:53: 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 10:17:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.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 10:17:57: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:17:57: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:17:59: 10000000 INFO @ Tue, 16 Jun 2020 10:18:00: 5000000 INFO @ Tue, 16 Jun 2020 10:18:04: 1000000 INFO @ Tue, 16 Jun 2020 10:18:06: 11000000 INFO @ Tue, 16 Jun 2020 10:18:07: 6000000 INFO @ Tue, 16 Jun 2020 10:18:11: 2000000 INFO @ Tue, 16 Jun 2020 10:18:12: 12000000 INFO @ Tue, 16 Jun 2020 10:18:13: 7000000 INFO @ Tue, 16 Jun 2020 10:18:18: 3000000 INFO @ Tue, 16 Jun 2020 10:18:19: 13000000 INFO @ Tue, 16 Jun 2020 10:18:20: 8000000 INFO @ Tue, 16 Jun 2020 10:18:24: 4000000 INFO @ Tue, 16 Jun 2020 10:18:25: 14000000 INFO @ Tue, 16 Jun 2020 10:18:26: 9000000 INFO @ Tue, 16 Jun 2020 10:18:31: 5000000 INFO @ Tue, 16 Jun 2020 10:18:32: 15000000 INFO @ Tue, 16 Jun 2020 10:18:33: 10000000 INFO @ Tue, 16 Jun 2020 10:18:37: 6000000 INFO @ Tue, 16 Jun 2020 10:18:39: 16000000 INFO @ Tue, 16 Jun 2020 10:18:40: 11000000 INFO @ Tue, 16 Jun 2020 10:18:44: 7000000 INFO @ Tue, 16 Jun 2020 10:18:45: 17000000 INFO @ Tue, 16 Jun 2020 10:18:46: 12000000 INFO @ Tue, 16 Jun 2020 10:18:50: 8000000 INFO @ Tue, 16 Jun 2020 10:18:52: 18000000 INFO @ Tue, 16 Jun 2020 10:18:52: 13000000 INFO @ Tue, 16 Jun 2020 10:18:57: 9000000 INFO @ Tue, 16 Jun 2020 10:18:58: 19000000 INFO @ Tue, 16 Jun 2020 10:18:59: 14000000 INFO @ Tue, 16 Jun 2020 10:19:03: 10000000 INFO @ Tue, 16 Jun 2020 10:19:05: 20000000 INFO @ Tue, 16 Jun 2020 10:19:05: 15000000 INFO @ Tue, 16 Jun 2020 10:19:10: 11000000 INFO @ Tue, 16 Jun 2020 10:19:11: 21000000 INFO @ Tue, 16 Jun 2020 10:19:12: 16000000 INFO @ Tue, 16 Jun 2020 10:19:16: 12000000 INFO @ Tue, 16 Jun 2020 10:19:18: 22000000 INFO @ Tue, 16 Jun 2020 10:19:18: 17000000 INFO @ Tue, 16 Jun 2020 10:19:22: 13000000 INFO @ Tue, 16 Jun 2020 10:19:24: 23000000 INFO @ Tue, 16 Jun 2020 10:19:25: 18000000 INFO @ Tue, 16 Jun 2020 10:19:29: 14000000 INFO @ Tue, 16 Jun 2020 10:19:30: 24000000 INFO @ Tue, 16 Jun 2020 10:19:31: 19000000 INFO @ Tue, 16 Jun 2020 10:19:35: 15000000 INFO @ Tue, 16 Jun 2020 10:19:37: 25000000 INFO @ Tue, 16 Jun 2020 10:19:38: 20000000 INFO @ Tue, 16 Jun 2020 10:19:42: 16000000 INFO @ Tue, 16 Jun 2020 10:19:44: 26000000 INFO @ Tue, 16 Jun 2020 10:19:44: 21000000 INFO @ Tue, 16 Jun 2020 10:19:48: 17000000 INFO @ Tue, 16 Jun 2020 10:19:50: 27000000 INFO @ Tue, 16 Jun 2020 10:19:51: 22000000 INFO @ Tue, 16 Jun 2020 10:19:55: 18000000 INFO @ Tue, 16 Jun 2020 10:19:57: 28000000 INFO @ Tue, 16 Jun 2020 10:19:57: 23000000 INFO @ Tue, 16 Jun 2020 10:20:01: 19000000 INFO @ Tue, 16 Jun 2020 10:20:03: 29000000 INFO @ Tue, 16 Jun 2020 10:20:04: 24000000 INFO @ Tue, 16 Jun 2020 10:20:08: 20000000 INFO @ Tue, 16 Jun 2020 10:20:10: 30000000 INFO @ Tue, 16 Jun 2020 10:20:11: 25000000 INFO @ Tue, 16 Jun 2020 10:20:15: 21000000 INFO @ Tue, 16 Jun 2020 10:20:16: 31000000 INFO @ Tue, 16 Jun 2020 10:20:17: 26000000 INFO @ Tue, 16 Jun 2020 10:20:22: 22000000 INFO @ Tue, 16 Jun 2020 10:20:23: 32000000 INFO @ Tue, 16 Jun 2020 10:20:23: 27000000 INFO @ Tue, 16 Jun 2020 10:20:28: 23000000 INFO @ Tue, 16 Jun 2020 10:20:29: 33000000 INFO @ Tue, 16 Jun 2020 10:20:30: 28000000 INFO @ Tue, 16 Jun 2020 10:20:35: 24000000 INFO @ Tue, 16 Jun 2020 10:20:36: 34000000 INFO @ Tue, 16 Jun 2020 10:20:36: 29000000 INFO @ Tue, 16 Jun 2020 10:20:41: 25000000 INFO @ Tue, 16 Jun 2020 10:20:42: #1 tag size is determined as 55 bps INFO @ Tue, 16 Jun 2020 10:20:42: #1 tag size = 55 INFO @ Tue, 16 Jun 2020 10:20:42: #1 total tags in treatment: 34902602 INFO @ Tue, 16 Jun 2020 10:20:42: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:20:42: #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 10:20:43: 30000000 INFO @ Tue, 16 Jun 2020 10:20:43: #1 tags after filtering in treatment: 34902602 INFO @ Tue, 16 Jun 2020 10:20:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 10:20:43: #1 finished! INFO @ Tue, 16 Jun 2020 10:20:43: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:20:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:20:45: #2 number of paired peaks: 20 WARNING @ Tue, 16 Jun 2020 10:20:45: Too few paired peaks (20) 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 10:20:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.05_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/SRX5702589/SRX5702589.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 10:20:47: 26000000 INFO @ Tue, 16 Jun 2020 10:20:49: 31000000 INFO @ Tue, 16 Jun 2020 10:20:54: 27000000 INFO @ Tue, 16 Jun 2020 10:20:55: 32000000 INFO @ Tue, 16 Jun 2020 10:21:00: 28000000 INFO @ Tue, 16 Jun 2020 10:21:01: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 10:21:06: 29000000 INFO @ Tue, 16 Jun 2020 10:21:08: 34000000 INFO @ Tue, 16 Jun 2020 10:21:12: 30000000 INFO @ Tue, 16 Jun 2020 10:21:14: #1 tag size is determined as 55 bps INFO @ Tue, 16 Jun 2020 10:21:14: #1 tag size = 55 INFO @ Tue, 16 Jun 2020 10:21:14: #1 total tags in treatment: 34902602 INFO @ Tue, 16 Jun 2020 10:21:14: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:21:14: #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 10:21:14: #1 tags after filtering in treatment: 34902602 INFO @ Tue, 16 Jun 2020 10:21:14: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 10:21:14: #1 finished! INFO @ Tue, 16 Jun 2020 10:21:14: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:21:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:21:17: #2 number of paired peaks: 20 WARNING @ Tue, 16 Jun 2020 10:21:17: Too few paired peaks (20) 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 10:21:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.10_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/SRX5702589/SRX5702589.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 10:21:18: 31000000 INFO @ Tue, 16 Jun 2020 10:21:24: 32000000 INFO @ Tue, 16 Jun 2020 10:21:30: 33000000 INFO @ Tue, 16 Jun 2020 10:21:36: 34000000 INFO @ Tue, 16 Jun 2020 10:21:42: #1 tag size is determined as 55 bps INFO @ Tue, 16 Jun 2020 10:21:42: #1 tag size = 55 INFO @ Tue, 16 Jun 2020 10:21:42: #1 total tags in treatment: 34902602 INFO @ Tue, 16 Jun 2020 10:21:42: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:21:42: #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 10:21:42: #1 tags after filtering in treatment: 34902602 INFO @ Tue, 16 Jun 2020 10:21:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 10:21:42: #1 finished! INFO @ Tue, 16 Jun 2020 10:21:42: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:21:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:21:44: #2 number of paired peaks: 20 WARNING @ Tue, 16 Jun 2020 10:21:44: Too few paired peaks (20) 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 10:21:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.20_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/SRX5702589/SRX5702589.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5702589/SRX5702589.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。