Job ID = 6367685 SRX = SRX3923758 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:39:29 prefetch.2.10.7: 1) Downloading 'SRR6983680'... 2020-06-15T23:39:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:53:07 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:53:07 prefetch.2.10.7: 1) 'SRR6983680' was downloaded successfully 2020-06-15T23:53:07 prefetch.2.10.7: 'SRR6983680' has 0 unresolved dependencies Read 130414596 spots for SRR6983680/SRR6983680.sra Written 130414596 spots for SRR6983680/SRR6983680.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: 00:29:03 130414596 reads; of these: 130414596 (100.00%) were unpaired; of these: 1941427 (1.49%) aligned 0 times 109336585 (83.84%) aligned exactly 1 time 19136584 (14.67%) aligned >1 times 98.51% overall alignment rate Time searching: 00:29:03 Overall time: 00:29:03 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 56 files... [bam_rmdupse_core] 91447878 / 128473169 = 0.7118 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 09:48:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.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 09:48:01: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:48:01: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:48:07: 1000000 INFO @ Tue, 16 Jun 2020 09:48:13: 2000000 INFO @ Tue, 16 Jun 2020 09:48:19: 3000000 INFO @ Tue, 16 Jun 2020 09:48:25: 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 09:48:31: 5000000 INFO @ Tue, 16 Jun 2020 09:48:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.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 09:48:31: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:48:31: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:48:37: 6000000 INFO @ Tue, 16 Jun 2020 09:48:38: 1000000 INFO @ Tue, 16 Jun 2020 09:48:44: 7000000 INFO @ Tue, 16 Jun 2020 09:48:45: 2000000 INFO @ Tue, 16 Jun 2020 09:48:51: 8000000 INFO @ Tue, 16 Jun 2020 09:48:52: 3000000 INFO @ Tue, 16 Jun 2020 09:48:58: 9000000 INFO @ Tue, 16 Jun 2020 09:48:58: 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 09:49:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.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 09:49:01: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:49:01: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:49:04: 10000000 INFO @ Tue, 16 Jun 2020 09:49:05: 5000000 INFO @ Tue, 16 Jun 2020 09:49:08: 1000000 INFO @ Tue, 16 Jun 2020 09:49:11: 11000000 INFO @ Tue, 16 Jun 2020 09:49:12: 6000000 INFO @ Tue, 16 Jun 2020 09:49:15: 2000000 INFO @ Tue, 16 Jun 2020 09:49:18: 12000000 INFO @ Tue, 16 Jun 2020 09:49:19: 7000000 INFO @ Tue, 16 Jun 2020 09:49:22: 3000000 INFO @ Tue, 16 Jun 2020 09:49:25: 13000000 INFO @ Tue, 16 Jun 2020 09:49:26: 8000000 INFO @ Tue, 16 Jun 2020 09:49:28: 4000000 INFO @ Tue, 16 Jun 2020 09:49:31: 14000000 INFO @ Tue, 16 Jun 2020 09:49:33: 9000000 INFO @ Tue, 16 Jun 2020 09:49:35: 5000000 INFO @ Tue, 16 Jun 2020 09:49:38: 15000000 INFO @ Tue, 16 Jun 2020 09:49:40: 10000000 INFO @ Tue, 16 Jun 2020 09:49:42: 6000000 INFO @ Tue, 16 Jun 2020 09:49:45: 16000000 INFO @ Tue, 16 Jun 2020 09:49:47: 11000000 INFO @ Tue, 16 Jun 2020 09:49:49: 7000000 INFO @ Tue, 16 Jun 2020 09:49:52: 17000000 INFO @ Tue, 16 Jun 2020 09:49:54: 12000000 INFO @ Tue, 16 Jun 2020 09:49:56: 8000000 INFO @ Tue, 16 Jun 2020 09:49:58: 18000000 INFO @ Tue, 16 Jun 2020 09:50:01: 13000000 INFO @ Tue, 16 Jun 2020 09:50:03: 9000000 INFO @ Tue, 16 Jun 2020 09:50:05: 19000000 INFO @ Tue, 16 Jun 2020 09:50:08: 14000000 INFO @ Tue, 16 Jun 2020 09:50:09: 10000000 INFO @ Tue, 16 Jun 2020 09:50:12: 20000000 INFO @ Tue, 16 Jun 2020 09:50:15: 15000000 INFO @ Tue, 16 Jun 2020 09:50:16: 11000000 INFO @ Tue, 16 Jun 2020 09:50:19: 21000000 INFO @ Tue, 16 Jun 2020 09:50:22: 16000000 INFO @ Tue, 16 Jun 2020 09:50:23: 12000000 INFO @ Tue, 16 Jun 2020 09:50:26: 22000000 INFO @ Tue, 16 Jun 2020 09:50:29: 17000000 INFO @ Tue, 16 Jun 2020 09:50:30: 13000000 INFO @ Tue, 16 Jun 2020 09:50:32: 23000000 INFO @ Tue, 16 Jun 2020 09:50:36: 18000000 INFO @ Tue, 16 Jun 2020 09:50:36: 14000000 INFO @ Tue, 16 Jun 2020 09:50:39: 24000000 INFO @ Tue, 16 Jun 2020 09:50:43: 19000000 INFO @ Tue, 16 Jun 2020 09:50:43: 15000000 INFO @ Tue, 16 Jun 2020 09:50:46: 25000000 INFO @ Tue, 16 Jun 2020 09:50:50: 16000000 INFO @ Tue, 16 Jun 2020 09:50:50: 20000000 INFO @ Tue, 16 Jun 2020 09:50:53: 26000000 INFO @ Tue, 16 Jun 2020 09:50:57: 17000000 INFO @ Tue, 16 Jun 2020 09:50:57: 21000000 INFO @ Tue, 16 Jun 2020 09:50:59: 27000000 INFO @ Tue, 16 Jun 2020 09:51:03: 18000000 INFO @ Tue, 16 Jun 2020 09:51:04: 22000000 INFO @ Tue, 16 Jun 2020 09:51:06: 28000000 INFO @ Tue, 16 Jun 2020 09:51:10: 19000000 INFO @ Tue, 16 Jun 2020 09:51:11: 23000000 INFO @ Tue, 16 Jun 2020 09:51:13: 29000000 INFO @ Tue, 16 Jun 2020 09:51:17: 20000000 INFO @ Tue, 16 Jun 2020 09:51:18: 24000000 INFO @ Tue, 16 Jun 2020 09:51:20: 30000000 INFO @ Tue, 16 Jun 2020 09:51:24: 21000000 INFO @ Tue, 16 Jun 2020 09:51:25: 25000000 INFO @ Tue, 16 Jun 2020 09:51:26: 31000000 INFO @ Tue, 16 Jun 2020 09:51:30: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:51:31: 26000000 INFO @ Tue, 16 Jun 2020 09:51:33: 32000000 INFO @ Tue, 16 Jun 2020 09:51:37: 23000000 INFO @ Tue, 16 Jun 2020 09:51:38: 27000000 INFO @ Tue, 16 Jun 2020 09:51:40: 33000000 INFO @ Tue, 16 Jun 2020 09:51:44: 24000000 INFO @ Tue, 16 Jun 2020 09:51:45: 28000000 INFO @ Tue, 16 Jun 2020 09:51:47: 34000000 INFO @ Tue, 16 Jun 2020 09:51:50: 25000000 INFO @ Tue, 16 Jun 2020 09:51:52: 29000000 INFO @ Tue, 16 Jun 2020 09:51:54: 35000000 INFO @ Tue, 16 Jun 2020 09:51:57: 26000000 INFO @ Tue, 16 Jun 2020 09:51:59: 30000000 INFO @ Tue, 16 Jun 2020 09:52:00: 36000000 INFO @ Tue, 16 Jun 2020 09:52:04: 27000000 INFO @ Tue, 16 Jun 2020 09:52:06: 31000000 INFO @ Tue, 16 Jun 2020 09:52:07: 37000000 INFO @ Tue, 16 Jun 2020 09:52:08: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:52:08: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:52:08: #1 total tags in treatment: 37025291 INFO @ Tue, 16 Jun 2020 09:52:08: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:52:08: #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 09:52:08: #1 tags after filtering in treatment: 37025291 INFO @ Tue, 16 Jun 2020 09:52:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:52:08: #1 finished! INFO @ Tue, 16 Jun 2020 09:52:08: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:52:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:52:11: #2 number of paired peaks: 0 WARNING @ Tue, 16 Jun 2020 09:52:11: 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 @ Tue, 16 Jun 2020 09:52:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.05_peaks.narrowPeak: No such file or directory INFO @ Tue, 16 Jun 2020 09:52:11: 28000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:52:13: 32000000 INFO @ Tue, 16 Jun 2020 09:52:18: 29000000 INFO @ Tue, 16 Jun 2020 09:52:20: 33000000 INFO @ Tue, 16 Jun 2020 09:52:24: 30000000 INFO @ Tue, 16 Jun 2020 09:52:27: 34000000 INFO @ Tue, 16 Jun 2020 09:52:31: 31000000 INFO @ Tue, 16 Jun 2020 09:52:33: 35000000 INFO @ Tue, 16 Jun 2020 09:52:38: 32000000 INFO @ Tue, 16 Jun 2020 09:52:40: 36000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:52:45: 33000000 INFO @ Tue, 16 Jun 2020 09:52:47: 37000000 INFO @ Tue, 16 Jun 2020 09:52:47: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:52:47: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:52:47: #1 total tags in treatment: 37025291 INFO @ Tue, 16 Jun 2020 09:52:47: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:52:47: #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 09:52:48: #1 tags after filtering in treatment: 37025291 INFO @ Tue, 16 Jun 2020 09:52:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:52:48: #1 finished! INFO @ Tue, 16 Jun 2020 09:52:48: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:52:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:52:50: #2 number of paired peaks: 0 WARNING @ Tue, 16 Jun 2020 09:52:50: 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 @ Tue, 16 Jun 2020 09:52:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.10_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/SRX3923758/SRX3923758.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:52:51: 34000000 INFO @ Tue, 16 Jun 2020 09:52:58: 35000000 INFO @ Tue, 16 Jun 2020 09:53:04: 36000000 INFO @ Tue, 16 Jun 2020 09:53:09: 37000000 INFO @ Tue, 16 Jun 2020 09:53:10: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:53:10: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:53:10: #1 total tags in treatment: 37025291 INFO @ Tue, 16 Jun 2020 09:53:10: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:53:10: #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 09:53:10: #1 tags after filtering in treatment: 37025291 INFO @ Tue, 16 Jun 2020 09:53:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:53:10: #1 finished! INFO @ Tue, 16 Jun 2020 09:53:10: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:53:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:53:13: #2 number of paired peaks: 0 WARNING @ Tue, 16 Jun 2020 09:53:13: 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 @ Tue, 16 Jun 2020 09:53:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.20_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/SRX3923758/SRX3923758.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3923758/SRX3923758.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling