Job ID = 6368680 SRX = SRX5402707 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-16T00:24:48 prefetch.2.10.7: 1) Downloading 'SRR8602941'... 2020-06-16T00:24:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:31:46 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:31:46 prefetch.2.10.7: 1) 'SRR8602941' was downloaded successfully Read 42455837 spots for SRR8602941/SRR8602941.sra Written 42455837 spots for SRR8602941/SRR8602941.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: 00:08:28 42455837 reads; of these: 42455837 (100.00%) were unpaired; of these: 3743418 (8.82%) aligned 0 times 33542052 (79.00%) aligned exactly 1 time 5170367 (12.18%) aligned >1 times 91.18% overall alignment rate Time searching: 00:08:28 Overall time: 00:08:28 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 16 files... [bam_rmdupse_core] 10354134 / 38712419 = 0.2675 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 09:53:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.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 09:53:34: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:53:34: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:53:42: 1000000 INFO @ Tue, 16 Jun 2020 09:53:50: 2000000 INFO @ Tue, 16 Jun 2020 09:53:58: 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 @ Tue, 16 Jun 2020 09:54:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.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 09:54:04: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:54:04: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:54:07: 4000000 INFO @ Tue, 16 Jun 2020 09:54:12: 1000000 INFO @ Tue, 16 Jun 2020 09:54:15: 5000000 INFO @ Tue, 16 Jun 2020 09:54:20: 2000000 INFO @ Tue, 16 Jun 2020 09:54:23: 6000000 INFO @ Tue, 16 Jun 2020 09:54:28: 3000000 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 09:54:31: 7000000 INFO @ Tue, 16 Jun 2020 09:54:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.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 09:54:34: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:54:34: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:54:37: 4000000 INFO @ Tue, 16 Jun 2020 09:54:40: 8000000 INFO @ Tue, 16 Jun 2020 09:54:43: 1000000 INFO @ Tue, 16 Jun 2020 09:54:45: 5000000 INFO @ Tue, 16 Jun 2020 09:54:49: 9000000 INFO @ Tue, 16 Jun 2020 09:54:51: 2000000 INFO @ Tue, 16 Jun 2020 09:54:54: 6000000 INFO @ Tue, 16 Jun 2020 09:54:58: 10000000 INFO @ Tue, 16 Jun 2020 09:55:00: 3000000 INFO @ Tue, 16 Jun 2020 09:55:02: 7000000 INFO @ Tue, 16 Jun 2020 09:55:06: 11000000 INFO @ Tue, 16 Jun 2020 09:55:08: 4000000 INFO @ Tue, 16 Jun 2020 09:55:10: 8000000 INFO @ Tue, 16 Jun 2020 09:55:14: 12000000 INFO @ Tue, 16 Jun 2020 09:55:16: 5000000 INFO @ Tue, 16 Jun 2020 09:55:19: 9000000 INFO @ Tue, 16 Jun 2020 09:55:22: 13000000 INFO @ Tue, 16 Jun 2020 09:55:24: 6000000 INFO @ Tue, 16 Jun 2020 09:55:28: 10000000 INFO @ Tue, 16 Jun 2020 09:55:29: 14000000 INFO @ Tue, 16 Jun 2020 09:55:31: 7000000 INFO @ Tue, 16 Jun 2020 09:55:36: 11000000 INFO @ Tue, 16 Jun 2020 09:55:37: 15000000 INFO @ Tue, 16 Jun 2020 09:55:39: 8000000 INFO @ Tue, 16 Jun 2020 09:55:44: 12000000 INFO @ Tue, 16 Jun 2020 09:55:45: 16000000 INFO @ Tue, 16 Jun 2020 09:55:47: 9000000 INFO @ Tue, 16 Jun 2020 09:55:52: 13000000 INFO @ Tue, 16 Jun 2020 09:55:52: 17000000 INFO @ Tue, 16 Jun 2020 09:55:54: 10000000 INFO @ Tue, 16 Jun 2020 09:55:59: 14000000 INFO @ Tue, 16 Jun 2020 09:56:00: 18000000 INFO @ Tue, 16 Jun 2020 09:56:02: 11000000 INFO @ Tue, 16 Jun 2020 09:56:07: 15000000 INFO @ Tue, 16 Jun 2020 09:56:07: 19000000 INFO @ Tue, 16 Jun 2020 09:56:09: 12000000 INFO @ Tue, 16 Jun 2020 09:56:15: 20000000 INFO @ Tue, 16 Jun 2020 09:56:15: 16000000 INFO @ Tue, 16 Jun 2020 09:56:17: 13000000 INFO @ Tue, 16 Jun 2020 09:56:22: 21000000 INFO @ Tue, 16 Jun 2020 09:56:22: 17000000 INFO @ Tue, 16 Jun 2020 09:56:24: 14000000 INFO @ Tue, 16 Jun 2020 09:56:28: 22000000 INFO @ Tue, 16 Jun 2020 09:56:29: 18000000 INFO @ Tue, 16 Jun 2020 09:56:30: 15000000 INFO @ Tue, 16 Jun 2020 09:56:34: 23000000 INFO @ Tue, 16 Jun 2020 09:56:36: 19000000 INFO @ Tue, 16 Jun 2020 09:56:37: 16000000 INFO @ Tue, 16 Jun 2020 09:56:41: 24000000 INFO @ Tue, 16 Jun 2020 09:56:43: 20000000 INFO @ Tue, 16 Jun 2020 09:56:43: 17000000 INFO @ Tue, 16 Jun 2020 09:56:47: 25000000 INFO @ Tue, 16 Jun 2020 09:56:49: 18000000 INFO @ Tue, 16 Jun 2020 09:56:49: 21000000 INFO @ Tue, 16 Jun 2020 09:56:53: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:56:55: 22000000 INFO @ Tue, 16 Jun 2020 09:56:55: 19000000 INFO @ Tue, 16 Jun 2020 09:56:59: 27000000 INFO @ Tue, 16 Jun 2020 09:57:01: 23000000 INFO @ Tue, 16 Jun 2020 09:57:02: 20000000 INFO @ Tue, 16 Jun 2020 09:57:05: 28000000 INFO @ Tue, 16 Jun 2020 09:57:07: 24000000 INFO @ Tue, 16 Jun 2020 09:57:08: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:57:08: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:57:08: #1 total tags in treatment: 28358285 INFO @ Tue, 16 Jun 2020 09:57:08: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:57:08: #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 09:57:08: 21000000 INFO @ Tue, 16 Jun 2020 09:57:08: #1 tags after filtering in treatment: 28358285 INFO @ Tue, 16 Jun 2020 09:57:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:57:08: #1 finished! INFO @ Tue, 16 Jun 2020 09:57:08: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:57:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:57:10: #2 number of paired peaks: 59 WARNING @ Tue, 16 Jun 2020 09:57:10: Too few paired peaks (59) 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 09:57:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.05_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/SRX5402707/SRX5402707.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:57:13: 22000000 INFO @ Tue, 16 Jun 2020 09:57:14: 25000000 INFO @ Tue, 16 Jun 2020 09:57:19: 23000000 INFO @ Tue, 16 Jun 2020 09:57:21: 26000000 INFO @ Tue, 16 Jun 2020 09:57:25: 24000000 INFO @ Tue, 16 Jun 2020 09:57:28: 27000000 INFO @ Tue, 16 Jun 2020 09:57:31: 25000000 INFO @ Tue, 16 Jun 2020 09:57:35: 28000000 INFO @ Tue, 16 Jun 2020 09:57:36: 26000000 INFO @ Tue, 16 Jun 2020 09:57:37: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:57:37: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:57:37: #1 total tags in treatment: 28358285 INFO @ Tue, 16 Jun 2020 09:57:37: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:57:37: #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 09:57:38: #1 tags after filtering in treatment: 28358285 INFO @ Tue, 16 Jun 2020 09:57:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:57:38: #1 finished! INFO @ Tue, 16 Jun 2020 09:57:38: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:57:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:57:40: #2 number of paired peaks: 59 WARNING @ Tue, 16 Jun 2020 09:57:40: Too few paired peaks (59) 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 09:57:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.10_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/SRX5402707/SRX5402707.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:57:42: 27000000 INFO @ Tue, 16 Jun 2020 09:57:47: 28000000 INFO @ Tue, 16 Jun 2020 09:57:50: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:57:50: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:57:50: #1 total tags in treatment: 28358285 INFO @ Tue, 16 Jun 2020 09:57:50: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:57:50: #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 09:57:50: #1 tags after filtering in treatment: 28358285 INFO @ Tue, 16 Jun 2020 09:57:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:57:50: #1 finished! INFO @ Tue, 16 Jun 2020 09:57:50: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:57:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:57:52: #2 number of paired peaks: 59 WARNING @ Tue, 16 Jun 2020 09:57:52: Too few paired peaks (59) 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 09:57:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.20_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/SRX5402707/SRX5402707.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5402707/SRX5402707.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。