Job ID = 6367188 SRX = SRX2973397 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:18:46 prefetch.2.10.7: 1) Downloading 'SRR5786972'... 2020-06-15T23:18:46 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:23:08 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:23:08 prefetch.2.10.7: 1) 'SRR5786972' was downloaded successfully Read 33011896 spots for SRR5786972/SRR5786972.sra Written 33011896 spots for SRR5786972/SRR5786972.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: 00:15:58 33011896 reads; of these: 33011896 (100.00%) were unpaired; of these: 3791102 (11.48%) aligned 0 times 24545263 (74.35%) aligned exactly 1 time 4675531 (14.16%) aligned >1 times 88.52% overall alignment rate Time searching: 00:15:58 Overall time: 00:15:58 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 12 files... [bam_rmdupse_core] 3656351 / 29220794 = 0.1251 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 08:51:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.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 08:51:14: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:51:14: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:51:21: 1000000 INFO @ Tue, 16 Jun 2020 08:51:29: 2000000 INFO @ Tue, 16 Jun 2020 08:51:36: 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 08:51:43: 4000000 INFO @ Tue, 16 Jun 2020 08:51:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.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 08:51:44: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:51:44: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:51:51: 5000000 INFO @ Tue, 16 Jun 2020 08:51:51: 1000000 INFO @ Tue, 16 Jun 2020 08:51:58: 2000000 INFO @ Tue, 16 Jun 2020 08:51:58: 6000000 INFO @ Tue, 16 Jun 2020 08:52:05: 3000000 INFO @ Tue, 16 Jun 2020 08:52:05: 7000000 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 08:52:12: 4000000 INFO @ Tue, 16 Jun 2020 08:52:12: 8000000 INFO @ Tue, 16 Jun 2020 08:52:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.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 08:52:14: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:52:14: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:52:19: 5000000 INFO @ Tue, 16 Jun 2020 08:52:20: 9000000 INFO @ Tue, 16 Jun 2020 08:52:20: 1000000 INFO @ Tue, 16 Jun 2020 08:52:26: 6000000 INFO @ Tue, 16 Jun 2020 08:52:26: 2000000 INFO @ Tue, 16 Jun 2020 08:52:27: 10000000 INFO @ Tue, 16 Jun 2020 08:52:33: 7000000 INFO @ Tue, 16 Jun 2020 08:52:33: 3000000 INFO @ Tue, 16 Jun 2020 08:52:35: 11000000 INFO @ Tue, 16 Jun 2020 08:52:39: 4000000 INFO @ Tue, 16 Jun 2020 08:52:40: 8000000 INFO @ Tue, 16 Jun 2020 08:52:42: 12000000 INFO @ Tue, 16 Jun 2020 08:52:46: 5000000 INFO @ Tue, 16 Jun 2020 08:52:47: 9000000 INFO @ Tue, 16 Jun 2020 08:52:49: 13000000 INFO @ Tue, 16 Jun 2020 08:52:52: 6000000 INFO @ Tue, 16 Jun 2020 08:52:54: 10000000 INFO @ Tue, 16 Jun 2020 08:52:57: 14000000 INFO @ Tue, 16 Jun 2020 08:52:59: 7000000 INFO @ Tue, 16 Jun 2020 08:53:02: 11000000 INFO @ Tue, 16 Jun 2020 08:53:04: 15000000 INFO @ Tue, 16 Jun 2020 08:53:05: 8000000 INFO @ Tue, 16 Jun 2020 08:53:09: 12000000 INFO @ Tue, 16 Jun 2020 08:53:11: 16000000 INFO @ Tue, 16 Jun 2020 08:53:12: 9000000 INFO @ Tue, 16 Jun 2020 08:53:16: 13000000 INFO @ Tue, 16 Jun 2020 08:53:18: 10000000 INFO @ Tue, 16 Jun 2020 08:53:18: 17000000 INFO @ Tue, 16 Jun 2020 08:53:23: 14000000 INFO @ Tue, 16 Jun 2020 08:53:25: 11000000 INFO @ Tue, 16 Jun 2020 08:53:25: 18000000 INFO @ Tue, 16 Jun 2020 08:53:30: 15000000 INFO @ Tue, 16 Jun 2020 08:53:31: 12000000 INFO @ Tue, 16 Jun 2020 08:53:32: 19000000 INFO @ Tue, 16 Jun 2020 08:53:38: 16000000 INFO @ Tue, 16 Jun 2020 08:53:38: 13000000 INFO @ Tue, 16 Jun 2020 08:53:40: 20000000 INFO @ Tue, 16 Jun 2020 08:53:44: 14000000 INFO @ Tue, 16 Jun 2020 08:53:44: 17000000 INFO @ Tue, 16 Jun 2020 08:53:47: 21000000 INFO @ Tue, 16 Jun 2020 08:53:51: 15000000 INFO @ Tue, 16 Jun 2020 08:53:51: 18000000 INFO @ Tue, 16 Jun 2020 08:53:54: 22000000 INFO @ Tue, 16 Jun 2020 08:53:57: 16000000 INFO @ Tue, 16 Jun 2020 08:53:58: 19000000 INFO @ Tue, 16 Jun 2020 08:54:01: 23000000 INFO @ Tue, 16 Jun 2020 08:54:03: 17000000 INFO @ Tue, 16 Jun 2020 08:54:05: 20000000 INFO @ Tue, 16 Jun 2020 08:54:08: 24000000 INFO @ Tue, 16 Jun 2020 08:54:10: 18000000 INFO @ Tue, 16 Jun 2020 08:54:12: 21000000 INFO @ Tue, 16 Jun 2020 08:54:15: 25000000 INFO @ Tue, 16 Jun 2020 08:54:16: 19000000 INFO @ Tue, 16 Jun 2020 08:54:19: 22000000 INFO @ Tue, 16 Jun 2020 08:54:19: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 08:54:19: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 08:54:19: #1 total tags in treatment: 25564443 INFO @ Tue, 16 Jun 2020 08:54:19: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:54:19: #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 08:54:20: #1 tags after filtering in treatment: 25564443 INFO @ Tue, 16 Jun 2020 08:54:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:54:20: #1 finished! INFO @ Tue, 16 Jun 2020 08:54:20: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:54:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:54:22: #2 number of paired peaks: 88 WARNING @ Tue, 16 Jun 2020 08:54:22: Too few paired peaks (88) 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 08:54:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.05_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/SRX2973397/SRX2973397.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:54:22: 20000000 INFO @ Tue, 16 Jun 2020 08:54:26: 23000000 INFO @ Tue, 16 Jun 2020 08:54:28: 21000000 INFO @ Tue, 16 Jun 2020 08:54:33: 24000000 INFO @ Tue, 16 Jun 2020 08:54:35: 22000000 INFO @ Tue, 16 Jun 2020 08:54:40: 25000000 INFO @ Tue, 16 Jun 2020 08:54:41: 23000000 INFO @ Tue, 16 Jun 2020 08:54:44: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 08:54:44: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 08:54:44: #1 total tags in treatment: 25564443 INFO @ Tue, 16 Jun 2020 08:54:44: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:54:44: #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 08:54:45: #1 tags after filtering in treatment: 25564443 INFO @ Tue, 16 Jun 2020 08:54:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:54:45: #1 finished! INFO @ Tue, 16 Jun 2020 08:54:45: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:54:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:54:47: #2 number of paired peaks: 88 WARNING @ Tue, 16 Jun 2020 08:54:47: Too few paired peaks (88) 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 08:54:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.10_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/SRX2973397/SRX2973397.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:54:47: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:54:53: 25000000 INFO @ Tue, 16 Jun 2020 08:54:57: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 08:54:57: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 08:54:57: #1 total tags in treatment: 25564443 INFO @ Tue, 16 Jun 2020 08:54:57: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:54:57: #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 08:54:57: #1 tags after filtering in treatment: 25564443 INFO @ Tue, 16 Jun 2020 08:54:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:54:57: #1 finished! INFO @ Tue, 16 Jun 2020 08:54:57: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:54:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:54:59: #2 number of paired peaks: 88 WARNING @ Tue, 16 Jun 2020 08:54:59: Too few paired peaks (88) 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 08:54:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.20_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/SRX2973397/SRX2973397.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973397/SRX2973397.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。