Job ID = 6367189 SRX = SRX2973398 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:15:46 prefetch.2.10.7: 1) Downloading 'SRR5786971'... 2020-06-15T23:15:46 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:19:36 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:19:36 prefetch.2.10.7: 1) 'SRR5786971' was downloaded successfully 2020-06-15T23:19:36 prefetch.2.10.7: 'SRR5786971' has 0 unresolved dependencies Read 47036427 spots for SRR5786971/SRR5786971.sra Written 47036427 spots for SRR5786971/SRR5786971.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: 00:15:24 47036427 reads; of these: 47036427 (100.00%) were unpaired; of these: 4271735 (9.08%) aligned 0 times 35550302 (75.58%) aligned exactly 1 time 7214390 (15.34%) aligned >1 times 90.92% overall alignment rate Time searching: 00:15:24 Overall time: 00:15:24 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] 9433005 / 42764692 = 0.2206 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 08:48:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.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 08:48:20: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:48:20: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:48:26: 1000000 INFO @ Tue, 16 Jun 2020 08:48:31: 2000000 INFO @ Tue, 16 Jun 2020 08:48:37: 3000000 INFO @ Tue, 16 Jun 2020 08:48:42: 4000000 INFO @ Tue, 16 Jun 2020 08:48:48: 5000000 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 08:48:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.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 08:48:50: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:48:50: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:48:53: 6000000 INFO @ Tue, 16 Jun 2020 08:48:56: 1000000 INFO @ Tue, 16 Jun 2020 08:48:59: 7000000 INFO @ Tue, 16 Jun 2020 08:49:02: 2000000 INFO @ Tue, 16 Jun 2020 08:49:04: 8000000 INFO @ Tue, 16 Jun 2020 08:49:07: 3000000 INFO @ Tue, 16 Jun 2020 08:49:11: 9000000 INFO @ Tue, 16 Jun 2020 08:49:13: 4000000 INFO @ Tue, 16 Jun 2020 08:49:17: 10000000 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 08:49:19: 5000000 INFO @ Tue, 16 Jun 2020 08:49:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.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 08:49:20: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:49:20: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:49:22: 11000000 INFO @ Tue, 16 Jun 2020 08:49:25: 6000000 INFO @ Tue, 16 Jun 2020 08:49:26: 1000000 INFO @ Tue, 16 Jun 2020 08:49:28: 12000000 INFO @ Tue, 16 Jun 2020 08:49:31: 7000000 INFO @ Tue, 16 Jun 2020 08:49:32: 2000000 INFO @ Tue, 16 Jun 2020 08:49:34: 13000000 INFO @ Tue, 16 Jun 2020 08:49:36: 8000000 INFO @ Tue, 16 Jun 2020 08:49:38: 3000000 INFO @ Tue, 16 Jun 2020 08:49:40: 14000000 INFO @ Tue, 16 Jun 2020 08:49:42: 9000000 INFO @ Tue, 16 Jun 2020 08:49:44: 4000000 INFO @ Tue, 16 Jun 2020 08:49:45: 15000000 INFO @ Tue, 16 Jun 2020 08:49:48: 10000000 INFO @ Tue, 16 Jun 2020 08:49:49: 5000000 INFO @ Tue, 16 Jun 2020 08:49:51: 16000000 INFO @ Tue, 16 Jun 2020 08:49:54: 11000000 INFO @ Tue, 16 Jun 2020 08:49:55: 6000000 INFO @ Tue, 16 Jun 2020 08:49:57: 17000000 INFO @ Tue, 16 Jun 2020 08:50:00: 12000000 INFO @ Tue, 16 Jun 2020 08:50:01: 7000000 INFO @ Tue, 16 Jun 2020 08:50:03: 18000000 INFO @ Tue, 16 Jun 2020 08:50:06: 13000000 INFO @ Tue, 16 Jun 2020 08:50:07: 8000000 INFO @ Tue, 16 Jun 2020 08:50:09: 19000000 INFO @ Tue, 16 Jun 2020 08:50:12: 14000000 INFO @ Tue, 16 Jun 2020 08:50:13: 9000000 INFO @ Tue, 16 Jun 2020 08:50:15: 20000000 INFO @ Tue, 16 Jun 2020 08:50:18: 15000000 INFO @ Tue, 16 Jun 2020 08:50:19: 10000000 INFO @ Tue, 16 Jun 2020 08:50:21: 21000000 INFO @ Tue, 16 Jun 2020 08:50:24: 16000000 INFO @ Tue, 16 Jun 2020 08:50:25: 11000000 INFO @ Tue, 16 Jun 2020 08:50:27: 22000000 INFO @ Tue, 16 Jun 2020 08:50:30: 17000000 INFO @ Tue, 16 Jun 2020 08:50:31: 12000000 INFO @ Tue, 16 Jun 2020 08:50:33: 23000000 INFO @ Tue, 16 Jun 2020 08:50:36: 18000000 INFO @ Tue, 16 Jun 2020 08:50:37: 13000000 INFO @ Tue, 16 Jun 2020 08:50:39: 24000000 INFO @ Tue, 16 Jun 2020 08:50:42: 19000000 INFO @ Tue, 16 Jun 2020 08:50:43: 14000000 INFO @ Tue, 16 Jun 2020 08:50:45: 25000000 INFO @ Tue, 16 Jun 2020 08:50:48: 20000000 INFO @ Tue, 16 Jun 2020 08:50:49: 15000000 INFO @ Tue, 16 Jun 2020 08:50:51: 26000000 INFO @ Tue, 16 Jun 2020 08:50:54: 21000000 INFO @ Tue, 16 Jun 2020 08:50:56: 16000000 INFO @ Tue, 16 Jun 2020 08:50:57: 27000000 INFO @ Tue, 16 Jun 2020 08:51:01: 22000000 INFO @ Tue, 16 Jun 2020 08:51:02: 17000000 INFO @ Tue, 16 Jun 2020 08:51:03: 28000000 INFO @ Tue, 16 Jun 2020 08:51:07: 23000000 INFO @ Tue, 16 Jun 2020 08:51:08: 18000000 INFO @ Tue, 16 Jun 2020 08:51:09: 29000000 INFO @ Tue, 16 Jun 2020 08:51:13: 24000000 INFO @ Tue, 16 Jun 2020 08:51:14: 19000000 INFO @ Tue, 16 Jun 2020 08:51:15: 30000000 INFO @ Tue, 16 Jun 2020 08:51:19: 25000000 INFO @ Tue, 16 Jun 2020 08:51:20: 20000000 INFO @ Tue, 16 Jun 2020 08:51:21: 31000000 INFO @ Tue, 16 Jun 2020 08:51:25: 26000000 INFO @ Tue, 16 Jun 2020 08:51:27: 21000000 INFO @ Tue, 16 Jun 2020 08:51:27: 32000000 INFO @ Tue, 16 Jun 2020 08:51:31: 27000000 INFO @ Tue, 16 Jun 2020 08:51:33: 22000000 INFO @ Tue, 16 Jun 2020 08:51:34: 33000000 INFO @ Tue, 16 Jun 2020 08:51:36: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 08:51:36: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 08:51:36: #1 total tags in treatment: 33331687 INFO @ Tue, 16 Jun 2020 08:51:36: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:51:36: #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 08:51:36: #1 tags after filtering in treatment: 33331687 INFO @ Tue, 16 Jun 2020 08:51:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:51:36: #1 finished! INFO @ Tue, 16 Jun 2020 08:51:36: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:51:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:51:37: 28000000 INFO @ Tue, 16 Jun 2020 08:51:39: #2 number of paired peaks: 61 WARNING @ Tue, 16 Jun 2020 08:51:39: Too few paired peaks (61) 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 08:51:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.05_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/SRX2973398/SRX2973398.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:51:39: 23000000 INFO @ Tue, 16 Jun 2020 08:51:43: 29000000 INFO @ Tue, 16 Jun 2020 08:51:45: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:51:50: 30000000 INFO @ Tue, 16 Jun 2020 08:51:51: 25000000 INFO @ Tue, 16 Jun 2020 08:51:56: 31000000 INFO @ Tue, 16 Jun 2020 08:51:58: 26000000 INFO @ Tue, 16 Jun 2020 08:52:02: 32000000 INFO @ Tue, 16 Jun 2020 08:52:04: 27000000 INFO @ Tue, 16 Jun 2020 08:52:08: 33000000 INFO @ Tue, 16 Jun 2020 08:52:10: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 08:52:10: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 08:52:10: #1 total tags in treatment: 33331687 INFO @ Tue, 16 Jun 2020 08:52:10: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:52:10: #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 08:52:10: 28000000 INFO @ Tue, 16 Jun 2020 08:52:10: #1 tags after filtering in treatment: 33331687 INFO @ Tue, 16 Jun 2020 08:52:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:52:10: #1 finished! INFO @ Tue, 16 Jun 2020 08:52:10: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:52:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:52:12: #2 number of paired peaks: 61 WARNING @ Tue, 16 Jun 2020 08:52:12: Too few paired peaks (61) 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 08:52:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.10_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/SRX2973398/SRX2973398.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:52:16: 29000000 INFO @ Tue, 16 Jun 2020 08:52:22: 30000000 INFO @ Tue, 16 Jun 2020 08:52:28: 31000000 INFO @ Tue, 16 Jun 2020 08:52:34: 32000000 INFO @ Tue, 16 Jun 2020 08:52:39: 33000000 INFO @ Tue, 16 Jun 2020 08:52:42: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 08:52:42: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 08:52:42: #1 total tags in treatment: 33331687 INFO @ Tue, 16 Jun 2020 08:52:42: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:52:42: #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 08:52:42: #1 tags after filtering in treatment: 33331687 INFO @ Tue, 16 Jun 2020 08:52:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:52:42: #1 finished! INFO @ Tue, 16 Jun 2020 08:52:42: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:52:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:52:44: #2 number of paired peaks: 61 WARNING @ Tue, 16 Jun 2020 08:52:44: Too few paired peaks (61) 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 08:52:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.20_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/SRX2973398/SRX2973398.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973398/SRX2973398.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。