Job ID = 6367163 SRX = SRX2965737 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:21:46 prefetch.2.10.7: 1) Downloading 'SRR5766322'... 2020-06-15T23:21:46 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:25:29 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:25:29 prefetch.2.10.7: 1) 'SRR5766322' was downloaded successfully 2020-06-15T23:25:29 prefetch.2.10.7: 'SRR5766322' has 0 unresolved dependencies Read 49540971 spots for SRR5766322/SRR5766322.sra Written 49540971 spots for SRR5766322/SRR5766322.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: 00:16:29 49540971 reads; of these: 49540971 (100.00%) were unpaired; of these: 4122209 (8.32%) aligned 0 times 38470528 (77.65%) aligned exactly 1 time 6948234 (14.03%) aligned >1 times 91.68% overall alignment rate Time searching: 00:16:29 Overall time: 00:16:29 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] 12189498 / 45418762 = 0.2684 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 08:56:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.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 08:56:08: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:56:08: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:56:15: 1000000 INFO @ Tue, 16 Jun 2020 08:56:22: 2000000 INFO @ Tue, 16 Jun 2020 08:56:29: 3000000 INFO @ Tue, 16 Jun 2020 08:56:35: 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 08:56:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.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 08:56:38: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:56:38: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:56:42: 5000000 INFO @ Tue, 16 Jun 2020 08:56:45: 1000000 INFO @ Tue, 16 Jun 2020 08:56:50: 6000000 INFO @ Tue, 16 Jun 2020 08:56:52: 2000000 INFO @ Tue, 16 Jun 2020 08:56:57: 7000000 INFO @ Tue, 16 Jun 2020 08:57:00: 3000000 INFO @ Tue, 16 Jun 2020 08:57:04: 8000000 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 08:57:07: 4000000 INFO @ Tue, 16 Jun 2020 08:57:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.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 08:57:08: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:57:08: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:57:12: 9000000 INFO @ Tue, 16 Jun 2020 08:57:14: 5000000 INFO @ Tue, 16 Jun 2020 08:57:15: 1000000 INFO @ Tue, 16 Jun 2020 08:57:19: 10000000 INFO @ Tue, 16 Jun 2020 08:57:22: 6000000 INFO @ Tue, 16 Jun 2020 08:57:23: 2000000 INFO @ Tue, 16 Jun 2020 08:57:26: 11000000 INFO @ Tue, 16 Jun 2020 08:57:29: 7000000 INFO @ Tue, 16 Jun 2020 08:57:30: 3000000 INFO @ Tue, 16 Jun 2020 08:57:34: 12000000 INFO @ Tue, 16 Jun 2020 08:57:36: 8000000 INFO @ Tue, 16 Jun 2020 08:57:38: 4000000 INFO @ Tue, 16 Jun 2020 08:57:42: 13000000 INFO @ Tue, 16 Jun 2020 08:57:44: 9000000 INFO @ Tue, 16 Jun 2020 08:57:46: 5000000 INFO @ Tue, 16 Jun 2020 08:57:49: 14000000 INFO @ Tue, 16 Jun 2020 08:57:52: 10000000 INFO @ Tue, 16 Jun 2020 08:57:54: 6000000 INFO @ Tue, 16 Jun 2020 08:57:57: 15000000 INFO @ Tue, 16 Jun 2020 08:58:00: 11000000 INFO @ Tue, 16 Jun 2020 08:58:02: 7000000 INFO @ Tue, 16 Jun 2020 08:58:05: 16000000 INFO @ Tue, 16 Jun 2020 08:58:08: 12000000 INFO @ Tue, 16 Jun 2020 08:58:09: 8000000 INFO @ Tue, 16 Jun 2020 08:58:13: 17000000 INFO @ Tue, 16 Jun 2020 08:58:16: 13000000 INFO @ Tue, 16 Jun 2020 08:58:17: 9000000 INFO @ Tue, 16 Jun 2020 08:58:21: 18000000 INFO @ Tue, 16 Jun 2020 08:58:23: 14000000 INFO @ Tue, 16 Jun 2020 08:58:25: 10000000 INFO @ Tue, 16 Jun 2020 08:58:28: 19000000 INFO @ Tue, 16 Jun 2020 08:58:31: 15000000 INFO @ Tue, 16 Jun 2020 08:58:33: 11000000 INFO @ Tue, 16 Jun 2020 08:58:36: 20000000 INFO @ Tue, 16 Jun 2020 08:58:39: 16000000 INFO @ Tue, 16 Jun 2020 08:58:41: 12000000 INFO @ Tue, 16 Jun 2020 08:58:44: 21000000 INFO @ Tue, 16 Jun 2020 08:58:47: 17000000 INFO @ Tue, 16 Jun 2020 08:58:48: 13000000 INFO @ Tue, 16 Jun 2020 08:58:52: 22000000 INFO @ Tue, 16 Jun 2020 08:58:55: 18000000 INFO @ Tue, 16 Jun 2020 08:58:56: 14000000 INFO @ Tue, 16 Jun 2020 08:59:00: 23000000 INFO @ Tue, 16 Jun 2020 08:59:02: 19000000 INFO @ Tue, 16 Jun 2020 08:59:04: 15000000 INFO @ Tue, 16 Jun 2020 08:59:08: 24000000 INFO @ Tue, 16 Jun 2020 08:59:10: 20000000 INFO @ Tue, 16 Jun 2020 08:59:12: 16000000 INFO @ Tue, 16 Jun 2020 08:59:15: 25000000 INFO @ Tue, 16 Jun 2020 08:59:18: 21000000 INFO @ Tue, 16 Jun 2020 08:59:20: 17000000 INFO @ Tue, 16 Jun 2020 08:59:23: 26000000 INFO @ Tue, 16 Jun 2020 08:59:26: 22000000 INFO @ Tue, 16 Jun 2020 08:59:28: 18000000 INFO @ Tue, 16 Jun 2020 08:59:31: 27000000 INFO @ Tue, 16 Jun 2020 08:59:34: 23000000 INFO @ Tue, 16 Jun 2020 08:59:36: 19000000 INFO @ Tue, 16 Jun 2020 08:59:39: 28000000 INFO @ Tue, 16 Jun 2020 08:59:41: 24000000 INFO @ Tue, 16 Jun 2020 08:59:43: 20000000 INFO @ Tue, 16 Jun 2020 08:59:46: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:59:49: 25000000 INFO @ Tue, 16 Jun 2020 08:59:51: 21000000 INFO @ Tue, 16 Jun 2020 08:59:54: 30000000 INFO @ Tue, 16 Jun 2020 08:59:57: 26000000 INFO @ Tue, 16 Jun 2020 08:59:59: 22000000 INFO @ Tue, 16 Jun 2020 09:00:02: 31000000 INFO @ Tue, 16 Jun 2020 09:00:05: 27000000 INFO @ Tue, 16 Jun 2020 09:00:07: 23000000 INFO @ Tue, 16 Jun 2020 09:00:10: 32000000 INFO @ Tue, 16 Jun 2020 09:00:13: 28000000 INFO @ Tue, 16 Jun 2020 09:00:15: 24000000 INFO @ Tue, 16 Jun 2020 09:00:18: 33000000 INFO @ Tue, 16 Jun 2020 09:00:20: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:00:20: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:00:20: #1 total tags in treatment: 33229264 INFO @ Tue, 16 Jun 2020 09:00:20: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:00:20: #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 09:00:20: #1 tags after filtering in treatment: 33229264 INFO @ Tue, 16 Jun 2020 09:00:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:00:20: #1 finished! INFO @ Tue, 16 Jun 2020 09:00:20: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:00:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:00:20: 29000000 INFO @ Tue, 16 Jun 2020 09:00:22: 25000000 INFO @ Tue, 16 Jun 2020 09:00:23: #2 number of paired peaks: 56 WARNING @ Tue, 16 Jun 2020 09:00:23: Too few paired peaks (56) 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 09:00:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.05_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/SRX2965737/SRX2965737.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:00:28: 30000000 INFO @ Tue, 16 Jun 2020 09:00:30: 26000000 INFO @ Tue, 16 Jun 2020 09:00:36: 31000000 INFO @ Tue, 16 Jun 2020 09:00:38: 27000000 INFO @ Tue, 16 Jun 2020 09:00:44: 32000000 INFO @ Tue, 16 Jun 2020 09:00:45: 28000000 INFO @ Tue, 16 Jun 2020 09:00:52: 33000000 INFO @ Tue, 16 Jun 2020 09:00:53: 29000000 INFO @ Tue, 16 Jun 2020 09:00:54: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:00:54: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:00:54: #1 total tags in treatment: 33229264 INFO @ Tue, 16 Jun 2020 09:00:54: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:00:54: #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 09:00:54: #1 tags after filtering in treatment: 33229264 INFO @ Tue, 16 Jun 2020 09:00:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:00:54: #1 finished! INFO @ Tue, 16 Jun 2020 09:00:54: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:00:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:00:56: #2 number of paired peaks: 56 WARNING @ Tue, 16 Jun 2020 09:00:56: Too few paired peaks (56) 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 09:00:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.10_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/SRX2965737/SRX2965737.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:01:00: 30000000 INFO @ Tue, 16 Jun 2020 09:01:07: 31000000 INFO @ Tue, 16 Jun 2020 09:01:14: 32000000 INFO @ Tue, 16 Jun 2020 09:01:21: 33000000 INFO @ Tue, 16 Jun 2020 09:01:22: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:01:22: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:01:22: #1 total tags in treatment: 33229264 INFO @ Tue, 16 Jun 2020 09:01:22: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:01:22: #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 09:01:23: #1 tags after filtering in treatment: 33229264 INFO @ Tue, 16 Jun 2020 09:01:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:01:23: #1 finished! INFO @ Tue, 16 Jun 2020 09:01:23: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:01:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:01:25: #2 number of paired peaks: 56 WARNING @ Tue, 16 Jun 2020 09:01:25: Too few paired peaks (56) 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 09:01:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.20_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/SRX2965737/SRX2965737.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2965737/SRX2965737.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling