Job ID = 6368757 SRX = SRX5545242 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-16T00:31:30 prefetch.2.10.7: 1) Downloading 'SRR8754485'... 2020-06-16T00:31:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:34:46 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:34:46 prefetch.2.10.7: 1) 'SRR8754485' was downloaded successfully 2020-06-16T00:34:46 prefetch.2.10.7: 'SRR8754485' has 0 unresolved dependencies Read 39713685 spots for SRR8754485/SRR8754485.sra Written 39713685 spots for SRR8754485/SRR8754485.sra 2020-06-16T00:37:29 prefetch.2.10.7: 1) Downloading 'SRR8754486'... 2020-06-16T00:37:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:41:26 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:41:26 prefetch.2.10.7: 1) 'SRR8754486' was downloaded successfully 2020-06-16T00:41:26 prefetch.2.10.7: 'SRR8754486' has 0 unresolved dependencies Read 54510673 spots for SRR8754486/SRR8754486.sra Written 54510673 spots for SRR8754486/SRR8754486.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: 00:17:13 94224358 reads; of these: 94224358 (100.00%) were unpaired; of these: 29857015 (31.69%) aligned 0 times 52646542 (55.87%) aligned exactly 1 time 11720801 (12.44%) aligned >1 times 68.31% overall alignment rate Time searching: 00:17:13 Overall time: 00:17:13 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 28 files... [bam_rmdupse_core] 29950945 / 64367343 = 0.4653 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 10:14:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.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 10:14:44: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:14:44: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:14:52: 1000000 INFO @ Tue, 16 Jun 2020 10:15:00: 2000000 INFO @ Tue, 16 Jun 2020 10:15:08: 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 10:15:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.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 10:15:14: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:15:14: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:15:16: 4000000 INFO @ Tue, 16 Jun 2020 10:15:19: 1000000 INFO @ Tue, 16 Jun 2020 10:15:23: 5000000 INFO @ Tue, 16 Jun 2020 10:15:24: 2000000 INFO @ Tue, 16 Jun 2020 10:15:30: 3000000 INFO @ Tue, 16 Jun 2020 10:15:31: 6000000 INFO @ Tue, 16 Jun 2020 10:15:35: 4000000 INFO @ Tue, 16 Jun 2020 10:15:38: 7000000 INFO @ Tue, 16 Jun 2020 10:15:40: 5000000 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 10:15:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.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 10:15:44: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:15:44: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:15:45: 6000000 INFO @ Tue, 16 Jun 2020 10:15:46: 8000000 INFO @ Tue, 16 Jun 2020 10:15:50: 1000000 INFO @ Tue, 16 Jun 2020 10:15:51: 7000000 INFO @ Tue, 16 Jun 2020 10:15:53: 9000000 INFO @ Tue, 16 Jun 2020 10:15:56: 2000000 INFO @ Tue, 16 Jun 2020 10:15:57: 8000000 INFO @ Tue, 16 Jun 2020 10:16:00: 10000000 INFO @ Tue, 16 Jun 2020 10:16:02: 3000000 INFO @ Tue, 16 Jun 2020 10:16:02: 9000000 INFO @ Tue, 16 Jun 2020 10:16:06: 11000000 INFO @ Tue, 16 Jun 2020 10:16:07: 4000000 INFO @ Tue, 16 Jun 2020 10:16:08: 10000000 INFO @ Tue, 16 Jun 2020 10:16:13: 12000000 INFO @ Tue, 16 Jun 2020 10:16:13: 5000000 INFO @ Tue, 16 Jun 2020 10:16:13: 11000000 INFO @ Tue, 16 Jun 2020 10:16:19: 12000000 INFO @ Tue, 16 Jun 2020 10:16:19: 6000000 INFO @ Tue, 16 Jun 2020 10:16:19: 13000000 INFO @ Tue, 16 Jun 2020 10:16:24: 13000000 INFO @ Tue, 16 Jun 2020 10:16:25: 7000000 INFO @ Tue, 16 Jun 2020 10:16:26: 14000000 INFO @ Tue, 16 Jun 2020 10:16:30: 14000000 INFO @ Tue, 16 Jun 2020 10:16:30: 8000000 INFO @ Tue, 16 Jun 2020 10:16:32: 15000000 INFO @ Tue, 16 Jun 2020 10:16:36: 15000000 INFO @ Tue, 16 Jun 2020 10:16:36: 9000000 INFO @ Tue, 16 Jun 2020 10:16:38: 16000000 INFO @ Tue, 16 Jun 2020 10:16:41: 16000000 INFO @ Tue, 16 Jun 2020 10:16:42: 10000000 INFO @ Tue, 16 Jun 2020 10:16:44: 17000000 INFO @ Tue, 16 Jun 2020 10:16:47: 17000000 INFO @ Tue, 16 Jun 2020 10:16:48: 11000000 INFO @ Tue, 16 Jun 2020 10:16:50: 18000000 INFO @ Tue, 16 Jun 2020 10:16:53: 18000000 INFO @ Tue, 16 Jun 2020 10:16:53: 12000000 INFO @ Tue, 16 Jun 2020 10:16:56: 19000000 INFO @ Tue, 16 Jun 2020 10:16:59: 19000000 INFO @ Tue, 16 Jun 2020 10:16:59: 13000000 INFO @ Tue, 16 Jun 2020 10:17:01: 20000000 INFO @ Tue, 16 Jun 2020 10:17:04: 20000000 INFO @ Tue, 16 Jun 2020 10:17:05: 14000000 INFO @ Tue, 16 Jun 2020 10:17:07: 21000000 INFO @ Tue, 16 Jun 2020 10:17:10: 21000000 INFO @ Tue, 16 Jun 2020 10:17:11: 15000000 INFO @ Tue, 16 Jun 2020 10:17:13: 22000000 INFO @ Tue, 16 Jun 2020 10:17:16: 22000000 INFO @ Tue, 16 Jun 2020 10:17:16: 16000000 INFO @ Tue, 16 Jun 2020 10:17:19: 23000000 INFO @ Tue, 16 Jun 2020 10:17:21: 23000000 INFO @ Tue, 16 Jun 2020 10:17:22: 17000000 INFO @ Tue, 16 Jun 2020 10:17:24: 24000000 INFO @ Tue, 16 Jun 2020 10:17:27: 24000000 INFO @ Tue, 16 Jun 2020 10:17:28: 18000000 INFO @ Tue, 16 Jun 2020 10:17:30: 25000000 INFO @ Tue, 16 Jun 2020 10:17:32: 25000000 INFO @ Tue, 16 Jun 2020 10:17:34: 19000000 INFO @ Tue, 16 Jun 2020 10:17:36: 26000000 INFO @ Tue, 16 Jun 2020 10:17:38: 26000000 INFO @ Tue, 16 Jun 2020 10:17:39: 20000000 INFO @ Tue, 16 Jun 2020 10:17:41: 27000000 INFO @ Tue, 16 Jun 2020 10:17:44: 27000000 INFO @ Tue, 16 Jun 2020 10:17:45: 21000000 INFO @ Tue, 16 Jun 2020 10:17:47: 28000000 INFO @ Tue, 16 Jun 2020 10:17:49: 28000000 INFO @ Tue, 16 Jun 2020 10:17:51: 22000000 INFO @ Tue, 16 Jun 2020 10:17:52: 29000000 INFO @ Tue, 16 Jun 2020 10:17:55: 29000000 INFO @ Tue, 16 Jun 2020 10:17:57: 23000000 INFO @ Tue, 16 Jun 2020 10:17:58: 30000000 INFO @ Tue, 16 Jun 2020 10:18:01: 30000000 INFO @ Tue, 16 Jun 2020 10:18:02: 24000000 INFO @ Tue, 16 Jun 2020 10:18:04: 31000000 INFO @ Tue, 16 Jun 2020 10:18:06: 31000000 INFO @ Tue, 16 Jun 2020 10:18:08: 25000000 INFO @ Tue, 16 Jun 2020 10:18:09: 32000000 INFO @ Tue, 16 Jun 2020 10:18:12: 32000000 INFO @ Tue, 16 Jun 2020 10:18:14: 26000000 INFO @ Tue, 16 Jun 2020 10:18:15: 33000000 INFO @ Tue, 16 Jun 2020 10:18:18: 33000000 INFO @ Tue, 16 Jun 2020 10:18:20: 27000000 INFO @ Tue, 16 Jun 2020 10:18:21: 34000000 INFO @ Tue, 16 Jun 2020 10:18:23: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 10:18:23: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 10:18:23: #1 total tags in treatment: 34416398 INFO @ Tue, 16 Jun 2020 10:18:23: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:18:23: #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 10:18:24: 34000000 INFO @ Tue, 16 Jun 2020 10:18:24: #1 tags after filtering in treatment: 34416398 INFO @ Tue, 16 Jun 2020 10:18:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 10:18:24: #1 finished! INFO @ Tue, 16 Jun 2020 10:18:24: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:18:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:18:26: 28000000 INFO @ Tue, 16 Jun 2020 10:18:26: #2 number of paired peaks: 64 WARNING @ Tue, 16 Jun 2020 10:18:26: Too few paired peaks (64) 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 10:18:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.05_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/SRX5545242/SRX5545242.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 10:18:26: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 10:18:26: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 10:18:26: #1 total tags in treatment: 34416398 INFO @ Tue, 16 Jun 2020 10:18:26: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:18:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 10:18:27: #1 tags after filtering in treatment: 34416398 INFO @ Tue, 16 Jun 2020 10:18:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 10:18:27: #1 finished! INFO @ Tue, 16 Jun 2020 10:18:27: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:18:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:18:29: #2 number of paired peaks: 64 WARNING @ Tue, 16 Jun 2020 10:18:29: Too few paired peaks (64) 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 10:18:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 10:18:31: 29000000 INFO @ Tue, 16 Jun 2020 10:18:36: 30000000 INFO @ Tue, 16 Jun 2020 10:18:41: 31000000 INFO @ Tue, 16 Jun 2020 10:18:47: 32000000 INFO @ Tue, 16 Jun 2020 10:18:52: 33000000 INFO @ Tue, 16 Jun 2020 10:18:57: 34000000 INFO @ Tue, 16 Jun 2020 10:18:59: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 10:18:59: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 10:18:59: #1 total tags in treatment: 34416398 INFO @ Tue, 16 Jun 2020 10:18:59: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:18:59: #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 10:19:00: #1 tags after filtering in treatment: 34416398 INFO @ Tue, 16 Jun 2020 10:19:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 10:19:00: #1 finished! INFO @ Tue, 16 Jun 2020 10:19:00: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:19:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:19:02: #2 number of paired peaks: 64 WARNING @ Tue, 16 Jun 2020 10:19:02: Too few paired peaks (64) 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 10:19:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX5545242/SRX5545242.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。