Job ID = 6528301 SRX = SRX5287834 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:42:13 prefetch.2.10.7: 1) Downloading 'SRR8483065'... 2020-06-29T14:42:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:44:34 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:44:34 prefetch.2.10.7: 1) 'SRR8483065' was downloaded successfully 2020-06-29T14:44:34 prefetch.2.10.7: 'SRR8483065' has 0 unresolved dependencies Read 24381125 spots for SRR8483065/SRR8483065.sra Written 24381125 spots for SRR8483065/SRR8483065.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: 00:10:46 24381125 reads; of these: 24381125 (100.00%) were unpaired; of these: 1682692 (6.90%) aligned 0 times 17055375 (69.95%) aligned exactly 1 time 5643058 (23.15%) aligned >1 times 93.10% overall alignment rate Time searching: 00:10:46 Overall time: 00:10:46 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 2449059 / 22698433 = 0.1079 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, 30 Jun 2020 00:13:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.bam'] # control file = None # effective genome size = 1.20e+08 # 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, 30 Jun 2020 00:13:23: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:13:23: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:13:29: 1000000 INFO @ Tue, 30 Jun 2020 00:13:34: 2000000 INFO @ Tue, 30 Jun 2020 00:13:39: 3000000 INFO @ Tue, 30 Jun 2020 00:13:44: 4000000 INFO @ Tue, 30 Jun 2020 00:13:49: 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, 30 Jun 2020 00:13:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.bam'] # control file = None # effective genome size = 1.20e+08 # 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, 30 Jun 2020 00:13:54: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:13:54: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:13:54: 6000000 INFO @ Tue, 30 Jun 2020 00:13:59: 1000000 INFO @ Tue, 30 Jun 2020 00:14:00: 7000000 INFO @ Tue, 30 Jun 2020 00:14:04: 2000000 INFO @ Tue, 30 Jun 2020 00:14:05: 8000000 INFO @ Tue, 30 Jun 2020 00:14:09: 3000000 INFO @ Tue, 30 Jun 2020 00:14:10: 9000000 INFO @ Tue, 30 Jun 2020 00:14:14: 4000000 INFO @ Tue, 30 Jun 2020 00:14:15: 10000000 INFO @ Tue, 30 Jun 2020 00:14:19: 5000000 INFO @ Tue, 30 Jun 2020 00:14:21: 11000000 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, 30 Jun 2020 00:14:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.bam'] # control file = None # effective genome size = 1.20e+08 # 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, 30 Jun 2020 00:14:23: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:14:23: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:14:25: 6000000 INFO @ Tue, 30 Jun 2020 00:14:26: 12000000 INFO @ Tue, 30 Jun 2020 00:14:29: 1000000 INFO @ Tue, 30 Jun 2020 00:14:30: 7000000 INFO @ Tue, 30 Jun 2020 00:14:32: 13000000 INFO @ Tue, 30 Jun 2020 00:14:34: 2000000 INFO @ Tue, 30 Jun 2020 00:14:36: 8000000 INFO @ Tue, 30 Jun 2020 00:14:37: 14000000 INFO @ Tue, 30 Jun 2020 00:14:40: 3000000 INFO @ Tue, 30 Jun 2020 00:14:41: 9000000 INFO @ Tue, 30 Jun 2020 00:14:42: 15000000 INFO @ Tue, 30 Jun 2020 00:14:45: 4000000 INFO @ Tue, 30 Jun 2020 00:14:46: 10000000 INFO @ Tue, 30 Jun 2020 00:14:48: 16000000 INFO @ Tue, 30 Jun 2020 00:14:50: 5000000 INFO @ Tue, 30 Jun 2020 00:14:52: 11000000 INFO @ Tue, 30 Jun 2020 00:14:53: 17000000 INFO @ Tue, 30 Jun 2020 00:14:55: 6000000 INFO @ Tue, 30 Jun 2020 00:14:57: 12000000 INFO @ Tue, 30 Jun 2020 00:14:58: 18000000 INFO @ Tue, 30 Jun 2020 00:15:01: 7000000 INFO @ Tue, 30 Jun 2020 00:15:03: 13000000 INFO @ Tue, 30 Jun 2020 00:15:04: 19000000 INFO @ Tue, 30 Jun 2020 00:15:07: 8000000 INFO @ Tue, 30 Jun 2020 00:15:08: 14000000 INFO @ Tue, 30 Jun 2020 00:15:10: 20000000 INFO @ Tue, 30 Jun 2020 00:15:11: #1 tag size is determined as 74 bps INFO @ Tue, 30 Jun 2020 00:15:11: #1 tag size = 74 INFO @ Tue, 30 Jun 2020 00:15:11: #1 total tags in treatment: 20249374 INFO @ Tue, 30 Jun 2020 00:15:11: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:15:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:15:11: #1 tags after filtering in treatment: 20249374 INFO @ Tue, 30 Jun 2020 00:15:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:15:11: #1 finished! INFO @ Tue, 30 Jun 2020 00:15:11: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:15:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:15:12: 9000000 INFO @ Tue, 30 Jun 2020 00:15:13: #2 number of paired peaks: 57 WARNING @ Tue, 30 Jun 2020 00:15:13: Too few paired peaks (57) 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, 30 Jun 2020 00:15:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:15:14: 15000000 INFO @ Tue, 30 Jun 2020 00:15:18: 10000000 INFO @ Tue, 30 Jun 2020 00:15:19: 16000000 INFO @ Tue, 30 Jun 2020 00:15:23: 11000000 INFO @ Tue, 30 Jun 2020 00:15:24: 17000000 INFO @ Tue, 30 Jun 2020 00:15:28: 12000000 INFO @ Tue, 30 Jun 2020 00:15:30: 18000000 INFO @ Tue, 30 Jun 2020 00:15:34: 13000000 INFO @ Tue, 30 Jun 2020 00:15:35: 19000000 INFO @ Tue, 30 Jun 2020 00:15:39: 14000000 INFO @ Tue, 30 Jun 2020 00:15:41: 20000000 INFO @ Tue, 30 Jun 2020 00:15:42: #1 tag size is determined as 74 bps INFO @ Tue, 30 Jun 2020 00:15:42: #1 tag size = 74 INFO @ Tue, 30 Jun 2020 00:15:42: #1 total tags in treatment: 20249374 INFO @ Tue, 30 Jun 2020 00:15:42: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:15:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:15:42: #1 tags after filtering in treatment: 20249374 INFO @ Tue, 30 Jun 2020 00:15:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:15:42: #1 finished! INFO @ Tue, 30 Jun 2020 00:15:42: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:15:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:15:44: #2 number of paired peaks: 57 WARNING @ Tue, 30 Jun 2020 00:15:44: Too few paired peaks (57) 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, 30 Jun 2020 00:15:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.10_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/dm3/SRX5287834/SRX5287834.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:15:44: 15000000 INFO @ Tue, 30 Jun 2020 00:15:50: 16000000 INFO @ Tue, 30 Jun 2020 00:15:55: 17000000 INFO @ Tue, 30 Jun 2020 00:16:00: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:16:06: 19000000 INFO @ Tue, 30 Jun 2020 00:16:11: 20000000 INFO @ Tue, 30 Jun 2020 00:16:12: #1 tag size is determined as 74 bps INFO @ Tue, 30 Jun 2020 00:16:12: #1 tag size = 74 INFO @ Tue, 30 Jun 2020 00:16:12: #1 total tags in treatment: 20249374 INFO @ Tue, 30 Jun 2020 00:16:12: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:16:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:16:13: #1 tags after filtering in treatment: 20249374 INFO @ Tue, 30 Jun 2020 00:16:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:16:13: #1 finished! INFO @ Tue, 30 Jun 2020 00:16:13: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:16:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:16:14: #2 number of paired peaks: 57 WARNING @ Tue, 30 Jun 2020 00:16:14: Too few paired peaks (57) 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, 30 Jun 2020 00:16:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.20_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/dm3/SRX5287834/SRX5287834.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287834/SRX5287834.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。