Job ID = 6528296 SRX = SRX5287829 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:57:58 prefetch.2.10.7: 1) Downloading 'SRR8483060'... 2020-06-29T14:57:58 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:01:04 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:01:04 prefetch.2.10.7: 1) 'SRR8483060' was downloaded successfully 2020-06-29T15:01:04 prefetch.2.10.7: 'SRR8483060' has 0 unresolved dependencies Read 22858962 spots for SRR8483060/SRR8483060.sra Written 22858962 spots for SRR8483060/SRR8483060.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: 00:10:11 22858962 reads; of these: 22858962 (100.00%) were unpaired; of these: 570677 (2.50%) aligned 0 times 16768918 (73.36%) aligned exactly 1 time 5519367 (24.15%) aligned >1 times 97.50% overall alignment rate Time searching: 00:10:11 Overall time: 00:10:11 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] 2058362 / 22288285 = 0.0924 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 00:26:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.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 00:26:47: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:26:47: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:26:52: 1000000 INFO @ Tue, 30 Jun 2020 00:26:57: 2000000 INFO @ Tue, 30 Jun 2020 00:27:02: 3000000 INFO @ Tue, 30 Jun 2020 00:27:07: 4000000 INFO @ Tue, 30 Jun 2020 00:27:12: 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 00:27:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.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 00:27:17: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:27:17: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:27:17: 6000000 INFO @ Tue, 30 Jun 2020 00:27:23: 1000000 INFO @ Tue, 30 Jun 2020 00:27:23: 7000000 INFO @ Tue, 30 Jun 2020 00:27:28: 2000000 INFO @ Tue, 30 Jun 2020 00:27:28: 8000000 INFO @ Tue, 30 Jun 2020 00:27:33: 9000000 INFO @ Tue, 30 Jun 2020 00:27:33: 3000000 INFO @ Tue, 30 Jun 2020 00:27:38: 10000000 INFO @ Tue, 30 Jun 2020 00:27:38: 4000000 INFO @ Tue, 30 Jun 2020 00:27:43: 11000000 INFO @ Tue, 30 Jun 2020 00:27:44: 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, 30 Jun 2020 00:27:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.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 00:27:47: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:27:47: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:27:48: 12000000 INFO @ Tue, 30 Jun 2020 00:27:49: 6000000 INFO @ Tue, 30 Jun 2020 00:27:53: 1000000 INFO @ Tue, 30 Jun 2020 00:27:54: 13000000 INFO @ Tue, 30 Jun 2020 00:27:54: 7000000 INFO @ Tue, 30 Jun 2020 00:27:58: 2000000 INFO @ Tue, 30 Jun 2020 00:27:59: 14000000 INFO @ Tue, 30 Jun 2020 00:28:00: 8000000 INFO @ Tue, 30 Jun 2020 00:28:03: 3000000 INFO @ Tue, 30 Jun 2020 00:28:04: 15000000 INFO @ Tue, 30 Jun 2020 00:28:05: 9000000 INFO @ Tue, 30 Jun 2020 00:28:08: 4000000 INFO @ Tue, 30 Jun 2020 00:28:09: 16000000 INFO @ Tue, 30 Jun 2020 00:28:10: 10000000 INFO @ Tue, 30 Jun 2020 00:28:14: 5000000 INFO @ Tue, 30 Jun 2020 00:28:15: 17000000 INFO @ Tue, 30 Jun 2020 00:28:16: 11000000 INFO @ Tue, 30 Jun 2020 00:28:19: 6000000 INFO @ Tue, 30 Jun 2020 00:28:20: 18000000 INFO @ Tue, 30 Jun 2020 00:28:21: 12000000 INFO @ Tue, 30 Jun 2020 00:28:24: 7000000 INFO @ Tue, 30 Jun 2020 00:28:25: 19000000 INFO @ Tue, 30 Jun 2020 00:28:26: 13000000 INFO @ Tue, 30 Jun 2020 00:28:30: 8000000 INFO @ Tue, 30 Jun 2020 00:28:30: 20000000 INFO @ Tue, 30 Jun 2020 00:28:32: #1 tag size is determined as 74 bps INFO @ Tue, 30 Jun 2020 00:28:32: #1 tag size = 74 INFO @ Tue, 30 Jun 2020 00:28:32: #1 total tags in treatment: 20229923 INFO @ Tue, 30 Jun 2020 00:28:32: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:28:32: #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 00:28:32: 14000000 INFO @ Tue, 30 Jun 2020 00:28:32: #1 tags after filtering in treatment: 20229923 INFO @ Tue, 30 Jun 2020 00:28:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:28:32: #1 finished! INFO @ Tue, 30 Jun 2020 00:28:32: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:28:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:28:33: #2 number of paired peaks: 46 WARNING @ Tue, 30 Jun 2020 00:28:33: Too few paired peaks (46) 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 00:28:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.05_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/dm3/SRX5287829/SRX5287829.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:28:35: 9000000 INFO @ Tue, 30 Jun 2020 00:28:37: 15000000 INFO @ Tue, 30 Jun 2020 00:28:40: 10000000 INFO @ Tue, 30 Jun 2020 00:28:42: 16000000 INFO @ Tue, 30 Jun 2020 00:28:45: 11000000 INFO @ Tue, 30 Jun 2020 00:28:48: 17000000 INFO @ Tue, 30 Jun 2020 00:28:50: 12000000 INFO @ Tue, 30 Jun 2020 00:28:53: 18000000 INFO @ Tue, 30 Jun 2020 00:28:56: 13000000 INFO @ Tue, 30 Jun 2020 00:28:59: 19000000 INFO @ Tue, 30 Jun 2020 00:29:01: 14000000 INFO @ Tue, 30 Jun 2020 00:29:04: 20000000 INFO @ Tue, 30 Jun 2020 00:29:05: #1 tag size is determined as 74 bps INFO @ Tue, 30 Jun 2020 00:29:05: #1 tag size = 74 INFO @ Tue, 30 Jun 2020 00:29:05: #1 total tags in treatment: 20229923 INFO @ Tue, 30 Jun 2020 00:29:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:29:05: #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 00:29:06: #1 tags after filtering in treatment: 20229923 INFO @ Tue, 30 Jun 2020 00:29:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:29:06: #1 finished! INFO @ Tue, 30 Jun 2020 00:29:06: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:29:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:29:06: 15000000 INFO @ Tue, 30 Jun 2020 00:29:07: #2 number of paired peaks: 46 WARNING @ Tue, 30 Jun 2020 00:29:07: Too few paired peaks (46) 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 00:29:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.10_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/SRX5287829/SRX5287829.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:29:12: 16000000 INFO @ Tue, 30 Jun 2020 00:29:17: 17000000 INFO @ Tue, 30 Jun 2020 00:29:22: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:29:27: 19000000 INFO @ Tue, 30 Jun 2020 00:29:32: 20000000 INFO @ Tue, 30 Jun 2020 00:29:34: #1 tag size is determined as 74 bps INFO @ Tue, 30 Jun 2020 00:29:34: #1 tag size = 74 INFO @ Tue, 30 Jun 2020 00:29:34: #1 total tags in treatment: 20229923 INFO @ Tue, 30 Jun 2020 00:29:34: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:29:34: #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 00:29:34: #1 tags after filtering in treatment: 20229923 INFO @ Tue, 30 Jun 2020 00:29:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:29:34: #1 finished! INFO @ Tue, 30 Jun 2020 00:29:34: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:29:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:29:35: #2 number of paired peaks: 46 WARNING @ Tue, 30 Jun 2020 00:29:35: Too few paired peaks (46) 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 00:29:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.20_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/SRX5287829/SRX5287829.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5287829/SRX5287829.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。