Job ID = 6528399 SRX = SRX5736592 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:01:58 prefetch.2.10.7: 1) Downloading 'SRR8957002'... 2020-06-29T15:01:58 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:05:13 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:05:13 prefetch.2.10.7: 1) 'SRR8957002' was downloaded successfully Read 35789881 spots for SRR8957002/SRR8957002.sra Written 35789881 spots for SRR8957002/SRR8957002.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: 00:08:42 35789881 reads; of these: 35789881 (100.00%) were unpaired; of these: 788017 (2.20%) aligned 0 times 29361493 (82.04%) aligned exactly 1 time 5640371 (15.76%) aligned >1 times 97.80% overall alignment rate Time searching: 00:08:42 Overall time: 00:08:42 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 16 files... [bam_rmdupse_core] 14897018 / 35001864 = 0.4256 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 00:29:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.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 00:29:06: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:29:06: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:29:12: 1000000 INFO @ Tue, 30 Jun 2020 00:29:18: 2000000 INFO @ Tue, 30 Jun 2020 00:29:24: 3000000 INFO @ Tue, 30 Jun 2020 00:29:31: 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, 30 Jun 2020 00:29:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.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 00:29:36: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:29:36: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:29:37: 5000000 INFO @ Tue, 30 Jun 2020 00:29:44: 1000000 INFO @ Tue, 30 Jun 2020 00:29:44: 6000000 INFO @ Tue, 30 Jun 2020 00:29:51: 7000000 INFO @ Tue, 30 Jun 2020 00:29:52: 2000000 INFO @ Tue, 30 Jun 2020 00:29:58: 8000000 INFO @ Tue, 30 Jun 2020 00:30:00: 3000000 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 00:30:05: 9000000 INFO @ Tue, 30 Jun 2020 00:30:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.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 00:30:06: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:30:06: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:30:09: 4000000 INFO @ Tue, 30 Jun 2020 00:30:12: 10000000 INFO @ Tue, 30 Jun 2020 00:30:14: 1000000 INFO @ Tue, 30 Jun 2020 00:30:17: 5000000 INFO @ Tue, 30 Jun 2020 00:30:19: 11000000 INFO @ Tue, 30 Jun 2020 00:30:22: 2000000 INFO @ Tue, 30 Jun 2020 00:30:25: 6000000 INFO @ Tue, 30 Jun 2020 00:30:26: 12000000 INFO @ Tue, 30 Jun 2020 00:30:30: 3000000 INFO @ Tue, 30 Jun 2020 00:30:33: 7000000 INFO @ Tue, 30 Jun 2020 00:30:33: 13000000 INFO @ Tue, 30 Jun 2020 00:30:38: 4000000 INFO @ Tue, 30 Jun 2020 00:30:40: 14000000 INFO @ Tue, 30 Jun 2020 00:30:41: 8000000 INFO @ Tue, 30 Jun 2020 00:30:46: 5000000 INFO @ Tue, 30 Jun 2020 00:30:47: 15000000 INFO @ Tue, 30 Jun 2020 00:30:49: 9000000 INFO @ Tue, 30 Jun 2020 00:30:54: 16000000 INFO @ Tue, 30 Jun 2020 00:30:54: 6000000 INFO @ Tue, 30 Jun 2020 00:30:57: 10000000 INFO @ Tue, 30 Jun 2020 00:31:01: 17000000 INFO @ Tue, 30 Jun 2020 00:31:02: 7000000 INFO @ Tue, 30 Jun 2020 00:31:05: 11000000 INFO @ Tue, 30 Jun 2020 00:31:09: 18000000 INFO @ Tue, 30 Jun 2020 00:31:10: 8000000 INFO @ Tue, 30 Jun 2020 00:31:13: 12000000 INFO @ Tue, 30 Jun 2020 00:31:17: 19000000 INFO @ Tue, 30 Jun 2020 00:31:18: 9000000 INFO @ Tue, 30 Jun 2020 00:31:21: 13000000 INFO @ Tue, 30 Jun 2020 00:31:26: 20000000 INFO @ Tue, 30 Jun 2020 00:31:26: 10000000 INFO @ Tue, 30 Jun 2020 00:31:26: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:31:26: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:31:26: #1 total tags in treatment: 20104846 INFO @ Tue, 30 Jun 2020 00:31:26: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:31:26: #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 00:31:27: #1 tags after filtering in treatment: 20104846 INFO @ Tue, 30 Jun 2020 00:31:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:31:27: #1 finished! INFO @ Tue, 30 Jun 2020 00:31:27: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:31:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:31:28: #2 number of paired peaks: 80 WARNING @ Tue, 30 Jun 2020 00:31:28: Too few paired peaks (80) 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 00:31:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.05_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/dm3/SRX5736592/SRX5736592.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:31:29: 14000000 INFO @ Tue, 30 Jun 2020 00:31:34: 11000000 INFO @ Tue, 30 Jun 2020 00:31:37: 15000000 INFO @ Tue, 30 Jun 2020 00:31:41: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:31:44: 16000000 INFO @ Tue, 30 Jun 2020 00:31:49: 13000000 INFO @ Tue, 30 Jun 2020 00:31:52: 17000000 INFO @ Tue, 30 Jun 2020 00:31:56: 14000000 INFO @ Tue, 30 Jun 2020 00:32:00: 18000000 INFO @ Tue, 30 Jun 2020 00:32:04: 15000000 INFO @ Tue, 30 Jun 2020 00:32:07: 19000000 INFO @ Tue, 30 Jun 2020 00:32:11: 16000000 INFO @ Tue, 30 Jun 2020 00:32:14: 20000000 INFO @ Tue, 30 Jun 2020 00:32:14: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:32:14: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:32:14: #1 total tags in treatment: 20104846 INFO @ Tue, 30 Jun 2020 00:32:14: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:32:14: #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 00:32:15: #1 tags after filtering in treatment: 20104846 INFO @ Tue, 30 Jun 2020 00:32:15: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:32:15: #1 finished! INFO @ Tue, 30 Jun 2020 00:32:15: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:32:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:32:16: #2 number of paired peaks: 80 WARNING @ Tue, 30 Jun 2020 00:32:16: Too few paired peaks (80) 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 00:32:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.10_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/SRX5736592/SRX5736592.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:32:18: 17000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:32:25: 18000000 INFO @ Tue, 30 Jun 2020 00:32:31: 19000000 INFO @ Tue, 30 Jun 2020 00:32:38: 20000000 INFO @ Tue, 30 Jun 2020 00:32:38: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:32:38: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:32:38: #1 total tags in treatment: 20104846 INFO @ Tue, 30 Jun 2020 00:32:38: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:32:38: #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 00:32:38: #1 tags after filtering in treatment: 20104846 INFO @ Tue, 30 Jun 2020 00:32:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:32:38: #1 finished! INFO @ Tue, 30 Jun 2020 00:32:38: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:32:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:32:40: #2 number of paired peaks: 80 WARNING @ Tue, 30 Jun 2020 00:32:40: Too few paired peaks (80) 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 00:32:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.20_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/dm3/SRX5736592/SRX5736592.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5736592/SRX5736592.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling