Job ID = 6528391 SRX = SRX5717027 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:55:10 prefetch.2.10.7: 1) Downloading 'SRR8936387'... 2020-06-29T14:55:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:56:49 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:56:49 prefetch.2.10.7: 1) 'SRR8936387' was downloaded successfully Read 28864161 spots for SRR8936387/SRR8936387.sra Written 28864161 spots for SRR8936387/SRR8936387.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: 00:11:52 28864161 reads; of these: 28864161 (100.00%) were unpaired; of these: 4920661 (17.05%) aligned 0 times 10017676 (34.71%) aligned exactly 1 time 13925824 (48.25%) aligned >1 times 82.95% overall alignment rate Time searching: 00:11:52 Overall time: 00:11:52 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] 7699330 / 23943500 = 0.3216 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 00:20:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.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 00:20:23: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:20:23: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:20:30: 1000000 INFO @ Tue, 30 Jun 2020 00:20:36: 2000000 INFO @ Tue, 30 Jun 2020 00:20:42: 3000000 INFO @ Tue, 30 Jun 2020 00:20:49: 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 00:20:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.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 00:20:55: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:20:55: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:20:55: 5000000 INFO @ Tue, 30 Jun 2020 00:21:03: 6000000 INFO @ Tue, 30 Jun 2020 00:21:03: 1000000 INFO @ Tue, 30 Jun 2020 00:21:10: 7000000 INFO @ Tue, 30 Jun 2020 00:21:12: 2000000 INFO @ Tue, 30 Jun 2020 00:21:18: 8000000 INFO @ Tue, 30 Jun 2020 00:21:21: 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 00:21:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.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 00:21:23: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:21:23: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:21:25: 9000000 INFO @ Tue, 30 Jun 2020 00:21:29: 4000000 INFO @ Tue, 30 Jun 2020 00:21:31: 1000000 INFO @ Tue, 30 Jun 2020 00:21:33: 10000000 INFO @ Tue, 30 Jun 2020 00:21:38: 5000000 INFO @ Tue, 30 Jun 2020 00:21:39: 2000000 INFO @ Tue, 30 Jun 2020 00:21:40: 11000000 INFO @ Tue, 30 Jun 2020 00:21:46: 3000000 INFO @ Tue, 30 Jun 2020 00:21:47: 6000000 INFO @ Tue, 30 Jun 2020 00:21:48: 12000000 INFO @ Tue, 30 Jun 2020 00:21:54: 4000000 INFO @ Tue, 30 Jun 2020 00:21:55: 7000000 INFO @ Tue, 30 Jun 2020 00:21:56: 13000000 INFO @ Tue, 30 Jun 2020 00:22:01: 5000000 INFO @ Tue, 30 Jun 2020 00:22:03: 14000000 INFO @ Tue, 30 Jun 2020 00:22:04: 8000000 INFO @ Tue, 30 Jun 2020 00:22:09: 6000000 INFO @ Tue, 30 Jun 2020 00:22:11: 15000000 INFO @ Tue, 30 Jun 2020 00:22:12: 9000000 INFO @ Tue, 30 Jun 2020 00:22:16: 7000000 INFO @ Tue, 30 Jun 2020 00:22:19: 16000000 INFO @ Tue, 30 Jun 2020 00:22:20: 10000000 INFO @ Tue, 30 Jun 2020 00:22:20: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:22:20: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:22:20: #1 total tags in treatment: 16244170 INFO @ Tue, 30 Jun 2020 00:22:20: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:22:20: #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 00:22:21: #1 tags after filtering in treatment: 16244170 INFO @ Tue, 30 Jun 2020 00:22:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:22:21: #1 finished! INFO @ Tue, 30 Jun 2020 00:22:21: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:22:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:22:22: #2 number of paired peaks: 86 WARNING @ Tue, 30 Jun 2020 00:22:22: Too few paired peaks (86) 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 00:22:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.05_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/SRX5717027/SRX5717027.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:22:24: 8000000 INFO @ Tue, 30 Jun 2020 00:22:28: 11000000 INFO @ Tue, 30 Jun 2020 00:22:31: 9000000 INFO @ Tue, 30 Jun 2020 00:22:37: 12000000 INFO @ Tue, 30 Jun 2020 00:22:39: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:22:45: 13000000 INFO @ Tue, 30 Jun 2020 00:22:46: 11000000 INFO @ Tue, 30 Jun 2020 00:22:53: 12000000 INFO @ Tue, 30 Jun 2020 00:22:54: 14000000 INFO @ Tue, 30 Jun 2020 00:23:01: 13000000 INFO @ Tue, 30 Jun 2020 00:23:03: 15000000 INFO @ Tue, 30 Jun 2020 00:23:08: 14000000 INFO @ Tue, 30 Jun 2020 00:23:11: 16000000 INFO @ Tue, 30 Jun 2020 00:23:13: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:23:13: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:23:13: #1 total tags in treatment: 16244170 INFO @ Tue, 30 Jun 2020 00:23:13: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:23:13: #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 00:23:13: #1 tags after filtering in treatment: 16244170 INFO @ Tue, 30 Jun 2020 00:23:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:23:13: #1 finished! INFO @ Tue, 30 Jun 2020 00:23:13: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:23:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:23:14: #2 number of paired peaks: 86 WARNING @ Tue, 30 Jun 2020 00:23:14: Too few paired peaks (86) 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 00:23:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.10_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/SRX5717027/SRX5717027.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:23:16: 15000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:23:22: 16000000 INFO @ Tue, 30 Jun 2020 00:23:24: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:23:24: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:23:24: #1 total tags in treatment: 16244170 INFO @ Tue, 30 Jun 2020 00:23:24: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:23:24: #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 00:23:24: #1 tags after filtering in treatment: 16244170 INFO @ Tue, 30 Jun 2020 00:23:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:23:24: #1 finished! INFO @ Tue, 30 Jun 2020 00:23:24: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:23:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:23:25: #2 number of paired peaks: 86 WARNING @ Tue, 30 Jun 2020 00:23:25: Too few paired peaks (86) 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 00:23:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.20_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/SRX5717027/SRX5717027.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717027/SRX5717027.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling