Job ID = 6527808 SRX = SRX287702 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:54:00 prefetch.2.10.7: 1) Downloading 'SRR869890'... 2020-06-29T13:54:00 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:56:43 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:56:43 prefetch.2.10.7: 1) 'SRR869890' was downloaded successfully Read 18393353 spots for SRR869890/SRR869890.sra Written 18393353 spots for SRR869890/SRR869890.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: 00:06:12 18393353 reads; of these: 18393353 (100.00%) were unpaired; of these: 1113985 (6.06%) aligned 0 times 13363623 (72.65%) aligned exactly 1 time 3915745 (21.29%) aligned >1 times 93.94% overall alignment rate Time searching: 00:06:12 Overall time: 00:06:12 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 8 files... [bam_rmdupse_core] 1105728 / 17279368 = 0.0640 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 @ Mon, 29 Jun 2020 23:15:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.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 @ Mon, 29 Jun 2020 23:15:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:15:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:15:39: 1000000 INFO @ Mon, 29 Jun 2020 23:15:47: 2000000 INFO @ Mon, 29 Jun 2020 23:15:56: 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 @ Mon, 29 Jun 2020 23:16:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.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 @ Mon, 29 Jun 2020 23:16:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:16:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:16:05: 4000000 INFO @ Mon, 29 Jun 2020 23:16:09: 1000000 INFO @ Mon, 29 Jun 2020 23:16:13: 5000000 INFO @ Mon, 29 Jun 2020 23:16:17: 2000000 INFO @ Mon, 29 Jun 2020 23:16:22: 6000000 INFO @ Mon, 29 Jun 2020 23:16:26: 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 @ Mon, 29 Jun 2020 23:16:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.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 @ Mon, 29 Jun 2020 23:16:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:16:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:16:31: 7000000 INFO @ Mon, 29 Jun 2020 23:16:35: 4000000 INFO @ Mon, 29 Jun 2020 23:16:40: 1000000 INFO @ Mon, 29 Jun 2020 23:16:40: 8000000 INFO @ Mon, 29 Jun 2020 23:16:45: 5000000 INFO @ Mon, 29 Jun 2020 23:16:49: 2000000 INFO @ Mon, 29 Jun 2020 23:16:50: 9000000 INFO @ Mon, 29 Jun 2020 23:16:54: 6000000 INFO @ Mon, 29 Jun 2020 23:16:58: 3000000 INFO @ Mon, 29 Jun 2020 23:16:58: 10000000 INFO @ Mon, 29 Jun 2020 23:17:02: 7000000 INFO @ Mon, 29 Jun 2020 23:17:07: 4000000 INFO @ Mon, 29 Jun 2020 23:17:07: 11000000 INFO @ Mon, 29 Jun 2020 23:17:11: 8000000 INFO @ Mon, 29 Jun 2020 23:17:15: 12000000 INFO @ Mon, 29 Jun 2020 23:17:15: 5000000 INFO @ Mon, 29 Jun 2020 23:17:19: 9000000 INFO @ Mon, 29 Jun 2020 23:17:24: 13000000 INFO @ Mon, 29 Jun 2020 23:17:24: 6000000 INFO @ Mon, 29 Jun 2020 23:17:28: 10000000 INFO @ Mon, 29 Jun 2020 23:17:32: 7000000 INFO @ Mon, 29 Jun 2020 23:17:32: 14000000 INFO @ Mon, 29 Jun 2020 23:17:36: 11000000 INFO @ Mon, 29 Jun 2020 23:17:40: 15000000 INFO @ Mon, 29 Jun 2020 23:17:41: 8000000 INFO @ Mon, 29 Jun 2020 23:17:44: 12000000 INFO @ Mon, 29 Jun 2020 23:17:48: 16000000 INFO @ Mon, 29 Jun 2020 23:17:49: 9000000 INFO @ Mon, 29 Jun 2020 23:17:50: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:17:50: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:17:50: #1 total tags in treatment: 16173640 INFO @ Mon, 29 Jun 2020 23:17:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:17:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:17:51: #1 tags after filtering in treatment: 16173640 INFO @ Mon, 29 Jun 2020 23:17:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:17:51: #1 finished! INFO @ Mon, 29 Jun 2020 23:17:51: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:17:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:17:52: #2 number of paired peaks: 40 WARNING @ Mon, 29 Jun 2020 23:17:52: Too few paired peaks (40) 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 @ Mon, 29 Jun 2020 23:17:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.05_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/SRX287702/SRX287702.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:17:52: 13000000 INFO @ Mon, 29 Jun 2020 23:17:57: 10000000 INFO @ Mon, 29 Jun 2020 23:18:00: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:18:05: 11000000 INFO @ Mon, 29 Jun 2020 23:18:07: 15000000 INFO @ Mon, 29 Jun 2020 23:18:13: 12000000 INFO @ Mon, 29 Jun 2020 23:18:14: 16000000 INFO @ Mon, 29 Jun 2020 23:18:16: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:18:16: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:18:16: #1 total tags in treatment: 16173640 INFO @ Mon, 29 Jun 2020 23:18:16: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:18:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:18:16: #1 tags after filtering in treatment: 16173640 INFO @ Mon, 29 Jun 2020 23:18:16: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:18:16: #1 finished! INFO @ Mon, 29 Jun 2020 23:18:16: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:18:16: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:18:17: #2 number of paired peaks: 40 WARNING @ Mon, 29 Jun 2020 23:18:17: Too few paired peaks (40) 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 @ Mon, 29 Jun 2020 23:18:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.10_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/SRX287702/SRX287702.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:18:21: 13000000 INFO @ Mon, 29 Jun 2020 23:18:29: 14000000 INFO @ Mon, 29 Jun 2020 23:18:37: 15000000 INFO @ Mon, 29 Jun 2020 23:18:45: 16000000 INFO @ Mon, 29 Jun 2020 23:18:47: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:18:47: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:18:47: #1 total tags in treatment: 16173640 INFO @ Mon, 29 Jun 2020 23:18:47: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:18:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:18:47: #1 tags after filtering in treatment: 16173640 INFO @ Mon, 29 Jun 2020 23:18:47: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:18:47: #1 finished! INFO @ Mon, 29 Jun 2020 23:18:47: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:18:47: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:18:48: #2 number of paired peaks: 40 WARNING @ Mon, 29 Jun 2020 23:18:48: Too few paired peaks (40) 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 @ Mon, 29 Jun 2020 23:18:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.20_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/SRX287702/SRX287702.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287702/SRX287702.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。