Job ID = 6527556 SRX = SRX110796 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:14:48 prefetch.2.10.7: 1) Downloading 'SRR388378'... 2020-06-29T13:14:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:15:47 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:15:48 prefetch.2.10.7: 'SRR388378' is valid 2020-06-29T13:15:48 prefetch.2.10.7: 1) 'SRR388378' was downloaded successfully Read 14420359 spots for SRR388378/SRR388378.sra Written 14420359 spots for SRR388378/SRR388378.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: 00:05:32 14420359 reads; of these: 14420359 (100.00%) were unpaired; of these: 376218 (2.61%) aligned 0 times 6675134 (46.29%) aligned exactly 1 time 7369007 (51.10%) aligned >1 times 97.39% overall alignment rate Time searching: 00:05:32 Overall time: 00:05:32 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_rmdupse_core] 822622 / 14044141 = 0.0586 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 22:26:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.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 22:26:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:26:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:26:05: 1000000 INFO @ Mon, 29 Jun 2020 22:26:09: 2000000 INFO @ Mon, 29 Jun 2020 22:26:14: 3000000 INFO @ Mon, 29 Jun 2020 22:26:18: 4000000 INFO @ Mon, 29 Jun 2020 22:26:23: 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 @ Mon, 29 Jun 2020 22:26:27: 6000000 INFO @ Mon, 29 Jun 2020 22:26:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.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 22:26:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:26:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:26:32: 7000000 INFO @ Mon, 29 Jun 2020 22:26:34: 1000000 INFO @ Mon, 29 Jun 2020 22:26:36: 8000000 INFO @ Mon, 29 Jun 2020 22:26:38: 2000000 INFO @ Mon, 29 Jun 2020 22:26:41: 9000000 INFO @ Mon, 29 Jun 2020 22:26:43: 3000000 INFO @ Mon, 29 Jun 2020 22:26:46: 10000000 INFO @ Mon, 29 Jun 2020 22:26:47: 4000000 INFO @ Mon, 29 Jun 2020 22:26:50: 11000000 INFO @ Mon, 29 Jun 2020 22:26:52: 5000000 INFO @ Mon, 29 Jun 2020 22:26:55: 12000000 INFO @ Mon, 29 Jun 2020 22:26:56: 6000000 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 22:26:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.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 22:26:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:26:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:26:59: 13000000 INFO @ Mon, 29 Jun 2020 22:27:00: #1 tag size is determined as 18 bps INFO @ Mon, 29 Jun 2020 22:27:00: #1 tag size = 18 INFO @ Mon, 29 Jun 2020 22:27:00: #1 total tags in treatment: 13221519 INFO @ Mon, 29 Jun 2020 22:27:00: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:27:00: #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 22:27:00: #1 tags after filtering in treatment: 13221519 INFO @ Mon, 29 Jun 2020 22:27:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:27:00: #1 finished! INFO @ Mon, 29 Jun 2020 22:27:00: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:27:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:27:01: 7000000 INFO @ Mon, 29 Jun 2020 22:27:01: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 22:27:01: Too few paired peaks (67) 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 22:27:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.05_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/SRX110796/SRX110796.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:27:03: 1000000 INFO @ Mon, 29 Jun 2020 22:27:05: 8000000 INFO @ Mon, 29 Jun 2020 22:27:08: 2000000 INFO @ Mon, 29 Jun 2020 22:27:10: 9000000 INFO @ Mon, 29 Jun 2020 22:27:12: 3000000 INFO @ Mon, 29 Jun 2020 22:27:15: 10000000 INFO @ Mon, 29 Jun 2020 22:27:16: 4000000 INFO @ Mon, 29 Jun 2020 22:27:19: 11000000 INFO @ Mon, 29 Jun 2020 22:27:20: 5000000 INFO @ Mon, 29 Jun 2020 22:27:24: 12000000 INFO @ Mon, 29 Jun 2020 22:27:24: 6000000 INFO @ Mon, 29 Jun 2020 22:27:28: 7000000 INFO @ Mon, 29 Jun 2020 22:27:28: 13000000 INFO @ Mon, 29 Jun 2020 22:27:29: #1 tag size is determined as 18 bps INFO @ Mon, 29 Jun 2020 22:27:29: #1 tag size = 18 INFO @ Mon, 29 Jun 2020 22:27:29: #1 total tags in treatment: 13221519 INFO @ Mon, 29 Jun 2020 22:27:29: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:27:29: #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 22:27:30: #1 tags after filtering in treatment: 13221519 INFO @ Mon, 29 Jun 2020 22:27:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:27:30: #1 finished! INFO @ Mon, 29 Jun 2020 22:27:30: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:27:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:27:30: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 22:27:30: Too few paired peaks (67) 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 22:27:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.10_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/SRX110796/SRX110796.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:27:32: 8000000 INFO @ Mon, 29 Jun 2020 22:27:36: 9000000 INFO @ Mon, 29 Jun 2020 22:27:40: 10000000 INFO @ Mon, 29 Jun 2020 22:27:44: 11000000 INFO @ Mon, 29 Jun 2020 22:27:48: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:27:52: 13000000 INFO @ Mon, 29 Jun 2020 22:27:53: #1 tag size is determined as 18 bps INFO @ Mon, 29 Jun 2020 22:27:53: #1 tag size = 18 INFO @ Mon, 29 Jun 2020 22:27:53: #1 total tags in treatment: 13221519 INFO @ Mon, 29 Jun 2020 22:27:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:27:53: #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 22:27:53: #1 tags after filtering in treatment: 13221519 INFO @ Mon, 29 Jun 2020 22:27:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:27:53: #1 finished! INFO @ Mon, 29 Jun 2020 22:27:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:27:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:27:54: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 22:27:54: Too few paired peaks (67) 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 22:27:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.20_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/SRX110796/SRX110796.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110796/SRX110796.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。