Job ID = 6527456 SRX = SRX013057 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:13:15 prefetch.2.10.7: 1) Downloading 'SRR030323'... 2020-06-29T12:13:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:13:49 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:13:49 prefetch.2.10.7: 'SRR030323' is valid 2020-06-29T12:13:49 prefetch.2.10.7: 1) 'SRR030323' was downloaded successfully Read 4718133 spots for SRR030323/SRR030323.sra Written 4718133 spots for SRR030323/SRR030323.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: 00:00:01 Multiseed full-index search: 00:00:50 4718133 reads; of these: 4718133 (100.00%) were unpaired; of these: 364105 (7.72%) aligned 0 times 3868502 (81.99%) aligned exactly 1 time 485526 (10.29%) aligned >1 times 92.28% overall alignment rate Time searching: 00:00:51 Overall time: 00:00:51 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] 1213785 / 4354028 = 0.2788 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 21:17:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.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 21:17:50: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:17:50: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:17:56: 1000000 INFO @ Mon, 29 Jun 2020 21:18:01: 2000000 INFO @ Mon, 29 Jun 2020 21:18:07: 3000000 INFO @ Mon, 29 Jun 2020 21:18:08: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:18:08: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:18:08: #1 total tags in treatment: 3140243 INFO @ Mon, 29 Jun 2020 21:18:08: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:18:08: #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 21:18:08: #1 tags after filtering in treatment: 3140243 INFO @ Mon, 29 Jun 2020 21:18:08: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:18:08: #1 finished! INFO @ Mon, 29 Jun 2020 21:18:08: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:18:08: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:18:08: #2 number of paired peaks: 88 WARNING @ Mon, 29 Jun 2020 21:18:08: Too few paired peaks (88) 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 21:18:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.05_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/SRX013057/SRX013057.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 21:18:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.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 21:18:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:18:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:18:26: 1000000 INFO @ Mon, 29 Jun 2020 21:18:31: 2000000 INFO @ Mon, 29 Jun 2020 21:18:37: 3000000 INFO @ Mon, 29 Jun 2020 21:18:38: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:18:38: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:18:38: #1 total tags in treatment: 3140243 INFO @ Mon, 29 Jun 2020 21:18:38: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:18:38: #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 21:18:38: #1 tags after filtering in treatment: 3140243 INFO @ Mon, 29 Jun 2020 21:18:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:18:38: #1 finished! INFO @ Mon, 29 Jun 2020 21:18:38: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:18:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:18:38: #2 number of paired peaks: 88 WARNING @ Mon, 29 Jun 2020 21:18:38: Too few paired peaks (88) 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 21:18:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.10_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/SRX013057/SRX013057.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 21:18:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.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 21:18:50: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:18:50: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:18:56: 1000000 INFO @ Mon, 29 Jun 2020 21:19:01: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:19:07: 3000000 INFO @ Mon, 29 Jun 2020 21:19:07: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:19:07: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:19:07: #1 total tags in treatment: 3140243 INFO @ Mon, 29 Jun 2020 21:19:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:19:07: #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 21:19:07: #1 tags after filtering in treatment: 3140243 INFO @ Mon, 29 Jun 2020 21:19:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:19:07: #1 finished! INFO @ Mon, 29 Jun 2020 21:19:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:19:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:19:08: #2 number of paired peaks: 88 WARNING @ Mon, 29 Jun 2020 21:19:08: Too few paired peaks (88) 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 21:19:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.20_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/SRX013057/SRX013057.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013057/SRX013057.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。