Job ID = 6528244 SRX = SRX495184 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:47:44 prefetch.2.10.7: 1) Downloading 'SRR1198689'... 2020-06-29T14:47:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:48:29 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:48:30 prefetch.2.10.7: 'SRR1198689' is valid 2020-06-29T14:48:30 prefetch.2.10.7: 1) 'SRR1198689' was downloaded successfully Read 5177634 spots for SRR1198689/SRR1198689.sra Written 5177634 spots for SRR1198689/SRR1198689.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: 00:01:11 5177634 reads; of these: 5177634 (100.00%) were unpaired; of these: 211756 (4.09%) aligned 0 times 3977926 (76.83%) aligned exactly 1 time 987952 (19.08%) aligned >1 times 95.91% overall alignment rate Time searching: 00:01:11 Overall time: 00:01:11 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] 446018 / 4965878 = 0.0898 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 23:52:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.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 23:52:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:52:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:52:47: 1000000 INFO @ Mon, 29 Jun 2020 23:52:52: 2000000 INFO @ Mon, 29 Jun 2020 23:52:57: 3000000 INFO @ Mon, 29 Jun 2020 23:53:02: 4000000 INFO @ Mon, 29 Jun 2020 23:53:05: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:53:05: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:53:05: #1 total tags in treatment: 4519860 INFO @ Mon, 29 Jun 2020 23:53:05: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:53:05: #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 23:53:05: #1 tags after filtering in treatment: 4519860 INFO @ Mon, 29 Jun 2020 23:53:05: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:53:05: #1 finished! INFO @ Mon, 29 Jun 2020 23:53:05: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:53:05: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:53:05: #2 number of paired peaks: 71 WARNING @ Mon, 29 Jun 2020 23:53:05: Too few paired peaks (71) 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 23:53:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.05_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/SRX495184/SRX495184.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.05_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 23:53:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.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 23:53:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:53:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:53:18: 1000000 INFO @ Mon, 29 Jun 2020 23:53:23: 2000000 INFO @ Mon, 29 Jun 2020 23:53:29: 3000000 INFO @ Mon, 29 Jun 2020 23:53:35: 4000000 INFO @ Mon, 29 Jun 2020 23:53:38: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:53:38: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:53:38: #1 total tags in treatment: 4519860 INFO @ Mon, 29 Jun 2020 23:53:38: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:53:38: #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 23:53:38: #1 tags after filtering in treatment: 4519860 INFO @ Mon, 29 Jun 2020 23:53:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:53:38: #1 finished! INFO @ Mon, 29 Jun 2020 23:53:38: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:53:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:53:38: #2 number of paired peaks: 71 WARNING @ Mon, 29 Jun 2020 23:53:38: Too few paired peaks (71) 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 23:53:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.10_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/SRX495184/SRX495184.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.10_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 23:53:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.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 23:53:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:53:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:53:48: 1000000 INFO @ Mon, 29 Jun 2020 23:53:54: 2000000 INFO @ Mon, 29 Jun 2020 23:53:59: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:54:05: 4000000 INFO @ Mon, 29 Jun 2020 23:54:08: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:54:08: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:54:08: #1 total tags in treatment: 4519860 INFO @ Mon, 29 Jun 2020 23:54:08: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:54:08: #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 23:54:08: #1 tags after filtering in treatment: 4519860 INFO @ Mon, 29 Jun 2020 23:54:08: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:54:08: #1 finished! INFO @ Mon, 29 Jun 2020 23:54:08: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:54:08: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:54:09: #2 number of paired peaks: 71 WARNING @ Mon, 29 Jun 2020 23:54:09: Too few paired peaks (71) 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 23:54:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.20_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/SRX495184/SRX495184.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495184/SRX495184.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。