Job ID = 6527834 SRX = SRX287819 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:53:30 prefetch.2.10.7: 1) Downloading 'SRR870008'... 2020-06-29T13:53:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:55:48 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:55:48 prefetch.2.10.7: 1) 'SRR870008' was downloaded successfully Read 21213634 spots for SRR870008/SRR870008.sra Written 21213634 spots for SRR870008/SRR870008.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: 00:05:35 21213634 reads; of these: 21213634 (100.00%) were unpaired; of these: 1446133 (6.82%) aligned 0 times 17687595 (83.38%) aligned exactly 1 time 2079906 (9.80%) aligned >1 times 93.18% overall alignment rate Time searching: 00:05:35 Overall time: 00:05:35 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] 3900390 / 19767501 = 0.1973 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 23:15:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.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 23:15:22: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:15:22: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:15:28: 1000000 INFO @ Mon, 29 Jun 2020 23:15:33: 2000000 INFO @ Mon, 29 Jun 2020 23:15:38: 3000000 INFO @ Mon, 29 Jun 2020 23:15:44: 4000000 INFO @ Mon, 29 Jun 2020 23:15:49: 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 23:15:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.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 23:15:52: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:15:52: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:15:55: 6000000 INFO @ Mon, 29 Jun 2020 23:15:58: 1000000 INFO @ Mon, 29 Jun 2020 23:16:01: 7000000 INFO @ Mon, 29 Jun 2020 23:16:04: 2000000 INFO @ Mon, 29 Jun 2020 23:16:06: 8000000 INFO @ Mon, 29 Jun 2020 23:16:10: 3000000 INFO @ Mon, 29 Jun 2020 23:16:12: 9000000 INFO @ Mon, 29 Jun 2020 23:16:16: 4000000 INFO @ Mon, 29 Jun 2020 23:16:18: 10000000 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 23:16:22: 5000000 INFO @ Mon, 29 Jun 2020 23:16:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.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 23:16:22: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:16:22: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:16:24: 11000000 INFO @ Mon, 29 Jun 2020 23:16:28: 6000000 INFO @ Mon, 29 Jun 2020 23:16:29: 1000000 INFO @ Mon, 29 Jun 2020 23:16:30: 12000000 INFO @ Mon, 29 Jun 2020 23:16:34: 7000000 INFO @ Mon, 29 Jun 2020 23:16:35: 2000000 INFO @ Mon, 29 Jun 2020 23:16:36: 13000000 INFO @ Mon, 29 Jun 2020 23:16:41: 8000000 INFO @ Mon, 29 Jun 2020 23:16:41: 3000000 INFO @ Mon, 29 Jun 2020 23:16:43: 14000000 INFO @ Mon, 29 Jun 2020 23:16:47: 9000000 INFO @ Mon, 29 Jun 2020 23:16:48: 4000000 INFO @ Mon, 29 Jun 2020 23:16:49: 15000000 INFO @ Mon, 29 Jun 2020 23:16:53: 10000000 INFO @ Mon, 29 Jun 2020 23:16:54: 5000000 INFO @ Mon, 29 Jun 2020 23:16:55: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:16:55: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:16:55: #1 total tags in treatment: 15867111 INFO @ Mon, 29 Jun 2020 23:16:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:16:55: #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 23:16:55: #1 tags after filtering in treatment: 15867111 INFO @ Mon, 29 Jun 2020 23:16:55: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:16:55: #1 finished! INFO @ Mon, 29 Jun 2020 23:16:55: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:16:55: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:16:56: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 23:16:56: Too few paired peaks (70) 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 23:16:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.05_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/SRX287819/SRX287819.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:16:59: 11000000 INFO @ Mon, 29 Jun 2020 23:17:00: 6000000 INFO @ Mon, 29 Jun 2020 23:17:05: 12000000 INFO @ Mon, 29 Jun 2020 23:17:06: 7000000 INFO @ Mon, 29 Jun 2020 23:17:11: 13000000 INFO @ Mon, 29 Jun 2020 23:17:12: 8000000 INFO @ Mon, 29 Jun 2020 23:17:17: 14000000 INFO @ Mon, 29 Jun 2020 23:17:18: 9000000 INFO @ Mon, 29 Jun 2020 23:17:23: 15000000 INFO @ Mon, 29 Jun 2020 23:17:24: 10000000 INFO @ Mon, 29 Jun 2020 23:17:28: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:17:28: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:17:28: #1 total tags in treatment: 15867111 INFO @ Mon, 29 Jun 2020 23:17:28: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:17:28: #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 23:17:28: #1 tags after filtering in treatment: 15867111 INFO @ Mon, 29 Jun 2020 23:17:28: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:17:28: #1 finished! INFO @ Mon, 29 Jun 2020 23:17:28: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:17:28: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:17:29: 11000000 INFO @ Mon, 29 Jun 2020 23:17:29: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 23:17:29: Too few paired peaks (70) 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 23:17:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.10_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/SRX287819/SRX287819.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:17:34: 12000000 INFO @ Mon, 29 Jun 2020 23:17:40: 13000000 INFO @ Mon, 29 Jun 2020 23:17:45: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:17:50: 15000000 INFO @ Mon, 29 Jun 2020 23:17:55: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:17:55: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:17:55: #1 total tags in treatment: 15867111 INFO @ Mon, 29 Jun 2020 23:17:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:17:55: #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 23:17:55: #1 tags after filtering in treatment: 15867111 INFO @ Mon, 29 Jun 2020 23:17:55: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:17:55: #1 finished! INFO @ Mon, 29 Jun 2020 23:17:55: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:17:55: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:17:56: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 23:17:56: Too few paired peaks (70) 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 23:17:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.20_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/SRX287819/SRX287819.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287819/SRX287819.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。