Job ID = 6527649 SRX = SRX1847043 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:00:12 prefetch.2.10.7: 1) Downloading 'SRR3669860'... 2020-06-29T13:00:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:05:24 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:05:24 prefetch.2.10.7: 1) 'SRR3669860' was downloaded successfully Read 32091913 spots for SRR3669860/SRR3669860.sra Written 32091913 spots for SRR3669860/SRR3669860.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: 00:08:16 32091913 reads; of these: 32091913 (100.00%) were unpaired; of these: 1133492 (3.53%) aligned 0 times 27376680 (85.31%) aligned exactly 1 time 3581741 (11.16%) aligned >1 times 96.47% overall alignment rate Time searching: 00:08:16 Overall time: 00:08:16 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 16 files... [bam_rmdupse_core] 11273906 / 30958421 = 0.3642 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 22:29:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.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 22:29:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:29:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:29:34: 1000000 INFO @ Mon, 29 Jun 2020 22:29:40: 2000000 INFO @ Mon, 29 Jun 2020 22:29:47: 3000000 INFO @ Mon, 29 Jun 2020 22:29:53: 4000000 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 22:29:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.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 22:29:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:29:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:29:59: 5000000 INFO @ Mon, 29 Jun 2020 22:30:05: 1000000 INFO @ Mon, 29 Jun 2020 22:30:05: 6000000 INFO @ Mon, 29 Jun 2020 22:30:12: 7000000 INFO @ Mon, 29 Jun 2020 22:30:12: 2000000 INFO @ Mon, 29 Jun 2020 22:30:19: 8000000 INFO @ Mon, 29 Jun 2020 22:30:19: 3000000 INFO @ Mon, 29 Jun 2020 22:30:25: 9000000 INFO @ Mon, 29 Jun 2020 22:30:26: 4000000 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 22:30:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.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 22:30:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:30:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:30:32: 10000000 INFO @ Mon, 29 Jun 2020 22:30:33: 5000000 INFO @ Mon, 29 Jun 2020 22:30:35: 1000000 INFO @ Mon, 29 Jun 2020 22:30:38: 11000000 INFO @ Mon, 29 Jun 2020 22:30:40: 6000000 INFO @ Mon, 29 Jun 2020 22:30:42: 2000000 INFO @ Mon, 29 Jun 2020 22:30:45: 12000000 INFO @ Mon, 29 Jun 2020 22:30:47: 7000000 INFO @ Mon, 29 Jun 2020 22:30:49: 3000000 INFO @ Mon, 29 Jun 2020 22:30:51: 13000000 INFO @ Mon, 29 Jun 2020 22:30:54: 8000000 INFO @ Mon, 29 Jun 2020 22:30:55: 4000000 INFO @ Mon, 29 Jun 2020 22:30:58: 14000000 INFO @ Mon, 29 Jun 2020 22:31:01: 9000000 INFO @ Mon, 29 Jun 2020 22:31:02: 5000000 INFO @ Mon, 29 Jun 2020 22:31:04: 15000000 INFO @ Mon, 29 Jun 2020 22:31:07: 10000000 INFO @ Mon, 29 Jun 2020 22:31:09: 6000000 INFO @ Mon, 29 Jun 2020 22:31:10: 16000000 INFO @ Mon, 29 Jun 2020 22:31:14: 11000000 INFO @ Mon, 29 Jun 2020 22:31:16: 7000000 INFO @ Mon, 29 Jun 2020 22:31:17: 17000000 INFO @ Mon, 29 Jun 2020 22:31:21: 12000000 INFO @ Mon, 29 Jun 2020 22:31:22: 8000000 INFO @ Mon, 29 Jun 2020 22:31:23: 18000000 INFO @ Mon, 29 Jun 2020 22:31:27: 13000000 INFO @ Mon, 29 Jun 2020 22:31:29: 9000000 INFO @ Mon, 29 Jun 2020 22:31:30: 19000000 INFO @ Mon, 29 Jun 2020 22:31:34: 14000000 INFO @ Mon, 29 Jun 2020 22:31:34: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:31:34: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:31:34: #1 total tags in treatment: 19684515 INFO @ Mon, 29 Jun 2020 22:31:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:31:34: #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 22:31:34: #1 tags after filtering in treatment: 19684515 INFO @ Mon, 29 Jun 2020 22:31:34: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:31:34: #1 finished! INFO @ Mon, 29 Jun 2020 22:31:34: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:31:34: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:31:35: 10000000 INFO @ Mon, 29 Jun 2020 22:31:36: #2 number of paired peaks: 85 WARNING @ Mon, 29 Jun 2020 22:31:36: Too few paired peaks (85) 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 22:31:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:31:40: 15000000 INFO @ Mon, 29 Jun 2020 22:31:42: 11000000 INFO @ Mon, 29 Jun 2020 22:31:47: 16000000 INFO @ Mon, 29 Jun 2020 22:31:48: 12000000 INFO @ Mon, 29 Jun 2020 22:31:53: 17000000 INFO @ Mon, 29 Jun 2020 22:31:55: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:32:00: 18000000 INFO @ Mon, 29 Jun 2020 22:32:01: 14000000 INFO @ Mon, 29 Jun 2020 22:32:06: 19000000 INFO @ Mon, 29 Jun 2020 22:32:08: 15000000 INFO @ Mon, 29 Jun 2020 22:32:11: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:32:11: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:32:11: #1 total tags in treatment: 19684515 INFO @ Mon, 29 Jun 2020 22:32:11: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:32:11: #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 22:32:11: #1 tags after filtering in treatment: 19684515 INFO @ Mon, 29 Jun 2020 22:32:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:32:11: #1 finished! INFO @ Mon, 29 Jun 2020 22:32:11: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:32:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:32:13: #2 number of paired peaks: 85 WARNING @ Mon, 29 Jun 2020 22:32:13: Too few paired peaks (85) 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 22:32:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.10_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/SRX1847043/SRX1847043.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:32:14: 16000000 INFO @ Mon, 29 Jun 2020 22:32:20: 17000000 INFO @ Mon, 29 Jun 2020 22:32:26: 18000000 INFO @ Mon, 29 Jun 2020 22:32:32: 19000000 INFO @ Mon, 29 Jun 2020 22:32:36: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:32:36: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:32:36: #1 total tags in treatment: 19684515 INFO @ Mon, 29 Jun 2020 22:32:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:32:36: #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 22:32:36: #1 tags after filtering in treatment: 19684515 INFO @ Mon, 29 Jun 2020 22:32:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:32:36: #1 finished! INFO @ Mon, 29 Jun 2020 22:32:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:32:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:32:38: #2 number of paired peaks: 85 WARNING @ Mon, 29 Jun 2020 22:32:38: Too few paired peaks (85) 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 22:32:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.20_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/SRX1847043/SRX1847043.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847043/SRX1847043.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。