Job ID = 6527904 SRX = SRX3159486 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:06:50 prefetch.2.10.7: 1) Downloading 'SRR6004216'... 2020-06-29T14:06:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:09:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:09:23 prefetch.2.10.7: 'SRR6004216' is valid 2020-06-29T14:09:23 prefetch.2.10.7: 1) 'SRR6004216' was downloaded successfully 2020-06-29T14:09:23 prefetch.2.10.7: 'SRR6004216' has 0 unresolved dependencies Read 25162152 spots for SRR6004216/SRR6004216.sra Written 25162152 spots for SRR6004216/SRR6004216.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: 00:07:39 25162152 reads; of these: 25162152 (100.00%) were unpaired; of these: 1064764 (4.23%) aligned 0 times 19120955 (75.99%) aligned exactly 1 time 4976433 (19.78%) aligned >1 times 95.77% overall alignment rate Time searching: 00:07:39 Overall time: 00:07:39 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] 3665731 / 24097388 = 0.1521 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 23:29:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.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 23:29:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:29:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:29:52: 1000000 INFO @ Mon, 29 Jun 2020 23:29:57: 2000000 INFO @ Mon, 29 Jun 2020 23:30:02: 3000000 INFO @ Mon, 29 Jun 2020 23:30:06: 4000000 INFO @ Mon, 29 Jun 2020 23:30:11: 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 23:30:16: 6000000 INFO @ Mon, 29 Jun 2020 23:30:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.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 23:30:17: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:30:17: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:30:21: 7000000 INFO @ Mon, 29 Jun 2020 23:30:23: 1000000 INFO @ Mon, 29 Jun 2020 23:30:26: 8000000 INFO @ Mon, 29 Jun 2020 23:30:29: 2000000 INFO @ Mon, 29 Jun 2020 23:30:31: 9000000 INFO @ Mon, 29 Jun 2020 23:30:34: 3000000 INFO @ Mon, 29 Jun 2020 23:30:36: 10000000 INFO @ Mon, 29 Jun 2020 23:30:40: 4000000 INFO @ Mon, 29 Jun 2020 23:30:41: 11000000 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 23:30:45: 5000000 INFO @ Mon, 29 Jun 2020 23:30:46: 12000000 INFO @ Mon, 29 Jun 2020 23:30:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.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 23:30:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:30:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:30:51: 13000000 INFO @ Mon, 29 Jun 2020 23:30:51: 6000000 INFO @ Mon, 29 Jun 2020 23:30:52: 1000000 INFO @ Mon, 29 Jun 2020 23:30:55: 14000000 INFO @ Mon, 29 Jun 2020 23:30:57: 7000000 INFO @ Mon, 29 Jun 2020 23:30:57: 2000000 INFO @ Mon, 29 Jun 2020 23:31:00: 15000000 INFO @ Mon, 29 Jun 2020 23:31:02: 3000000 INFO @ Mon, 29 Jun 2020 23:31:03: 8000000 INFO @ Mon, 29 Jun 2020 23:31:05: 16000000 INFO @ Mon, 29 Jun 2020 23:31:07: 4000000 INFO @ Mon, 29 Jun 2020 23:31:08: 9000000 INFO @ Mon, 29 Jun 2020 23:31:10: 17000000 INFO @ Mon, 29 Jun 2020 23:31:12: 5000000 INFO @ Mon, 29 Jun 2020 23:31:14: 10000000 INFO @ Mon, 29 Jun 2020 23:31:15: 18000000 INFO @ Mon, 29 Jun 2020 23:31:17: 6000000 INFO @ Mon, 29 Jun 2020 23:31:20: 11000000 INFO @ Mon, 29 Jun 2020 23:31:20: 19000000 INFO @ Mon, 29 Jun 2020 23:31:22: 7000000 INFO @ Mon, 29 Jun 2020 23:31:25: 20000000 INFO @ Mon, 29 Jun 2020 23:31:25: 12000000 INFO @ Mon, 29 Jun 2020 23:31:27: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:31:27: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:31:27: #1 total tags in treatment: 20431657 INFO @ Mon, 29 Jun 2020 23:31:27: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:31:27: #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 23:31:27: 8000000 INFO @ Mon, 29 Jun 2020 23:31:27: #1 tags after filtering in treatment: 20431657 INFO @ Mon, 29 Jun 2020 23:31:27: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:31:27: #1 finished! INFO @ Mon, 29 Jun 2020 23:31:27: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:31:27: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:31:28: #2 number of paired peaks: 5 WARNING @ Mon, 29 Jun 2020 23:31:28: Too few paired peaks (5) 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 23:31:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.05_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/SRX3159486/SRX3159486.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:31:30: 13000000 INFO @ Mon, 29 Jun 2020 23:31:32: 9000000 INFO @ Mon, 29 Jun 2020 23:31:36: 14000000 INFO @ Mon, 29 Jun 2020 23:31:37: 10000000 INFO @ Mon, 29 Jun 2020 23:31:41: 15000000 INFO @ Mon, 29 Jun 2020 23:31:41: 11000000 INFO @ Mon, 29 Jun 2020 23:31:46: 12000000 INFO @ Mon, 29 Jun 2020 23:31:47: 16000000 INFO @ Mon, 29 Jun 2020 23:31:51: 13000000 INFO @ Mon, 29 Jun 2020 23:31:52: 17000000 INFO @ Mon, 29 Jun 2020 23:31:56: 14000000 INFO @ Mon, 29 Jun 2020 23:31:58: 18000000 INFO @ Mon, 29 Jun 2020 23:32:01: 15000000 INFO @ Mon, 29 Jun 2020 23:32:03: 19000000 INFO @ Mon, 29 Jun 2020 23:32:05: 16000000 INFO @ Mon, 29 Jun 2020 23:32:09: 20000000 INFO @ Mon, 29 Jun 2020 23:32:10: 17000000 INFO @ Mon, 29 Jun 2020 23:32:12: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:32:12: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:32:12: #1 total tags in treatment: 20431657 INFO @ Mon, 29 Jun 2020 23:32:12: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:32:12: #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 23:32:12: #1 tags after filtering in treatment: 20431657 INFO @ Mon, 29 Jun 2020 23:32:12: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:32:12: #1 finished! INFO @ Mon, 29 Jun 2020 23:32:12: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:32:12: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:32:13: #2 number of paired peaks: 5 WARNING @ Mon, 29 Jun 2020 23:32:13: Too few paired peaks (5) 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 23:32:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.10_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/SRX3159486/SRX3159486.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:32:15: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:32:19: 19000000 INFO @ Mon, 29 Jun 2020 23:32:24: 20000000 INFO @ Mon, 29 Jun 2020 23:32:26: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:32:26: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:32:26: #1 total tags in treatment: 20431657 INFO @ Mon, 29 Jun 2020 23:32:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:32:26: #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 23:32:27: #1 tags after filtering in treatment: 20431657 INFO @ Mon, 29 Jun 2020 23:32:27: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:32:27: #1 finished! INFO @ Mon, 29 Jun 2020 23:32:27: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:32:27: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:32:28: #2 number of paired peaks: 5 WARNING @ Mon, 29 Jun 2020 23:32:28: Too few paired peaks (5) 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 23:32:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.20_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/SRX3159486/SRX3159486.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159486/SRX3159486.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。