Job ID = 6454583 SRX = SRX2325656 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:18:39 prefetch.2.10.7: 1) Downloading 'SRR4896344'... 2020-06-21T09:18:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:25:08 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:25:08 prefetch.2.10.7: 1) 'SRR4896344' was downloaded successfully 2020-06-21T09:25:08 prefetch.2.10.7: 'SRR4896344' has 0 unresolved dependencies Read 46993833 spots for SRR4896344/SRR4896344.sra Written 46993833 spots for SRR4896344/SRR4896344.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: 00:15:26 46993833 reads; of these: 46993833 (100.00%) were unpaired; of these: 3458601 (7.36%) aligned 0 times 35909500 (76.41%) aligned exactly 1 time 7625732 (16.23%) aligned >1 times 92.64% overall alignment rate Time searching: 00:15:26 Overall time: 00:15:26 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 8084573 / 43535232 = 0.1857 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 @ Sun, 21 Jun 2020 18:52:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.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 @ Sun, 21 Jun 2020 18:52:22: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:52:22: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:52:27: 1000000 INFO @ Sun, 21 Jun 2020 18:52:33: 2000000 INFO @ Sun, 21 Jun 2020 18:52:38: 3000000 INFO @ Sun, 21 Jun 2020 18:52:43: 4000000 INFO @ Sun, 21 Jun 2020 18:52:48: 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 @ Sun, 21 Jun 2020 18:52:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.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 @ Sun, 21 Jun 2020 18:52:52: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:52:52: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:52:54: 6000000 INFO @ Sun, 21 Jun 2020 18:52:59: 1000000 INFO @ Sun, 21 Jun 2020 18:52:59: 7000000 INFO @ Sun, 21 Jun 2020 18:53:05: 8000000 INFO @ Sun, 21 Jun 2020 18:53:06: 2000000 INFO @ Sun, 21 Jun 2020 18:53:11: 9000000 INFO @ Sun, 21 Jun 2020 18:53:12: 3000000 INFO @ Sun, 21 Jun 2020 18:53:17: 10000000 INFO @ Sun, 21 Jun 2020 18:53:19: 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 @ Sun, 21 Jun 2020 18:53:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.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 @ Sun, 21 Jun 2020 18:53:22: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:53:22: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:53:23: 11000000 INFO @ Sun, 21 Jun 2020 18:53:26: 5000000 INFO @ Sun, 21 Jun 2020 18:53:28: 1000000 INFO @ Sun, 21 Jun 2020 18:53:28: 12000000 INFO @ Sun, 21 Jun 2020 18:53:32: 6000000 INFO @ Sun, 21 Jun 2020 18:53:34: 2000000 INFO @ Sun, 21 Jun 2020 18:53:34: 13000000 INFO @ Sun, 21 Jun 2020 18:53:39: 7000000 INFO @ Sun, 21 Jun 2020 18:53:40: 14000000 INFO @ Sun, 21 Jun 2020 18:53:40: 3000000 INFO @ Sun, 21 Jun 2020 18:53:46: 15000000 INFO @ Sun, 21 Jun 2020 18:53:46: 8000000 INFO @ Sun, 21 Jun 2020 18:53:46: 4000000 INFO @ Sun, 21 Jun 2020 18:53:51: 16000000 INFO @ Sun, 21 Jun 2020 18:53:52: 5000000 INFO @ Sun, 21 Jun 2020 18:53:52: 9000000 INFO @ Sun, 21 Jun 2020 18:53:57: 17000000 INFO @ Sun, 21 Jun 2020 18:53:58: 6000000 INFO @ Sun, 21 Jun 2020 18:53:59: 10000000 INFO @ Sun, 21 Jun 2020 18:54:03: 18000000 INFO @ Sun, 21 Jun 2020 18:54:04: 7000000 INFO @ Sun, 21 Jun 2020 18:54:05: 11000000 INFO @ Sun, 21 Jun 2020 18:54:08: 19000000 INFO @ Sun, 21 Jun 2020 18:54:09: 8000000 INFO @ Sun, 21 Jun 2020 18:54:12: 12000000 INFO @ Sun, 21 Jun 2020 18:54:14: 20000000 INFO @ Sun, 21 Jun 2020 18:54:15: 9000000 INFO @ Sun, 21 Jun 2020 18:54:18: 13000000 INFO @ Sun, 21 Jun 2020 18:54:20: 21000000 INFO @ Sun, 21 Jun 2020 18:54:21: 10000000 INFO @ Sun, 21 Jun 2020 18:54:24: 14000000 INFO @ Sun, 21 Jun 2020 18:54:26: 22000000 INFO @ Sun, 21 Jun 2020 18:54:27: 11000000 INFO @ Sun, 21 Jun 2020 18:54:31: 15000000 INFO @ Sun, 21 Jun 2020 18:54:31: 23000000 INFO @ Sun, 21 Jun 2020 18:54:32: 12000000 INFO @ Sun, 21 Jun 2020 18:54:37: 24000000 INFO @ Sun, 21 Jun 2020 18:54:37: 16000000 INFO @ Sun, 21 Jun 2020 18:54:38: 13000000 INFO @ Sun, 21 Jun 2020 18:54:43: 25000000 INFO @ Sun, 21 Jun 2020 18:54:44: 14000000 INFO @ Sun, 21 Jun 2020 18:54:44: 17000000 INFO @ Sun, 21 Jun 2020 18:54:49: 26000000 INFO @ Sun, 21 Jun 2020 18:54:50: 15000000 INFO @ Sun, 21 Jun 2020 18:54:50: 18000000 INFO @ Sun, 21 Jun 2020 18:54:54: 27000000 INFO @ Sun, 21 Jun 2020 18:54:55: 16000000 INFO @ Sun, 21 Jun 2020 18:54:57: 19000000 INFO @ Sun, 21 Jun 2020 18:55:00: 28000000 INFO @ Sun, 21 Jun 2020 18:55:01: 17000000 INFO @ Sun, 21 Jun 2020 18:55:03: 20000000 INFO @ Sun, 21 Jun 2020 18:55:06: 29000000 INFO @ Sun, 21 Jun 2020 18:55:07: 18000000 INFO @ Sun, 21 Jun 2020 18:55:10: 21000000 INFO @ Sun, 21 Jun 2020 18:55:11: 30000000 INFO @ Sun, 21 Jun 2020 18:55:12: 19000000 INFO @ Sun, 21 Jun 2020 18:55:16: 22000000 INFO @ Sun, 21 Jun 2020 18:55:18: 31000000 INFO @ Sun, 21 Jun 2020 18:55:18: 20000000 INFO @ Sun, 21 Jun 2020 18:55:23: 23000000 INFO @ Sun, 21 Jun 2020 18:55:23: 32000000 INFO @ Sun, 21 Jun 2020 18:55:24: 21000000 INFO @ Sun, 21 Jun 2020 18:55:29: 24000000 INFO @ Sun, 21 Jun 2020 18:55:29: 33000000 INFO @ Sun, 21 Jun 2020 18:55:30: 22000000 INFO @ Sun, 21 Jun 2020 18:55:35: 34000000 INFO @ Sun, 21 Jun 2020 18:55:36: 23000000 INFO @ Sun, 21 Jun 2020 18:55:36: 25000000 INFO @ Sun, 21 Jun 2020 18:55:41: 35000000 INFO @ Sun, 21 Jun 2020 18:55:41: 24000000 INFO @ Sun, 21 Jun 2020 18:55:42: 26000000 INFO @ Sun, 21 Jun 2020 18:55:44: #1 tag size is determined as 76 bps INFO @ Sun, 21 Jun 2020 18:55:44: #1 tag size = 76 INFO @ Sun, 21 Jun 2020 18:55:44: #1 total tags in treatment: 35450659 INFO @ Sun, 21 Jun 2020 18:55:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:55:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:55:45: #1 tags after filtering in treatment: 35450658 INFO @ Sun, 21 Jun 2020 18:55:45: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:55:45: #1 finished! INFO @ Sun, 21 Jun 2020 18:55:45: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:55:45: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:55:47: #2 number of paired peaks: 64 WARNING @ Sun, 21 Jun 2020 18:55:47: Too few paired peaks (64) 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 @ Sun, 21 Jun 2020 18:55:47: Process for pairing-model is terminated! INFO @ Sun, 21 Jun 2020 18:55:47: 25000000 cut: /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.05_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/dm6/SRX2325656/SRX2325656.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:55:49: 27000000 INFO @ Sun, 21 Jun 2020 18:55:53: 26000000 INFO @ Sun, 21 Jun 2020 18:55:55: 28000000 INFO @ Sun, 21 Jun 2020 18:55:59: 27000000 INFO @ Sun, 21 Jun 2020 18:56:02: 29000000 INFO @ Sun, 21 Jun 2020 18:56:04: 28000000 INFO @ Sun, 21 Jun 2020 18:56:08: 30000000 INFO @ Sun, 21 Jun 2020 18:56:10: 29000000 INFO @ Sun, 21 Jun 2020 18:56:15: 31000000 INFO @ Sun, 21 Jun 2020 18:56:16: 30000000 INFO @ Sun, 21 Jun 2020 18:56:22: 31000000 INFO @ Sun, 21 Jun 2020 18:56:22: 32000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:56:28: 32000000 INFO @ Sun, 21 Jun 2020 18:56:28: 33000000 INFO @ Sun, 21 Jun 2020 18:56:33: 33000000 INFO @ Sun, 21 Jun 2020 18:56:35: 34000000 INFO @ Sun, 21 Jun 2020 18:56:39: 34000000 INFO @ Sun, 21 Jun 2020 18:56:42: 35000000 INFO @ Sun, 21 Jun 2020 18:56:45: #1 tag size is determined as 76 bps INFO @ Sun, 21 Jun 2020 18:56:45: #1 tag size = 76 INFO @ Sun, 21 Jun 2020 18:56:45: #1 total tags in treatment: 35450659 INFO @ Sun, 21 Jun 2020 18:56:45: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:56:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:56:45: 35000000 INFO @ Sun, 21 Jun 2020 18:56:46: #1 tags after filtering in treatment: 35450658 INFO @ Sun, 21 Jun 2020 18:56:46: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:56:46: #1 finished! INFO @ Sun, 21 Jun 2020 18:56:46: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:56:46: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:56:48: #2 number of paired peaks: 64 WARNING @ Sun, 21 Jun 2020 18:56:48: Too few paired peaks (64) 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 @ Sun, 21 Jun 2020 18:56:48: Process for pairing-model is terminated! INFO @ Sun, 21 Jun 2020 18:56:48: #1 tag size is determined as 76 bps INFO @ Sun, 21 Jun 2020 18:56:48: #1 tag size = 76 INFO @ Sun, 21 Jun 2020 18:56:48: #1 total tags in treatment: 35450659 INFO @ Sun, 21 Jun 2020 18:56:48: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:56:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) cut: /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.10_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/dm6/SRX2325656/SRX2325656.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:56:49: #1 tags after filtering in treatment: 35450658 INFO @ Sun, 21 Jun 2020 18:56:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:56:49: #1 finished! INFO @ Sun, 21 Jun 2020 18:56:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:56:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:56:51: #2 number of paired peaks: 64 WARNING @ Sun, 21 Jun 2020 18:56:51: Too few paired peaks (64) 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 @ Sun, 21 Jun 2020 18:56:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.20_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/dm6/SRX2325656/SRX2325656.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325656/SRX2325656.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。