Job ID = 6527639 SRX = SRX1837289 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:14:04 prefetch.2.10.7: 1) Downloading 'SRR3657645'... 2020-06-29T13:14:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:19:21 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:19:21 prefetch.2.10.7: 1) 'SRR3657645' was downloaded successfully 2020-06-29T13:19:21 prefetch.2.10.7: 'SRR3657645' has 0 unresolved dependencies Read 33943302 spots for SRR3657645/SRR3657645.sra Written 33943302 spots for SRR3657645/SRR3657645.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: 00:09:59 33943302 reads; of these: 33943302 (100.00%) were unpaired; of these: 1354060 (3.99%) aligned 0 times 26969848 (79.46%) aligned exactly 1 time 5619394 (16.56%) aligned >1 times 96.01% overall alignment rate Time searching: 00:09:59 Overall time: 00:09:59 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] 4180169 / 32589242 = 0.1283 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 22:48:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.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 22:48:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:48:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:48:49: 1000000 INFO @ Mon, 29 Jun 2020 22:48:56: 2000000 INFO @ Mon, 29 Jun 2020 22:49:03: 3000000 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 22:49:10: 4000000 INFO @ Mon, 29 Jun 2020 22:49:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.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 22:49:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:49:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:49:17: 5000000 INFO @ Mon, 29 Jun 2020 22:49:19: 1000000 INFO @ Mon, 29 Jun 2020 22:49:25: 6000000 INFO @ Mon, 29 Jun 2020 22:49:27: 2000000 INFO @ Mon, 29 Jun 2020 22:49:33: 7000000 INFO @ Mon, 29 Jun 2020 22:49:35: 3000000 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 22:49:41: 8000000 INFO @ Mon, 29 Jun 2020 22:49:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.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 22:49:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:49:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:49:43: 4000000 INFO @ Mon, 29 Jun 2020 22:49:49: 9000000 INFO @ Mon, 29 Jun 2020 22:49:49: 1000000 INFO @ Mon, 29 Jun 2020 22:49:51: 5000000 INFO @ Mon, 29 Jun 2020 22:49:57: 2000000 INFO @ Mon, 29 Jun 2020 22:49:57: 10000000 INFO @ Mon, 29 Jun 2020 22:50:00: 6000000 INFO @ Mon, 29 Jun 2020 22:50:04: 3000000 INFO @ Mon, 29 Jun 2020 22:50:05: 11000000 INFO @ Mon, 29 Jun 2020 22:50:08: 7000000 INFO @ Mon, 29 Jun 2020 22:50:12: 4000000 INFO @ Mon, 29 Jun 2020 22:50:14: 12000000 INFO @ Mon, 29 Jun 2020 22:50:16: 8000000 INFO @ Mon, 29 Jun 2020 22:50:20: 5000000 INFO @ Mon, 29 Jun 2020 22:50:22: 13000000 INFO @ Mon, 29 Jun 2020 22:50:25: 9000000 INFO @ Mon, 29 Jun 2020 22:50:27: 6000000 INFO @ Mon, 29 Jun 2020 22:50:30: 14000000 INFO @ Mon, 29 Jun 2020 22:50:34: 10000000 INFO @ Mon, 29 Jun 2020 22:50:35: 7000000 INFO @ Mon, 29 Jun 2020 22:50:38: 15000000 INFO @ Mon, 29 Jun 2020 22:50:42: 11000000 INFO @ Mon, 29 Jun 2020 22:50:43: 8000000 INFO @ Mon, 29 Jun 2020 22:50:46: 16000000 INFO @ Mon, 29 Jun 2020 22:50:51: 9000000 INFO @ Mon, 29 Jun 2020 22:50:51: 12000000 INFO @ Mon, 29 Jun 2020 22:50:55: 17000000 INFO @ Mon, 29 Jun 2020 22:50:59: 10000000 INFO @ Mon, 29 Jun 2020 22:51:00: 13000000 INFO @ Mon, 29 Jun 2020 22:51:03: 18000000 INFO @ Mon, 29 Jun 2020 22:51:07: 11000000 INFO @ Mon, 29 Jun 2020 22:51:08: 14000000 INFO @ Mon, 29 Jun 2020 22:51:11: 19000000 INFO @ Mon, 29 Jun 2020 22:51:14: 12000000 INFO @ Mon, 29 Jun 2020 22:51:17: 15000000 INFO @ Mon, 29 Jun 2020 22:51:19: 20000000 INFO @ Mon, 29 Jun 2020 22:51:22: 13000000 INFO @ Mon, 29 Jun 2020 22:51:25: 16000000 INFO @ Mon, 29 Jun 2020 22:51:27: 21000000 INFO @ Mon, 29 Jun 2020 22:51:30: 14000000 INFO @ Mon, 29 Jun 2020 22:51:34: 17000000 INFO @ Mon, 29 Jun 2020 22:51:35: 22000000 INFO @ Mon, 29 Jun 2020 22:51:38: 15000000 INFO @ Mon, 29 Jun 2020 22:51:42: 18000000 INFO @ Mon, 29 Jun 2020 22:51:43: 23000000 INFO @ Mon, 29 Jun 2020 22:51:45: 16000000 INFO @ Mon, 29 Jun 2020 22:51:50: 19000000 INFO @ Mon, 29 Jun 2020 22:51:52: 24000000 INFO @ Mon, 29 Jun 2020 22:51:53: 17000000 INFO @ Mon, 29 Jun 2020 22:51:58: 20000000 INFO @ Mon, 29 Jun 2020 22:52:00: 25000000 INFO @ Mon, 29 Jun 2020 22:52:01: 18000000 INFO @ Mon, 29 Jun 2020 22:52:07: 21000000 INFO @ Mon, 29 Jun 2020 22:52:08: 26000000 INFO @ Mon, 29 Jun 2020 22:52:08: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:52:15: 22000000 INFO @ Mon, 29 Jun 2020 22:52:16: 27000000 INFO @ Mon, 29 Jun 2020 22:52:16: 20000000 INFO @ Mon, 29 Jun 2020 22:52:23: 21000000 INFO @ Mon, 29 Jun 2020 22:52:23: 23000000 INFO @ Mon, 29 Jun 2020 22:52:24: 28000000 INFO @ Mon, 29 Jun 2020 22:52:27: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:52:27: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:52:27: #1 total tags in treatment: 28409073 INFO @ Mon, 29 Jun 2020 22:52:27: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:27: #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 22:52:27: #1 tags after filtering in treatment: 28409073 INFO @ Mon, 29 Jun 2020 22:52:27: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:27: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:27: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:27: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:29: #2 number of paired peaks: 42 WARNING @ Mon, 29 Jun 2020 22:52:29: Too few paired peaks (42) 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 22:52:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.05_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/SRX1837289/SRX1837289.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:52:31: 22000000 INFO @ Mon, 29 Jun 2020 22:52:31: 24000000 INFO @ Mon, 29 Jun 2020 22:52:38: 23000000 INFO @ Mon, 29 Jun 2020 22:52:39: 25000000 INFO @ Mon, 29 Jun 2020 22:52:46: 24000000 INFO @ Mon, 29 Jun 2020 22:52:47: 26000000 INFO @ Mon, 29 Jun 2020 22:52:53: 25000000 INFO @ Mon, 29 Jun 2020 22:52:55: 27000000 INFO @ Mon, 29 Jun 2020 22:53:00: 26000000 INFO @ Mon, 29 Jun 2020 22:53:04: 28000000 INFO @ Mon, 29 Jun 2020 22:53:07: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:53:07: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:53:07: #1 total tags in treatment: 28409073 INFO @ Mon, 29 Jun 2020 22:53:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:53:07: #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 22:53:07: 27000000 INFO @ Mon, 29 Jun 2020 22:53:07: #1 tags after filtering in treatment: 28409073 INFO @ Mon, 29 Jun 2020 22:53:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:53:07: #1 finished! INFO @ Mon, 29 Jun 2020 22:53:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:53:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:53:09: #2 number of paired peaks: 42 WARNING @ Mon, 29 Jun 2020 22:53:09: Too few paired peaks (42) 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 22:53:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.10_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/SRX1837289/SRX1837289.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:53:14: 28000000 INFO @ Mon, 29 Jun 2020 22:53:17: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:53:17: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:53:17: #1 total tags in treatment: 28409073 INFO @ Mon, 29 Jun 2020 22:53:17: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:53:17: #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 22:53:17: #1 tags after filtering in treatment: 28409073 INFO @ Mon, 29 Jun 2020 22:53:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:53:17: #1 finished! INFO @ Mon, 29 Jun 2020 22:53:17: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:53:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:53:19: #2 number of paired peaks: 42 WARNING @ Mon, 29 Jun 2020 22:53:19: Too few paired peaks (42) 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 22:53:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.20_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/SRX1837289/SRX1837289.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837289/SRX1837289.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。