Job ID = 6527921 SRX = SRX3270988 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:01:06 prefetch.2.10.7: 1) Downloading 'SRR6159399'... 2020-06-29T14:01:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:11:19 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:11:19 prefetch.2.10.7: 1) 'SRR6159399' was downloaded successfully Read 44852378 spots for SRR6159399/SRR6159399.sra Written 44852378 spots for SRR6159399/SRR6159399.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: 00:16:19 44852378 reads; of these: 44852378 (100.00%) were unpaired; of these: 1182418 (2.64%) aligned 0 times 30691471 (68.43%) aligned exactly 1 time 12978489 (28.94%) aligned >1 times 97.36% overall alignment rate Time searching: 00:16:19 Overall time: 00:16:19 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 20 files... [bam_rmdupse_core] 7762574 / 43669960 = 0.1778 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 23:50:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.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 23:50:22: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:50:22: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:50:27: 1000000 INFO @ Mon, 29 Jun 2020 23:50:33: 2000000 INFO @ Mon, 29 Jun 2020 23:50:38: 3000000 INFO @ Mon, 29 Jun 2020 23:50:43: 4000000 INFO @ Mon, 29 Jun 2020 23:50:48: 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 @ Mon, 29 Jun 2020 23:50:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.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 23:50:52: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:50:52: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:50:53: 6000000 INFO @ Mon, 29 Jun 2020 23:50:58: 1000000 INFO @ Mon, 29 Jun 2020 23:50:59: 7000000 INFO @ Mon, 29 Jun 2020 23:51:03: 2000000 INFO @ Mon, 29 Jun 2020 23:51:04: 8000000 INFO @ Mon, 29 Jun 2020 23:51:09: 3000000 INFO @ Mon, 29 Jun 2020 23:51:09: 9000000 INFO @ Mon, 29 Jun 2020 23:51:14: 4000000 INFO @ Mon, 29 Jun 2020 23:51:15: 10000000 INFO @ Mon, 29 Jun 2020 23:51:20: 5000000 INFO @ Mon, 29 Jun 2020 23:51:20: 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 23:51:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.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 23:51:22: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:51:22: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:51:25: 6000000 INFO @ Mon, 29 Jun 2020 23:51:26: 12000000 INFO @ Mon, 29 Jun 2020 23:51:28: 1000000 INFO @ Mon, 29 Jun 2020 23:51:31: 7000000 INFO @ Mon, 29 Jun 2020 23:51:31: 13000000 INFO @ Mon, 29 Jun 2020 23:51:33: 2000000 INFO @ Mon, 29 Jun 2020 23:51:36: 8000000 INFO @ Mon, 29 Jun 2020 23:51:37: 14000000 INFO @ Mon, 29 Jun 2020 23:51:39: 3000000 INFO @ Mon, 29 Jun 2020 23:51:41: 9000000 INFO @ Mon, 29 Jun 2020 23:51:42: 15000000 INFO @ Mon, 29 Jun 2020 23:51:44: 4000000 INFO @ Mon, 29 Jun 2020 23:51:47: 10000000 INFO @ Mon, 29 Jun 2020 23:51:47: 16000000 INFO @ Mon, 29 Jun 2020 23:51:50: 5000000 INFO @ Mon, 29 Jun 2020 23:51:52: 11000000 INFO @ Mon, 29 Jun 2020 23:51:53: 17000000 INFO @ Mon, 29 Jun 2020 23:51:55: 6000000 INFO @ Mon, 29 Jun 2020 23:51:58: 12000000 INFO @ Mon, 29 Jun 2020 23:51:58: 18000000 INFO @ Mon, 29 Jun 2020 23:52:01: 7000000 INFO @ Mon, 29 Jun 2020 23:52:03: 13000000 INFO @ Mon, 29 Jun 2020 23:52:04: 19000000 INFO @ Mon, 29 Jun 2020 23:52:06: 8000000 INFO @ Mon, 29 Jun 2020 23:52:08: 14000000 INFO @ Mon, 29 Jun 2020 23:52:09: 20000000 INFO @ Mon, 29 Jun 2020 23:52:12: 9000000 INFO @ Mon, 29 Jun 2020 23:52:14: 15000000 INFO @ Mon, 29 Jun 2020 23:52:15: 21000000 INFO @ Mon, 29 Jun 2020 23:52:17: 10000000 INFO @ Mon, 29 Jun 2020 23:52:19: 16000000 INFO @ Mon, 29 Jun 2020 23:52:20: 22000000 INFO @ Mon, 29 Jun 2020 23:52:23: 11000000 INFO @ Mon, 29 Jun 2020 23:52:25: 17000000 INFO @ Mon, 29 Jun 2020 23:52:25: 23000000 INFO @ Mon, 29 Jun 2020 23:52:28: 12000000 INFO @ Mon, 29 Jun 2020 23:52:30: 18000000 INFO @ Mon, 29 Jun 2020 23:52:31: 24000000 INFO @ Mon, 29 Jun 2020 23:52:33: 13000000 INFO @ Mon, 29 Jun 2020 23:52:35: 19000000 INFO @ Mon, 29 Jun 2020 23:52:36: 25000000 INFO @ Mon, 29 Jun 2020 23:52:39: 14000000 INFO @ Mon, 29 Jun 2020 23:52:41: 20000000 INFO @ Mon, 29 Jun 2020 23:52:42: 26000000 INFO @ Mon, 29 Jun 2020 23:52:44: 15000000 INFO @ Mon, 29 Jun 2020 23:52:46: 21000000 INFO @ Mon, 29 Jun 2020 23:52:47: 27000000 INFO @ Mon, 29 Jun 2020 23:52:49: 16000000 INFO @ Mon, 29 Jun 2020 23:52:52: 22000000 INFO @ Mon, 29 Jun 2020 23:52:52: 28000000 INFO @ Mon, 29 Jun 2020 23:52:55: 17000000 INFO @ Mon, 29 Jun 2020 23:52:57: 23000000 INFO @ Mon, 29 Jun 2020 23:52:58: 29000000 INFO @ Mon, 29 Jun 2020 23:53:00: 18000000 INFO @ Mon, 29 Jun 2020 23:53:03: 24000000 INFO @ Mon, 29 Jun 2020 23:53:03: 30000000 INFO @ Mon, 29 Jun 2020 23:53:05: 19000000 INFO @ Mon, 29 Jun 2020 23:53:08: 25000000 INFO @ Mon, 29 Jun 2020 23:53:09: 31000000 INFO @ Mon, 29 Jun 2020 23:53:11: 20000000 INFO @ Mon, 29 Jun 2020 23:53:13: 26000000 INFO @ Mon, 29 Jun 2020 23:53:14: 32000000 INFO @ Mon, 29 Jun 2020 23:53:16: 21000000 INFO @ Mon, 29 Jun 2020 23:53:19: 27000000 INFO @ Mon, 29 Jun 2020 23:53:20: 33000000 INFO @ Mon, 29 Jun 2020 23:53:22: 22000000 INFO @ Mon, 29 Jun 2020 23:53:24: 28000000 INFO @ Mon, 29 Jun 2020 23:53:25: 34000000 INFO @ Mon, 29 Jun 2020 23:53:27: 23000000 INFO @ Mon, 29 Jun 2020 23:53:30: 29000000 INFO @ Mon, 29 Jun 2020 23:53:30: 35000000 INFO @ Mon, 29 Jun 2020 23:53:32: 24000000 INFO @ Mon, 29 Jun 2020 23:53:35: 30000000 INFO @ Mon, 29 Jun 2020 23:53:35: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:53:35: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:53:35: #1 total tags in treatment: 35907386 INFO @ Mon, 29 Jun 2020 23:53:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:53:35: #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 23:53:36: #1 tags after filtering in treatment: 35907386 INFO @ Mon, 29 Jun 2020 23:53:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:53:36: #1 finished! INFO @ Mon, 29 Jun 2020 23:53:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:53:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:53:38: 25000000 INFO @ Mon, 29 Jun 2020 23:53:38: #2 number of paired peaks: 10 WARNING @ Mon, 29 Jun 2020 23:53:38: Too few paired peaks (10) 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 23:53:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.05_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/SRX3270988/SRX3270988.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:53:41: 31000000 INFO @ Mon, 29 Jun 2020 23:53:43: 26000000 INFO @ Mon, 29 Jun 2020 23:53:46: 32000000 INFO @ Mon, 29 Jun 2020 23:53:48: 27000000 INFO @ Mon, 29 Jun 2020 23:53:51: 33000000 INFO @ Mon, 29 Jun 2020 23:53:54: 28000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:53:56: 34000000 INFO @ Mon, 29 Jun 2020 23:53:59: 29000000 INFO @ Mon, 29 Jun 2020 23:54:02: 35000000 INFO @ Mon, 29 Jun 2020 23:54:05: 30000000 INFO @ Mon, 29 Jun 2020 23:54:07: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:54:07: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:54:07: #1 total tags in treatment: 35907386 INFO @ Mon, 29 Jun 2020 23:54:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:54:07: #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 23:54:07: #1 tags after filtering in treatment: 35907386 INFO @ Mon, 29 Jun 2020 23:54:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:54:07: #1 finished! INFO @ Mon, 29 Jun 2020 23:54:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:54:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:54:10: #2 number of paired peaks: 10 WARNING @ Mon, 29 Jun 2020 23:54:10: Too few paired peaks (10) 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 23:54:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.10_peaks.narrowPeak: No such file or directory INFO @ Mon, 29 Jun 2020 23:54:10: 31000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:54:15: 32000000 INFO @ Mon, 29 Jun 2020 23:54:20: 33000000 INFO @ Mon, 29 Jun 2020 23:54:25: 34000000 INFO @ Mon, 29 Jun 2020 23:54:31: 35000000 INFO @ Mon, 29 Jun 2020 23:54:36: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:54:36: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:54:36: #1 total tags in treatment: 35907386 INFO @ Mon, 29 Jun 2020 23:54:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:54:36: #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 23:54:36: #1 tags after filtering in treatment: 35907386 INFO @ Mon, 29 Jun 2020 23:54:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:54:36: #1 finished! INFO @ Mon, 29 Jun 2020 23:54:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:54:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:54:38: #2 number of paired peaks: 10 WARNING @ Mon, 29 Jun 2020 23:54:38: Too few paired peaks (10) 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 23:54:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.20_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/SRX3270988/SRX3270988.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3270988/SRX3270988.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。