Job ID = 6527884 SRX = SRX3049399 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:50:48 prefetch.2.10.7: 1) Downloading 'SRR5883310'... 2020-06-29T13:50:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:52:54 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:52:54 prefetch.2.10.7: 1) 'SRR5883310' was downloaded successfully 2020-06-29T13:52:54 prefetch.2.10.7: 'SRR5883310' has 0 unresolved dependencies Read 32602709 spots for SRR5883310/SRR5883310.sra Written 32602709 spots for SRR5883310/SRR5883310.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: 00:10:23 32602709 reads; of these: 32602709 (100.00%) were unpaired; of these: 2215079 (6.79%) aligned 0 times 22106498 (67.81%) aligned exactly 1 time 8281132 (25.40%) aligned >1 times 93.21% overall alignment rate Time searching: 00:10:23 Overall time: 00:10:23 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] 4824526 / 30387630 = 0.1588 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 23:18:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.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 23:18:04: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:18:04: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:18:09: 1000000 INFO @ Mon, 29 Jun 2020 23:18:15: 2000000 INFO @ Mon, 29 Jun 2020 23:18:20: 3000000 INFO @ Mon, 29 Jun 2020 23:18:26: 4000000 INFO @ Mon, 29 Jun 2020 23:18:31: 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 23:18:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.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 23:18:34: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:18:34: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:18:37: 6000000 INFO @ Mon, 29 Jun 2020 23:18:40: 1000000 INFO @ Mon, 29 Jun 2020 23:18:43: 7000000 INFO @ Mon, 29 Jun 2020 23:18:46: 2000000 INFO @ Mon, 29 Jun 2020 23:18:49: 8000000 INFO @ Mon, 29 Jun 2020 23:18:52: 3000000 INFO @ Mon, 29 Jun 2020 23:18:55: 9000000 INFO @ Mon, 29 Jun 2020 23:18:58: 4000000 INFO @ Mon, 29 Jun 2020 23:19:01: 10000000 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 23:19:04: 5000000 INFO @ Mon, 29 Jun 2020 23:19:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.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 23:19:04: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:19:04: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:19:07: 11000000 INFO @ Mon, 29 Jun 2020 23:19:10: 6000000 INFO @ Mon, 29 Jun 2020 23:19:11: 1000000 INFO @ Mon, 29 Jun 2020 23:19:14: 12000000 INFO @ Mon, 29 Jun 2020 23:19:16: 7000000 INFO @ Mon, 29 Jun 2020 23:19:17: 2000000 INFO @ Mon, 29 Jun 2020 23:19:20: 13000000 INFO @ Mon, 29 Jun 2020 23:19:22: 8000000 INFO @ Mon, 29 Jun 2020 23:19:24: 3000000 INFO @ Mon, 29 Jun 2020 23:19:26: 14000000 INFO @ Mon, 29 Jun 2020 23:19:29: 9000000 INFO @ Mon, 29 Jun 2020 23:19:30: 4000000 INFO @ Mon, 29 Jun 2020 23:19:32: 15000000 INFO @ Mon, 29 Jun 2020 23:19:35: 10000000 INFO @ Mon, 29 Jun 2020 23:19:36: 5000000 INFO @ Mon, 29 Jun 2020 23:19:39: 16000000 INFO @ Mon, 29 Jun 2020 23:19:42: 11000000 INFO @ Mon, 29 Jun 2020 23:19:43: 6000000 INFO @ Mon, 29 Jun 2020 23:19:45: 17000000 INFO @ Mon, 29 Jun 2020 23:19:48: 12000000 INFO @ Mon, 29 Jun 2020 23:19:50: 7000000 INFO @ Mon, 29 Jun 2020 23:19:52: 18000000 INFO @ Mon, 29 Jun 2020 23:19:54: 13000000 INFO @ Mon, 29 Jun 2020 23:19:57: 8000000 INFO @ Mon, 29 Jun 2020 23:19:58: 19000000 INFO @ Mon, 29 Jun 2020 23:20:01: 14000000 INFO @ Mon, 29 Jun 2020 23:20:05: 9000000 INFO @ Mon, 29 Jun 2020 23:20:05: 20000000 INFO @ Mon, 29 Jun 2020 23:20:07: 15000000 INFO @ Mon, 29 Jun 2020 23:20:11: 21000000 INFO @ Mon, 29 Jun 2020 23:20:12: 10000000 INFO @ Mon, 29 Jun 2020 23:20:13: 16000000 INFO @ Mon, 29 Jun 2020 23:20:18: 22000000 INFO @ Mon, 29 Jun 2020 23:20:19: 11000000 INFO @ Mon, 29 Jun 2020 23:20:20: 17000000 INFO @ Mon, 29 Jun 2020 23:20:24: 23000000 INFO @ Mon, 29 Jun 2020 23:20:26: 12000000 INFO @ Mon, 29 Jun 2020 23:20:26: 18000000 INFO @ Mon, 29 Jun 2020 23:20:30: 24000000 INFO @ Mon, 29 Jun 2020 23:20:32: 19000000 INFO @ Mon, 29 Jun 2020 23:20:33: 13000000 INFO @ Mon, 29 Jun 2020 23:20:36: 25000000 INFO @ Mon, 29 Jun 2020 23:20:39: 20000000 INFO @ Mon, 29 Jun 2020 23:20:40: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:20:40: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:20:40: #1 total tags in treatment: 25563104 INFO @ Mon, 29 Jun 2020 23:20:40: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:20:40: #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 23:20:40: 14000000 INFO @ Mon, 29 Jun 2020 23:20:41: #1 tags after filtering in treatment: 25563104 INFO @ Mon, 29 Jun 2020 23:20:41: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:20:41: #1 finished! INFO @ Mon, 29 Jun 2020 23:20:41: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:20:41: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:20:42: #2 number of paired peaks: 68 WARNING @ Mon, 29 Jun 2020 23:20:42: Too few paired peaks (68) 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 23:20:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.05_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/SRX3049399/SRX3049399.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:20:45: 21000000 INFO @ Mon, 29 Jun 2020 23:20:47: 15000000 INFO @ Mon, 29 Jun 2020 23:20:52: 22000000 INFO @ Mon, 29 Jun 2020 23:20:55: 16000000 INFO @ Mon, 29 Jun 2020 23:20:58: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:21:02: 17000000 INFO @ Mon, 29 Jun 2020 23:21:04: 24000000 INFO @ Mon, 29 Jun 2020 23:21:09: 18000000 INFO @ Mon, 29 Jun 2020 23:21:11: 25000000 INFO @ Mon, 29 Jun 2020 23:21:14: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:21:14: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:21:14: #1 total tags in treatment: 25563104 INFO @ Mon, 29 Jun 2020 23:21:14: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:21:14: #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 23:21:15: #1 tags after filtering in treatment: 25563104 INFO @ Mon, 29 Jun 2020 23:21:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:21:15: #1 finished! INFO @ Mon, 29 Jun 2020 23:21:15: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:21:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:21:16: 19000000 INFO @ Mon, 29 Jun 2020 23:21:16: #2 number of paired peaks: 68 WARNING @ Mon, 29 Jun 2020 23:21:16: Too few paired peaks (68) 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 23:21:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.10_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/SRX3049399/SRX3049399.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:21:23: 20000000 INFO @ Mon, 29 Jun 2020 23:21:29: 21000000 INFO @ Mon, 29 Jun 2020 23:21:36: 22000000 INFO @ Mon, 29 Jun 2020 23:21:43: 23000000 INFO @ Mon, 29 Jun 2020 23:21:49: 24000000 INFO @ Mon, 29 Jun 2020 23:21:56: 25000000 INFO @ Mon, 29 Jun 2020 23:22:00: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:22:00: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:22:00: #1 total tags in treatment: 25563104 INFO @ Mon, 29 Jun 2020 23:22:00: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:22:00: #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 23:22:00: #1 tags after filtering in treatment: 25563104 INFO @ Mon, 29 Jun 2020 23:22:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:22:00: #1 finished! INFO @ Mon, 29 Jun 2020 23:22:00: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:22:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:22:02: #2 number of paired peaks: 68 WARNING @ Mon, 29 Jun 2020 23:22:02: Too few paired peaks (68) 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 23:22:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.20_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/SRX3049399/SRX3049399.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3049399/SRX3049399.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。