Job ID = 6528385 SRX = SRX5535390 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:53:09 prefetch.2.10.7: 1) Downloading 'SRR8743318'... 2020-06-29T14:53:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:55:08 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:55:08 prefetch.2.10.7: 1) 'SRR8743318' was downloaded successfully Read 27328536 spots for SRR8743318/SRR8743318.sra Written 27328536 spots for SRR8743318/SRR8743318.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:09:01 27328536 reads; of these: 27328536 (100.00%) were unpaired; of these: 1303150 (4.77%) aligned 0 times 18106508 (66.25%) aligned exactly 1 time 7918878 (28.98%) aligned >1 times 95.23% overall alignment rate Time searching: 00:09:02 Overall time: 00:09:02 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] 7391027 / 26025386 = 0.2840 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 @ Tue, 30 Jun 2020 00:17:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.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 @ Tue, 30 Jun 2020 00:17:00: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:17:00: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:17:06: 1000000 INFO @ Tue, 30 Jun 2020 00:17:12: 2000000 INFO @ Tue, 30 Jun 2020 00:17:18: 3000000 INFO @ Tue, 30 Jun 2020 00:17:24: 4000000 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 @ Tue, 30 Jun 2020 00:17:29: 5000000 INFO @ Tue, 30 Jun 2020 00:17:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.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 @ Tue, 30 Jun 2020 00:17:30: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:17:30: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:17:36: 6000000 INFO @ Tue, 30 Jun 2020 00:17:36: 1000000 INFO @ Tue, 30 Jun 2020 00:17:43: 7000000 INFO @ Tue, 30 Jun 2020 00:17:43: 2000000 INFO @ Tue, 30 Jun 2020 00:17:49: 8000000 INFO @ Tue, 30 Jun 2020 00:17:50: 3000000 INFO @ Tue, 30 Jun 2020 00:17:56: 9000000 INFO @ Tue, 30 Jun 2020 00:17:56: 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 @ Tue, 30 Jun 2020 00:18:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.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 @ Tue, 30 Jun 2020 00:18:00: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:18:00: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:18:03: 10000000 INFO @ Tue, 30 Jun 2020 00:18:03: 5000000 INFO @ Tue, 30 Jun 2020 00:18:07: 1000000 INFO @ Tue, 30 Jun 2020 00:18:09: 11000000 INFO @ Tue, 30 Jun 2020 00:18:10: 6000000 INFO @ Tue, 30 Jun 2020 00:18:13: 2000000 INFO @ Tue, 30 Jun 2020 00:18:16: 12000000 INFO @ Tue, 30 Jun 2020 00:18:17: 7000000 INFO @ Tue, 30 Jun 2020 00:18:20: 3000000 INFO @ Tue, 30 Jun 2020 00:18:23: 13000000 INFO @ Tue, 30 Jun 2020 00:18:24: 8000000 INFO @ Tue, 30 Jun 2020 00:18:27: 4000000 INFO @ Tue, 30 Jun 2020 00:18:30: 14000000 INFO @ Tue, 30 Jun 2020 00:18:31: 9000000 INFO @ Tue, 30 Jun 2020 00:18:34: 5000000 INFO @ Tue, 30 Jun 2020 00:18:37: 15000000 INFO @ Tue, 30 Jun 2020 00:18:38: 10000000 INFO @ Tue, 30 Jun 2020 00:18:41: 6000000 INFO @ Tue, 30 Jun 2020 00:18:44: 16000000 INFO @ Tue, 30 Jun 2020 00:18:45: 11000000 INFO @ Tue, 30 Jun 2020 00:18:48: 7000000 INFO @ Tue, 30 Jun 2020 00:18:51: 17000000 INFO @ Tue, 30 Jun 2020 00:18:52: 12000000 INFO @ Tue, 30 Jun 2020 00:18:55: 8000000 INFO @ Tue, 30 Jun 2020 00:18:58: 18000000 INFO @ Tue, 30 Jun 2020 00:18:59: 13000000 INFO @ Tue, 30 Jun 2020 00:19:02: 9000000 INFO @ Tue, 30 Jun 2020 00:19:02: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:19:02: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:19:02: #1 total tags in treatment: 18634359 INFO @ Tue, 30 Jun 2020 00:19:02: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:19:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:19:02: #1 tags after filtering in treatment: 18634359 INFO @ Tue, 30 Jun 2020 00:19:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:19:02: #1 finished! INFO @ Tue, 30 Jun 2020 00:19:02: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:19:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:19:04: #2 number of paired peaks: 84 WARNING @ Tue, 30 Jun 2020 00:19:04: Too few paired peaks (84) 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 @ Tue, 30 Jun 2020 00:19:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.05_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/SRX5535390/SRX5535390.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:19:06: 14000000 INFO @ Tue, 30 Jun 2020 00:19:09: 10000000 INFO @ Tue, 30 Jun 2020 00:19:13: 15000000 INFO @ Tue, 30 Jun 2020 00:19:15: 11000000 INFO @ Tue, 30 Jun 2020 00:19:20: 16000000 INFO @ Tue, 30 Jun 2020 00:19:22: 12000000 INFO @ Tue, 30 Jun 2020 00:19:27: 17000000 INFO @ Tue, 30 Jun 2020 00:19:29: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:19:34: 18000000 INFO @ Tue, 30 Jun 2020 00:19:36: 14000000 INFO @ Tue, 30 Jun 2020 00:19:38: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:19:38: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:19:38: #1 total tags in treatment: 18634359 INFO @ Tue, 30 Jun 2020 00:19:38: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:19:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:19:38: #1 tags after filtering in treatment: 18634359 INFO @ Tue, 30 Jun 2020 00:19:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:19:38: #1 finished! INFO @ Tue, 30 Jun 2020 00:19:38: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:19:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:19:39: #2 number of paired peaks: 84 WARNING @ Tue, 30 Jun 2020 00:19:39: Too few paired peaks (84) 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 @ Tue, 30 Jun 2020 00:19:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.10_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/SRX5535390/SRX5535390.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:19:42: 15000000 INFO @ Tue, 30 Jun 2020 00:19:48: 16000000 INFO @ Tue, 30 Jun 2020 00:19:55: 17000000 INFO @ Tue, 30 Jun 2020 00:20:01: 18000000 INFO @ Tue, 30 Jun 2020 00:20:05: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:20:05: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:20:05: #1 total tags in treatment: 18634359 INFO @ Tue, 30 Jun 2020 00:20:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:20:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:20:05: #1 tags after filtering in treatment: 18634359 INFO @ Tue, 30 Jun 2020 00:20:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:20:05: #1 finished! INFO @ Tue, 30 Jun 2020 00:20:05: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:20:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:20:06: #2 number of paired peaks: 84 WARNING @ Tue, 30 Jun 2020 00:20:06: Too few paired peaks (84) 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 @ Tue, 30 Jun 2020 00:20:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.20_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/SRX5535390/SRX5535390.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535390/SRX5535390.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。