Job ID = 6528404 SRX = SRX5775936 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:10:51 prefetch.2.10.7: 1) Downloading 'SRR8997139'... 2020-06-29T15:10:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:16:59 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:16:59 prefetch.2.10.7: 1) 'SRR8997139' was downloaded successfully Read 34228787 spots for SRR8997139/SRR8997139.sra Written 34228787 spots for SRR8997139/SRR8997139.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: 00:15:46 34228787 reads; of these: 34228787 (100.00%) were unpaired; of these: 792268 (2.31%) aligned 0 times 23006028 (67.21%) aligned exactly 1 time 10430491 (30.47%) aligned >1 times 97.69% overall alignment rate Time searching: 00:15:46 Overall time: 00:15:46 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] 12410198 / 33436519 = 0.3712 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 00:53:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.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 00:53:46: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:53:46: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:53:52: 1000000 INFO @ Tue, 30 Jun 2020 00:53:58: 2000000 INFO @ Tue, 30 Jun 2020 00:54:04: 3000000 INFO @ Tue, 30 Jun 2020 00:54:10: 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 00:54:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.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 00:54:16: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:54:16: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:54:17: 5000000 INFO @ Tue, 30 Jun 2020 00:54:22: 1000000 INFO @ Tue, 30 Jun 2020 00:54:23: 6000000 INFO @ Tue, 30 Jun 2020 00:54:27: 2000000 INFO @ Tue, 30 Jun 2020 00:54:29: 7000000 INFO @ Tue, 30 Jun 2020 00:54:33: 3000000 INFO @ Tue, 30 Jun 2020 00:54:36: 8000000 INFO @ Tue, 30 Jun 2020 00:54:38: 4000000 INFO @ Tue, 30 Jun 2020 00:54:42: 9000000 BedGraph に変換中... INFO @ Tue, 30 Jun 2020 00:54:44: 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 @ Tue, 30 Jun 2020 00:54:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.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 00:54:46: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:54:46: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:54:48: 10000000 INFO @ Tue, 30 Jun 2020 00:54:50: 6000000 INFO @ Tue, 30 Jun 2020 00:54:52: 1000000 INFO @ Tue, 30 Jun 2020 00:54:55: 11000000 INFO @ Tue, 30 Jun 2020 00:54:55: 7000000 INFO @ Tue, 30 Jun 2020 00:54:59: 2000000 INFO @ Tue, 30 Jun 2020 00:55:01: 8000000 INFO @ Tue, 30 Jun 2020 00:55:01: 12000000 INFO @ Tue, 30 Jun 2020 00:55:05: 3000000 INFO @ Tue, 30 Jun 2020 00:55:06: 9000000 INFO @ Tue, 30 Jun 2020 00:55:07: 13000000 INFO @ Tue, 30 Jun 2020 00:55:11: 4000000 INFO @ Tue, 30 Jun 2020 00:55:12: 10000000 INFO @ Tue, 30 Jun 2020 00:55:14: 14000000 INFO @ Tue, 30 Jun 2020 00:55:17: 5000000 INFO @ Tue, 30 Jun 2020 00:55:18: 11000000 INFO @ Tue, 30 Jun 2020 00:55:20: 15000000 INFO @ Tue, 30 Jun 2020 00:55:23: 6000000 INFO @ Tue, 30 Jun 2020 00:55:23: 12000000 INFO @ Tue, 30 Jun 2020 00:55:26: 16000000 INFO @ Tue, 30 Jun 2020 00:55:29: 7000000 INFO @ Tue, 30 Jun 2020 00:55:29: 13000000 INFO @ Tue, 30 Jun 2020 00:55:32: 17000000 INFO @ Tue, 30 Jun 2020 00:55:34: 8000000 INFO @ Tue, 30 Jun 2020 00:55:35: 14000000 INFO @ Tue, 30 Jun 2020 00:55:39: 18000000 INFO @ Tue, 30 Jun 2020 00:55:40: 9000000 INFO @ Tue, 30 Jun 2020 00:55:41: 15000000 INFO @ Tue, 30 Jun 2020 00:55:45: 19000000 INFO @ Tue, 30 Jun 2020 00:55:46: 10000000 INFO @ Tue, 30 Jun 2020 00:55:46: 16000000 INFO @ Tue, 30 Jun 2020 00:55:51: 20000000 INFO @ Tue, 30 Jun 2020 00:55:51: 11000000 INFO @ Tue, 30 Jun 2020 00:55:52: 17000000 INFO @ Tue, 30 Jun 2020 00:55:57: 12000000 INFO @ Tue, 30 Jun 2020 00:55:58: 21000000 INFO @ Tue, 30 Jun 2020 00:55:58: 18000000 INFO @ Tue, 30 Jun 2020 00:55:58: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 00:55:58: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 00:55:58: #1 total tags in treatment: 21026321 INFO @ Tue, 30 Jun 2020 00:55:58: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:55:58: #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 00:55:58: #1 tags after filtering in treatment: 21026321 INFO @ Tue, 30 Jun 2020 00:55:58: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:55:58: #1 finished! INFO @ Tue, 30 Jun 2020 00:55:58: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:55:58: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:56:00: #2 number of paired peaks: 77 WARNING @ Tue, 30 Jun 2020 00:56:00: Too few paired peaks (77) 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 00:56:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.05_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/SRX5775936/SRX5775936.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:56:03: 13000000 INFO @ Tue, 30 Jun 2020 00:56:03: 19000000 INFO @ Tue, 30 Jun 2020 00:56:08: 14000000 INFO @ Tue, 30 Jun 2020 00:56:09: 20000000 INFO @ Tue, 30 Jun 2020 00:56:13: 15000000 INFO @ Tue, 30 Jun 2020 00:56:14: 21000000 INFO @ Tue, 30 Jun 2020 00:56:15: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 00:56:15: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 00:56:15: #1 total tags in treatment: 21026321 INFO @ Tue, 30 Jun 2020 00:56:15: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:56:15: #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 00:56:15: #1 tags after filtering in treatment: 21026321 INFO @ Tue, 30 Jun 2020 00:56:15: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:56:15: #1 finished! INFO @ Tue, 30 Jun 2020 00:56:15: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:56:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:56:16: #2 number of paired peaks: 77 WARNING @ Tue, 30 Jun 2020 00:56:16: Too few paired peaks (77) 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 00:56:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.10_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/SRX5775936/SRX5775936.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:56:19: 16000000 INFO @ Tue, 30 Jun 2020 00:56:24: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:56:29: 18000000 INFO @ Tue, 30 Jun 2020 00:56:35: 19000000 INFO @ Tue, 30 Jun 2020 00:56:40: 20000000 INFO @ Tue, 30 Jun 2020 00:56:46: 21000000 INFO @ Tue, 30 Jun 2020 00:56:46: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 00:56:46: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 00:56:46: #1 total tags in treatment: 21026321 INFO @ Tue, 30 Jun 2020 00:56:46: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:56:46: #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 00:56:46: #1 tags after filtering in treatment: 21026321 INFO @ Tue, 30 Jun 2020 00:56:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:56:46: #1 finished! INFO @ Tue, 30 Jun 2020 00:56:46: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:56:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:56:48: #2 number of paired peaks: 77 WARNING @ Tue, 30 Jun 2020 00:56:48: Too few paired peaks (77) 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 00:56:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.20_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/SRX5775936/SRX5775936.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5775936/SRX5775936.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。