Job ID = 6528350 SRX = SRX5379461 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:47:10 prefetch.2.10.7: 1) Downloading 'SRR8578655'... 2020-06-29T14:47:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:48:27 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:48:27 prefetch.2.10.7: 1) 'SRR8578655' was downloaded successfully 2020-06-29T14:48:27 prefetch.2.10.7: 'SRR8578655' has 0 unresolved dependencies Read 31375850 spots for SRR8578655/SRR8578655.sra Written 31375850 spots for SRR8578655/SRR8578655.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: 00:08:04 31375850 reads; of these: 31375850 (100.00%) were unpaired; of these: 1187580 (3.79%) aligned 0 times 25731859 (82.01%) aligned exactly 1 time 4456411 (14.20%) aligned >1 times 96.21% overall alignment rate Time searching: 00:08:04 Overall time: 00:08:04 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] 3629626 / 30188270 = 0.1202 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 00:11:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.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 00:11:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:11:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:11:10: 1000000 INFO @ Tue, 30 Jun 2020 00:11:16: 2000000 INFO @ Tue, 30 Jun 2020 00:11:21: 3000000 INFO @ Tue, 30 Jun 2020 00:11:27: 4000000 INFO @ Tue, 30 Jun 2020 00:11:32: 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 00:11:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.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 00:11:35: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:11:35: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:11:38: 6000000 INFO @ Tue, 30 Jun 2020 00:11:40: 1000000 INFO @ Tue, 30 Jun 2020 00:11:43: 7000000 INFO @ Tue, 30 Jun 2020 00:11:45: 2000000 INFO @ Tue, 30 Jun 2020 00:11:49: 8000000 INFO @ Tue, 30 Jun 2020 00:11:49: 3000000 INFO @ Tue, 30 Jun 2020 00:11:54: 4000000 INFO @ Tue, 30 Jun 2020 00:11:54: 9000000 INFO @ Tue, 30 Jun 2020 00:11:59: 5000000 INFO @ Tue, 30 Jun 2020 00:12:00: 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 @ Tue, 30 Jun 2020 00:12:04: 6000000 INFO @ Tue, 30 Jun 2020 00:12:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.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 00:12:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:12:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:12:06: 11000000 INFO @ Tue, 30 Jun 2020 00:12:08: 7000000 INFO @ Tue, 30 Jun 2020 00:12:10: 1000000 INFO @ Tue, 30 Jun 2020 00:12:11: 12000000 INFO @ Tue, 30 Jun 2020 00:12:13: 8000000 INFO @ Tue, 30 Jun 2020 00:12:16: 2000000 INFO @ Tue, 30 Jun 2020 00:12:17: 13000000 INFO @ Tue, 30 Jun 2020 00:12:18: 9000000 INFO @ Tue, 30 Jun 2020 00:12:22: 3000000 INFO @ Tue, 30 Jun 2020 00:12:22: 14000000 INFO @ Tue, 30 Jun 2020 00:12:23: 10000000 INFO @ Tue, 30 Jun 2020 00:12:27: 4000000 INFO @ Tue, 30 Jun 2020 00:12:28: 11000000 INFO @ Tue, 30 Jun 2020 00:12:28: 15000000 INFO @ Tue, 30 Jun 2020 00:12:32: 12000000 INFO @ Tue, 30 Jun 2020 00:12:33: 5000000 INFO @ Tue, 30 Jun 2020 00:12:34: 16000000 INFO @ Tue, 30 Jun 2020 00:12:37: 13000000 INFO @ Tue, 30 Jun 2020 00:12:38: 6000000 INFO @ Tue, 30 Jun 2020 00:12:39: 17000000 INFO @ Tue, 30 Jun 2020 00:12:42: 14000000 INFO @ Tue, 30 Jun 2020 00:12:44: 7000000 INFO @ Tue, 30 Jun 2020 00:12:45: 18000000 INFO @ Tue, 30 Jun 2020 00:12:47: 15000000 INFO @ Tue, 30 Jun 2020 00:12:49: 8000000 INFO @ Tue, 30 Jun 2020 00:12:50: 19000000 INFO @ Tue, 30 Jun 2020 00:12:52: 16000000 INFO @ Tue, 30 Jun 2020 00:12:55: 9000000 INFO @ Tue, 30 Jun 2020 00:12:56: 20000000 INFO @ Tue, 30 Jun 2020 00:12:57: 17000000 INFO @ Tue, 30 Jun 2020 00:13:00: 10000000 INFO @ Tue, 30 Jun 2020 00:13:01: 18000000 INFO @ Tue, 30 Jun 2020 00:13:02: 21000000 INFO @ Tue, 30 Jun 2020 00:13:06: 11000000 INFO @ Tue, 30 Jun 2020 00:13:06: 19000000 INFO @ Tue, 30 Jun 2020 00:13:07: 22000000 INFO @ Tue, 30 Jun 2020 00:13:11: 20000000 INFO @ Tue, 30 Jun 2020 00:13:11: 12000000 INFO @ Tue, 30 Jun 2020 00:13:13: 23000000 INFO @ Tue, 30 Jun 2020 00:13:16: 21000000 INFO @ Tue, 30 Jun 2020 00:13:17: 13000000 INFO @ Tue, 30 Jun 2020 00:13:18: 24000000 INFO @ Tue, 30 Jun 2020 00:13:21: 22000000 INFO @ Tue, 30 Jun 2020 00:13:23: 14000000 INFO @ Tue, 30 Jun 2020 00:13:24: 25000000 INFO @ Tue, 30 Jun 2020 00:13:25: 23000000 INFO @ Tue, 30 Jun 2020 00:13:28: 15000000 INFO @ Tue, 30 Jun 2020 00:13:30: 26000000 INFO @ Tue, 30 Jun 2020 00:13:30: 24000000 INFO @ Tue, 30 Jun 2020 00:13:33: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:13:33: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:13:33: #1 total tags in treatment: 26558644 INFO @ Tue, 30 Jun 2020 00:13:33: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:13:33: #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 00:13:33: #1 tags after filtering in treatment: 26558644 INFO @ Tue, 30 Jun 2020 00:13:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:13:33: #1 finished! INFO @ Tue, 30 Jun 2020 00:13:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:13:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:13:34: 16000000 INFO @ Tue, 30 Jun 2020 00:13:35: #2 number of paired peaks: 65 WARNING @ Tue, 30 Jun 2020 00:13:35: Too few paired peaks (65) 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 00:13:35: Process for pairing-model is terminated! INFO @ Tue, 30 Jun 2020 00:13:35: 25000000 cut: /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.05_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/SRX5379461/SRX5379461.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:13:39: 17000000 INFO @ Tue, 30 Jun 2020 00:13:40: 26000000 INFO @ Tue, 30 Jun 2020 00:13:43: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:13:43: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:13:43: #1 total tags in treatment: 26558644 INFO @ Tue, 30 Jun 2020 00:13:43: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:13:43: #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 00:13:43: #1 tags after filtering in treatment: 26558644 INFO @ Tue, 30 Jun 2020 00:13:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:13:43: #1 finished! INFO @ Tue, 30 Jun 2020 00:13:43: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:13:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:13:45: 18000000 INFO @ Tue, 30 Jun 2020 00:13:45: #2 number of paired peaks: 65 WARNING @ Tue, 30 Jun 2020 00:13:45: Too few paired peaks (65) 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 00:13:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.10_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/SRX5379461/SRX5379461.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:13:50: 19000000 INFO @ Tue, 30 Jun 2020 00:13:55: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:14:01: 21000000 INFO @ Tue, 30 Jun 2020 00:14:06: 22000000 INFO @ Tue, 30 Jun 2020 00:14:12: 23000000 INFO @ Tue, 30 Jun 2020 00:14:17: 24000000 INFO @ Tue, 30 Jun 2020 00:14:22: 25000000 INFO @ Tue, 30 Jun 2020 00:14:28: 26000000 INFO @ Tue, 30 Jun 2020 00:14:31: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:14:31: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:14:31: #1 total tags in treatment: 26558644 INFO @ Tue, 30 Jun 2020 00:14:31: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:14:31: #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 00:14:31: #1 tags after filtering in treatment: 26558644 INFO @ Tue, 30 Jun 2020 00:14:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:14:31: #1 finished! INFO @ Tue, 30 Jun 2020 00:14:31: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:14:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:14:33: #2 number of paired peaks: 65 WARNING @ Tue, 30 Jun 2020 00:14:33: Too few paired peaks (65) 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 00:14:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.20_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/SRX5379461/SRX5379461.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5379461/SRX5379461.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。