Job ID = 6367934 SRX = SRX4200543 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:57:39 prefetch.2.10.7: 1) Downloading 'SRR7298009'... 2020-06-15T23:57:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:02:32 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:02:32 prefetch.2.10.7: 1) 'SRR7298009' was downloaded successfully Read 38312494 spots for SRR7298009/SRR7298009.sra Written 38312494 spots for SRR7298009/SRR7298009.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: 00:00:01 Multiseed full-index search: 00:13:22 38312494 reads; of these: 38312494 (100.00%) were unpaired; of these: 702503 (1.83%) aligned 0 times 31470219 (82.14%) aligned exactly 1 time 6139772 (16.03%) aligned >1 times 98.17% overall alignment rate Time searching: 00:13:23 Overall time: 00:13:23 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 13012906 / 37609991 = 0.3460 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, 16 Jun 2020 09:28:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 09:28:29: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:28:29: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:28:35: 1000000 INFO @ Tue, 16 Jun 2020 09:28:42: 2000000 INFO @ Tue, 16 Jun 2020 09:28:49: 3000000 INFO @ Tue, 16 Jun 2020 09:28:55: 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, 16 Jun 2020 09:28:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 09:28:59: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:28:59: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:29:02: 5000000 INFO @ Tue, 16 Jun 2020 09:29:06: 1000000 INFO @ Tue, 16 Jun 2020 09:29:09: 6000000 INFO @ Tue, 16 Jun 2020 09:29:13: 2000000 INFO @ Tue, 16 Jun 2020 09:29:16: 7000000 INFO @ Tue, 16 Jun 2020 09:29:21: 3000000 INFO @ Tue, 16 Jun 2020 09:29:24: 8000000 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, 16 Jun 2020 09:29:28: 4000000 INFO @ Tue, 16 Jun 2020 09:29:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 09:29:29: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:29:29: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:29:31: 9000000 INFO @ Tue, 16 Jun 2020 09:29:35: 5000000 INFO @ Tue, 16 Jun 2020 09:29:36: 1000000 INFO @ Tue, 16 Jun 2020 09:29:38: 10000000 INFO @ Tue, 16 Jun 2020 09:29:42: 6000000 INFO @ Tue, 16 Jun 2020 09:29:43: 2000000 INFO @ Tue, 16 Jun 2020 09:29:45: 11000000 INFO @ Tue, 16 Jun 2020 09:29:49: 7000000 INFO @ Tue, 16 Jun 2020 09:29:50: 3000000 INFO @ Tue, 16 Jun 2020 09:29:52: 12000000 INFO @ Tue, 16 Jun 2020 09:29:56: 8000000 INFO @ Tue, 16 Jun 2020 09:29:57: 4000000 INFO @ Tue, 16 Jun 2020 09:29:59: 13000000 INFO @ Tue, 16 Jun 2020 09:30:04: 9000000 INFO @ Tue, 16 Jun 2020 09:30:04: 5000000 INFO @ Tue, 16 Jun 2020 09:30:06: 14000000 INFO @ Tue, 16 Jun 2020 09:30:11: 10000000 INFO @ Tue, 16 Jun 2020 09:30:12: 6000000 INFO @ Tue, 16 Jun 2020 09:30:13: 15000000 INFO @ Tue, 16 Jun 2020 09:30:18: 11000000 INFO @ Tue, 16 Jun 2020 09:30:19: 7000000 INFO @ Tue, 16 Jun 2020 09:30:21: 16000000 INFO @ Tue, 16 Jun 2020 09:30:25: 12000000 INFO @ Tue, 16 Jun 2020 09:30:26: 8000000 INFO @ Tue, 16 Jun 2020 09:30:28: 17000000 INFO @ Tue, 16 Jun 2020 09:30:32: 13000000 INFO @ Tue, 16 Jun 2020 09:30:33: 9000000 INFO @ Tue, 16 Jun 2020 09:30:35: 18000000 INFO @ Tue, 16 Jun 2020 09:30:39: 14000000 INFO @ Tue, 16 Jun 2020 09:30:40: 10000000 INFO @ Tue, 16 Jun 2020 09:30:42: 19000000 INFO @ Tue, 16 Jun 2020 09:30:46: 15000000 INFO @ Tue, 16 Jun 2020 09:30:47: 11000000 INFO @ Tue, 16 Jun 2020 09:30:49: 20000000 INFO @ Tue, 16 Jun 2020 09:30:53: 16000000 INFO @ Tue, 16 Jun 2020 09:30:54: 12000000 INFO @ Tue, 16 Jun 2020 09:30:56: 21000000 INFO @ Tue, 16 Jun 2020 09:31:00: 17000000 INFO @ Tue, 16 Jun 2020 09:31:01: 13000000 INFO @ Tue, 16 Jun 2020 09:31:03: 22000000 INFO @ Tue, 16 Jun 2020 09:31:07: 18000000 INFO @ Tue, 16 Jun 2020 09:31:08: 14000000 INFO @ Tue, 16 Jun 2020 09:31:10: 23000000 INFO @ Tue, 16 Jun 2020 09:31:14: 19000000 INFO @ Tue, 16 Jun 2020 09:31:15: 15000000 INFO @ Tue, 16 Jun 2020 09:31:18: 24000000 INFO @ Tue, 16 Jun 2020 09:31:22: 20000000 INFO @ Tue, 16 Jun 2020 09:31:22: #1 tag size is determined as 75 bps INFO @ Tue, 16 Jun 2020 09:31:22: #1 tag size = 75 INFO @ Tue, 16 Jun 2020 09:31:22: #1 total tags in treatment: 24597085 INFO @ Tue, 16 Jun 2020 09:31:22: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:31:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 09:31:22: 16000000 INFO @ Tue, 16 Jun 2020 09:31:23: #1 tags after filtering in treatment: 24597085 INFO @ Tue, 16 Jun 2020 09:31:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:31:23: #1 finished! INFO @ Tue, 16 Jun 2020 09:31:23: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:31:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:31:24: #2 number of paired peaks: 10 WARNING @ Tue, 16 Jun 2020 09:31:24: 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 @ Tue, 16 Jun 2020 09:31:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.05_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/ce11/SRX4200543/SRX4200543.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:31:29: 21000000 INFO @ Tue, 16 Jun 2020 09:31:29: 17000000 INFO @ Tue, 16 Jun 2020 09:31:36: 22000000 INFO @ Tue, 16 Jun 2020 09:31:37: 18000000 INFO @ Tue, 16 Jun 2020 09:31:43: 23000000 INFO @ Tue, 16 Jun 2020 09:31:43: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:31:50: 24000000 INFO @ Tue, 16 Jun 2020 09:31:51: 20000000 INFO @ Tue, 16 Jun 2020 09:31:54: #1 tag size is determined as 75 bps INFO @ Tue, 16 Jun 2020 09:31:54: #1 tag size = 75 INFO @ Tue, 16 Jun 2020 09:31:54: #1 total tags in treatment: 24597085 INFO @ Tue, 16 Jun 2020 09:31:54: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:31:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 09:31:54: #1 tags after filtering in treatment: 24597085 INFO @ Tue, 16 Jun 2020 09:31:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:31:54: #1 finished! INFO @ Tue, 16 Jun 2020 09:31:54: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:31:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:31:56: #2 number of paired peaks: 10 WARNING @ Tue, 16 Jun 2020 09:31:56: 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 @ Tue, 16 Jun 2020 09:31:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.10_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/ce11/SRX4200543/SRX4200543.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:31:57: 21000000 INFO @ Tue, 16 Jun 2020 09:32:04: 22000000 INFO @ Tue, 16 Jun 2020 09:32:10: 23000000 INFO @ Tue, 16 Jun 2020 09:32:16: 24000000 INFO @ Tue, 16 Jun 2020 09:32:20: #1 tag size is determined as 75 bps INFO @ Tue, 16 Jun 2020 09:32:20: #1 tag size = 75 INFO @ Tue, 16 Jun 2020 09:32:20: #1 total tags in treatment: 24597085 INFO @ Tue, 16 Jun 2020 09:32:20: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:32:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 09:32:21: #1 tags after filtering in treatment: 24597085 INFO @ Tue, 16 Jun 2020 09:32:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:32:21: #1 finished! INFO @ Tue, 16 Jun 2020 09:32:21: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:32:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:32:22: #2 number of paired peaks: 10 WARNING @ Tue, 16 Jun 2020 09:32:22: 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 @ Tue, 16 Jun 2020 09:32:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.20_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/ce11/SRX4200543/SRX4200543.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200543/SRX4200543.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。