Job ID = 6367639 SRX = SRX3583350 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:38:44 prefetch.2.10.7: 1) Downloading 'SRR6494006'... 2020-06-15T23:38:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:43:32 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:43:32 prefetch.2.10.7: 1) 'SRR6494006' was downloaded successfully 2020-06-15T23:43:32 prefetch.2.10.7: 'SRR6494006' has 0 unresolved dependencies Read 36456787 spots for SRR6494006/SRR6494006.sra Written 36456787 spots for SRR6494006/SRR6494006.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: 00:13:31 36456787 reads; of these: 36456787 (100.00%) were unpaired; of these: 668890 (1.83%) aligned 0 times 29869434 (81.93%) aligned exactly 1 time 5918463 (16.23%) aligned >1 times 98.17% overall alignment rate Time searching: 00:13:31 Overall time: 00:13:31 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] 5172398 / 35787897 = 0.1445 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 09:09:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.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 09:09:35: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:09:35: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:09:42: 1000000 INFO @ Tue, 16 Jun 2020 09:09:48: 2000000 INFO @ Tue, 16 Jun 2020 09:09:55: 3000000 INFO @ Tue, 16 Jun 2020 09:10:01: 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 09:10:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.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 09:10:05: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:10:05: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:10:08: 5000000 INFO @ Tue, 16 Jun 2020 09:10:12: 1000000 INFO @ Tue, 16 Jun 2020 09:10:15: 6000000 INFO @ Tue, 16 Jun 2020 09:10:20: 2000000 INFO @ Tue, 16 Jun 2020 09:10:22: 7000000 INFO @ Tue, 16 Jun 2020 09:10:27: 3000000 INFO @ Tue, 16 Jun 2020 09:10:29: 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 09:10:34: 4000000 INFO @ Tue, 16 Jun 2020 09:10:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.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 09:10:35: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:10:35: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:10:36: 9000000 INFO @ Tue, 16 Jun 2020 09:10:42: 5000000 INFO @ Tue, 16 Jun 2020 09:10:42: 1000000 INFO @ Tue, 16 Jun 2020 09:10:44: 10000000 INFO @ Tue, 16 Jun 2020 09:10:50: 6000000 INFO @ Tue, 16 Jun 2020 09:10:50: 2000000 INFO @ Tue, 16 Jun 2020 09:10:51: 11000000 INFO @ Tue, 16 Jun 2020 09:10:57: 7000000 INFO @ Tue, 16 Jun 2020 09:10:57: 3000000 INFO @ Tue, 16 Jun 2020 09:10:58: 12000000 INFO @ Tue, 16 Jun 2020 09:11:04: 8000000 INFO @ Tue, 16 Jun 2020 09:11:04: 4000000 INFO @ Tue, 16 Jun 2020 09:11:06: 13000000 INFO @ Tue, 16 Jun 2020 09:11:12: 5000000 INFO @ Tue, 16 Jun 2020 09:11:12: 9000000 INFO @ Tue, 16 Jun 2020 09:11:14: 14000000 INFO @ Tue, 16 Jun 2020 09:11:19: 6000000 INFO @ Tue, 16 Jun 2020 09:11:20: 10000000 INFO @ Tue, 16 Jun 2020 09:11:21: 15000000 INFO @ Tue, 16 Jun 2020 09:11:27: 7000000 INFO @ Tue, 16 Jun 2020 09:11:27: 11000000 INFO @ Tue, 16 Jun 2020 09:11:29: 16000000 INFO @ Tue, 16 Jun 2020 09:11:34: 8000000 INFO @ Tue, 16 Jun 2020 09:11:35: 12000000 INFO @ Tue, 16 Jun 2020 09:11:36: 17000000 INFO @ Tue, 16 Jun 2020 09:11:41: 9000000 INFO @ Tue, 16 Jun 2020 09:11:43: 13000000 INFO @ Tue, 16 Jun 2020 09:11:44: 18000000 INFO @ Tue, 16 Jun 2020 09:11:49: 10000000 INFO @ Tue, 16 Jun 2020 09:11:51: 14000000 INFO @ Tue, 16 Jun 2020 09:11:51: 19000000 INFO @ Tue, 16 Jun 2020 09:11:56: 11000000 INFO @ Tue, 16 Jun 2020 09:11:59: 15000000 INFO @ Tue, 16 Jun 2020 09:11:59: 20000000 INFO @ Tue, 16 Jun 2020 09:12:04: 12000000 INFO @ Tue, 16 Jun 2020 09:12:06: 21000000 INFO @ Tue, 16 Jun 2020 09:12:07: 16000000 INFO @ Tue, 16 Jun 2020 09:12:11: 13000000 INFO @ Tue, 16 Jun 2020 09:12:14: 22000000 INFO @ Tue, 16 Jun 2020 09:12:15: 17000000 INFO @ Tue, 16 Jun 2020 09:12:18: 14000000 INFO @ Tue, 16 Jun 2020 09:12:21: 23000000 INFO @ Tue, 16 Jun 2020 09:12:23: 18000000 INFO @ Tue, 16 Jun 2020 09:12:26: 15000000 INFO @ Tue, 16 Jun 2020 09:12:29: 24000000 INFO @ Tue, 16 Jun 2020 09:12:31: 19000000 INFO @ Tue, 16 Jun 2020 09:12:33: 16000000 INFO @ Tue, 16 Jun 2020 09:12:36: 25000000 INFO @ Tue, 16 Jun 2020 09:12:39: 20000000 INFO @ Tue, 16 Jun 2020 09:12:41: 17000000 INFO @ Tue, 16 Jun 2020 09:12:44: 26000000 INFO @ Tue, 16 Jun 2020 09:12:47: 21000000 INFO @ Tue, 16 Jun 2020 09:12:49: 18000000 INFO @ Tue, 16 Jun 2020 09:12:51: 27000000 INFO @ Tue, 16 Jun 2020 09:12:55: 22000000 INFO @ Tue, 16 Jun 2020 09:12:56: 19000000 INFO @ Tue, 16 Jun 2020 09:12:59: 28000000 INFO @ Tue, 16 Jun 2020 09:13:02: 23000000 INFO @ Tue, 16 Jun 2020 09:13:03: 20000000 INFO @ Tue, 16 Jun 2020 09:13:06: 29000000 INFO @ Tue, 16 Jun 2020 09:13:10: 24000000 INFO @ Tue, 16 Jun 2020 09:13:11: 21000000 INFO @ Tue, 16 Jun 2020 09:13:14: 30000000 INFO @ Tue, 16 Jun 2020 09:13:18: 25000000 INFO @ Tue, 16 Jun 2020 09:13:18: 22000000 INFO @ Tue, 16 Jun 2020 09:13:19: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:13:19: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:13:19: #1 total tags in treatment: 30615499 INFO @ Tue, 16 Jun 2020 09:13:19: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:13:19: #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 09:13:19: #1 tags after filtering in treatment: 30615499 INFO @ Tue, 16 Jun 2020 09:13:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:13:19: #1 finished! INFO @ Tue, 16 Jun 2020 09:13:19: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:13:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:13:21: #2 number of paired peaks: 59 WARNING @ Tue, 16 Jun 2020 09:13:21: Too few paired peaks (59) 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 09:13:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.05_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/SRX3583350/SRX3583350.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:13:25: 23000000 INFO @ Tue, 16 Jun 2020 09:13:25: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:13:33: 27000000 INFO @ Tue, 16 Jun 2020 09:13:33: 24000000 INFO @ Tue, 16 Jun 2020 09:13:41: 28000000 INFO @ Tue, 16 Jun 2020 09:13:41: 25000000 INFO @ Tue, 16 Jun 2020 09:13:48: 29000000 INFO @ Tue, 16 Jun 2020 09:13:48: 26000000 INFO @ Tue, 16 Jun 2020 09:13:56: 30000000 INFO @ Tue, 16 Jun 2020 09:13:56: 27000000 INFO @ Tue, 16 Jun 2020 09:14:01: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:14:01: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:14:01: #1 total tags in treatment: 30615499 INFO @ Tue, 16 Jun 2020 09:14:01: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:14:01: #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 09:14:01: #1 tags after filtering in treatment: 30615499 INFO @ Tue, 16 Jun 2020 09:14:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:14:01: #1 finished! INFO @ Tue, 16 Jun 2020 09:14:01: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:14:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:14:04: 28000000 INFO @ Tue, 16 Jun 2020 09:14:04: #2 number of paired peaks: 59 WARNING @ Tue, 16 Jun 2020 09:14:04: Too few paired peaks (59) 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 09:14:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.10_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/SRX3583350/SRX3583350.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:14:11: 29000000 INFO @ Tue, 16 Jun 2020 09:14:18: 30000000 INFO @ Tue, 16 Jun 2020 09:14:23: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:14:23: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:14:23: #1 total tags in treatment: 30615499 INFO @ Tue, 16 Jun 2020 09:14:23: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:14:23: #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 09:14:23: #1 tags after filtering in treatment: 30615499 INFO @ Tue, 16 Jun 2020 09:14:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:14:23: #1 finished! INFO @ Tue, 16 Jun 2020 09:14:23: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:14:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:14:26: #2 number of paired peaks: 59 WARNING @ Tue, 16 Jun 2020 09:14:26: Too few paired peaks (59) 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 09:14:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583350/SRX3583350.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。