Job ID = 6367642 SRX = SRX3583353 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:43:14 prefetch.2.10.7: 1) Downloading 'SRR6494009'... 2020-06-15T23:43:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:48:47 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:48:47 prefetch.2.10.7: 1) 'SRR6494009' was downloaded successfully 2020-06-15T23:48:47 prefetch.2.10.7: 'SRR6494009' has 0 unresolved dependencies Read 33116848 spots for SRR6494009/SRR6494009.sra Written 33116848 spots for SRR6494009/SRR6494009.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: 00:12:38 33116848 reads; of these: 33116848 (100.00%) were unpaired; of these: 679349 (2.05%) aligned 0 times 27018015 (81.58%) aligned exactly 1 time 5419484 (16.36%) aligned >1 times 97.95% overall alignment rate Time searching: 00:12:38 Overall time: 00:12:38 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] 4672230 / 32437499 = 0.1440 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 09:13:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.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 09:13:18: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:13:18: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:13:26: 1000000 INFO @ Tue, 16 Jun 2020 09:13:34: 2000000 INFO @ Tue, 16 Jun 2020 09:13:42: 3000000 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 09:13:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.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 09:13:48: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:13:48: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:13:50: 4000000 INFO @ Tue, 16 Jun 2020 09:13:56: 1000000 INFO @ Tue, 16 Jun 2020 09:13:59: 5000000 INFO @ Tue, 16 Jun 2020 09:14:04: 2000000 INFO @ Tue, 16 Jun 2020 09:14:07: 6000000 INFO @ Tue, 16 Jun 2020 09:14:12: 3000000 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 09:14:16: 7000000 INFO @ Tue, 16 Jun 2020 09:14:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.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 09:14:18: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:14:18: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:14:20: 4000000 INFO @ Tue, 16 Jun 2020 09:14:25: 8000000 INFO @ Tue, 16 Jun 2020 09:14:26: 1000000 INFO @ Tue, 16 Jun 2020 09:14:28: 5000000 INFO @ Tue, 16 Jun 2020 09:14:33: 9000000 INFO @ Tue, 16 Jun 2020 09:14:34: 2000000 INFO @ Tue, 16 Jun 2020 09:14:36: 6000000 INFO @ Tue, 16 Jun 2020 09:14:42: 3000000 INFO @ Tue, 16 Jun 2020 09:14:42: 10000000 INFO @ Tue, 16 Jun 2020 09:14:44: 7000000 INFO @ Tue, 16 Jun 2020 09:14:50: 4000000 INFO @ Tue, 16 Jun 2020 09:14:51: 11000000 INFO @ Tue, 16 Jun 2020 09:14:52: 8000000 INFO @ Tue, 16 Jun 2020 09:14:58: 5000000 INFO @ Tue, 16 Jun 2020 09:14:59: 12000000 INFO @ Tue, 16 Jun 2020 09:15:00: 9000000 INFO @ Tue, 16 Jun 2020 09:15:06: 6000000 INFO @ Tue, 16 Jun 2020 09:15:08: 13000000 INFO @ Tue, 16 Jun 2020 09:15:08: 10000000 INFO @ Tue, 16 Jun 2020 09:15:14: 7000000 INFO @ Tue, 16 Jun 2020 09:15:16: 11000000 INFO @ Tue, 16 Jun 2020 09:15:16: 14000000 INFO @ Tue, 16 Jun 2020 09:15:23: 8000000 INFO @ Tue, 16 Jun 2020 09:15:24: 12000000 INFO @ Tue, 16 Jun 2020 09:15:25: 15000000 INFO @ Tue, 16 Jun 2020 09:15:31: 9000000 INFO @ Tue, 16 Jun 2020 09:15:32: 13000000 INFO @ Tue, 16 Jun 2020 09:15:34: 16000000 INFO @ Tue, 16 Jun 2020 09:15:39: 10000000 INFO @ Tue, 16 Jun 2020 09:15:40: 14000000 INFO @ Tue, 16 Jun 2020 09:15:43: 17000000 INFO @ Tue, 16 Jun 2020 09:15:48: 11000000 INFO @ Tue, 16 Jun 2020 09:15:49: 15000000 INFO @ Tue, 16 Jun 2020 09:15:52: 18000000 INFO @ Tue, 16 Jun 2020 09:15:56: 12000000 INFO @ Tue, 16 Jun 2020 09:15:57: 16000000 INFO @ Tue, 16 Jun 2020 09:16:00: 19000000 INFO @ Tue, 16 Jun 2020 09:16:04: 13000000 INFO @ Tue, 16 Jun 2020 09:16:05: 17000000 INFO @ Tue, 16 Jun 2020 09:16:09: 20000000 INFO @ Tue, 16 Jun 2020 09:16:12: 14000000 INFO @ Tue, 16 Jun 2020 09:16:13: 18000000 INFO @ Tue, 16 Jun 2020 09:16:18: 21000000 INFO @ Tue, 16 Jun 2020 09:16:20: 15000000 INFO @ Tue, 16 Jun 2020 09:16:21: 19000000 INFO @ Tue, 16 Jun 2020 09:16:26: 22000000 INFO @ Tue, 16 Jun 2020 09:16:28: 16000000 INFO @ Tue, 16 Jun 2020 09:16:29: 20000000 INFO @ Tue, 16 Jun 2020 09:16:35: 23000000 INFO @ Tue, 16 Jun 2020 09:16:36: 17000000 INFO @ Tue, 16 Jun 2020 09:16:37: 21000000 INFO @ Tue, 16 Jun 2020 09:16:44: 24000000 INFO @ Tue, 16 Jun 2020 09:16:44: 18000000 INFO @ Tue, 16 Jun 2020 09:16:45: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:16:53: 19000000 INFO @ Tue, 16 Jun 2020 09:16:53: 25000000 INFO @ Tue, 16 Jun 2020 09:16:53: 23000000 INFO @ Tue, 16 Jun 2020 09:17:01: 20000000 INFO @ Tue, 16 Jun 2020 09:17:01: 24000000 INFO @ Tue, 16 Jun 2020 09:17:02: 26000000 INFO @ Tue, 16 Jun 2020 09:17:09: 21000000 INFO @ Tue, 16 Jun 2020 09:17:09: 25000000 INFO @ Tue, 16 Jun 2020 09:17:10: 27000000 INFO @ Tue, 16 Jun 2020 09:17:16: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:17:16: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:17:16: #1 total tags in treatment: 27765269 INFO @ Tue, 16 Jun 2020 09:17:16: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:17:16: #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 09:17:17: 22000000 INFO @ Tue, 16 Jun 2020 09:17:17: #1 tags after filtering in treatment: 27765269 INFO @ Tue, 16 Jun 2020 09:17:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:17:17: #1 finished! INFO @ Tue, 16 Jun 2020 09:17:17: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:17:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:17:17: 26000000 INFO @ Tue, 16 Jun 2020 09:17:19: #2 number of paired peaks: 77 WARNING @ Tue, 16 Jun 2020 09:17:19: 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, 16 Jun 2020 09:17:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.05_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/SRX3583353/SRX3583353.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:17:24: 27000000 INFO @ Tue, 16 Jun 2020 09:17:25: 23000000 INFO @ Tue, 16 Jun 2020 09:17:30: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:17:30: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:17:30: #1 total tags in treatment: 27765269 INFO @ Tue, 16 Jun 2020 09:17:30: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:17:30: #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 09:17:30: #1 tags after filtering in treatment: 27765269 INFO @ Tue, 16 Jun 2020 09:17:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:17:30: #1 finished! INFO @ Tue, 16 Jun 2020 09:17:30: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:17:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:17:32: 24000000 INFO @ Tue, 16 Jun 2020 09:17:32: #2 number of paired peaks: 77 WARNING @ Tue, 16 Jun 2020 09:17:32: 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, 16 Jun 2020 09:17:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:17:39: 25000000 INFO @ Tue, 16 Jun 2020 09:17:45: 26000000 INFO @ Tue, 16 Jun 2020 09:17:52: 27000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:17:57: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:17:57: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:17:57: #1 total tags in treatment: 27765269 INFO @ Tue, 16 Jun 2020 09:17:57: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:17:57: #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 09:17:58: #1 tags after filtering in treatment: 27765269 INFO @ Tue, 16 Jun 2020 09:17:58: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:17:58: #1 finished! INFO @ Tue, 16 Jun 2020 09:17:58: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:17:58: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:18:00: #2 number of paired peaks: 77 WARNING @ Tue, 16 Jun 2020 09:18:00: 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, 16 Jun 2020 09:18:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.20_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/SRX3583353/SRX3583353.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583353/SRX3583353.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling