Job ID = 6367632 SRX = SRX3583344 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:29:05 prefetch.2.10.7: 1) Downloading 'SRR6494000'... 2020-06-15T23:29:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:35:18 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:35:18 prefetch.2.10.7: 1) 'SRR6494000' was downloaded successfully 2020-06-15T23:35:18 prefetch.2.10.7: 'SRR6494000' has 0 unresolved dependencies Read 39684890 spots for SRR6494000/SRR6494000.sra Written 39684890 spots for SRR6494000/SRR6494000.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: 00:13:35 39684890 reads; of these: 39684890 (100.00%) were unpaired; of these: 1804664 (4.55%) aligned 0 times 31738510 (79.98%) aligned exactly 1 time 6141716 (15.48%) aligned >1 times 95.45% overall alignment rate Time searching: 00:13:35 Overall time: 00:13:35 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] 7303606 / 37880226 = 0.1928 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 08:59:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.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 08:59:33: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:59:33: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:59:39: 1000000 INFO @ Tue, 16 Jun 2020 08:59:44: 2000000 INFO @ Tue, 16 Jun 2020 08:59:49: 3000000 INFO @ Tue, 16 Jun 2020 08:59:54: 4000000 INFO @ Tue, 16 Jun 2020 08:59:59: 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, 16 Jun 2020 09:00:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.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 09:00:03: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:00:03: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:00:04: 6000000 INFO @ Tue, 16 Jun 2020 09:00:09: 1000000 INFO @ Tue, 16 Jun 2020 09:00:09: 7000000 INFO @ Tue, 16 Jun 2020 09:00:15: 2000000 INFO @ Tue, 16 Jun 2020 09:00:15: 8000000 INFO @ Tue, 16 Jun 2020 09:00:21: 9000000 INFO @ Tue, 16 Jun 2020 09:00:21: 3000000 INFO @ Tue, 16 Jun 2020 09:00:26: 10000000 INFO @ Tue, 16 Jun 2020 09:00:27: 4000000 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 09:00:31: 11000000 INFO @ Tue, 16 Jun 2020 09:00:33: 5000000 INFO @ Tue, 16 Jun 2020 09:00:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.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 09:00:33: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:00:33: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:00:37: 12000000 INFO @ Tue, 16 Jun 2020 09:00:38: 1000000 INFO @ Tue, 16 Jun 2020 09:00:39: 6000000 INFO @ Tue, 16 Jun 2020 09:00:42: 13000000 INFO @ Tue, 16 Jun 2020 09:00:44: 2000000 INFO @ Tue, 16 Jun 2020 09:00:45: 7000000 INFO @ Tue, 16 Jun 2020 09:00:47: 14000000 INFO @ Tue, 16 Jun 2020 09:00:49: 3000000 INFO @ Tue, 16 Jun 2020 09:00:51: 8000000 INFO @ Tue, 16 Jun 2020 09:00:52: 15000000 INFO @ Tue, 16 Jun 2020 09:00:54: 4000000 INFO @ Tue, 16 Jun 2020 09:00:57: 9000000 INFO @ Tue, 16 Jun 2020 09:00:57: 16000000 INFO @ Tue, 16 Jun 2020 09:00:59: 5000000 INFO @ Tue, 16 Jun 2020 09:01:03: 17000000 INFO @ Tue, 16 Jun 2020 09:01:04: 10000000 INFO @ Tue, 16 Jun 2020 09:01:04: 6000000 INFO @ Tue, 16 Jun 2020 09:01:08: 18000000 INFO @ Tue, 16 Jun 2020 09:01:10: 11000000 INFO @ Tue, 16 Jun 2020 09:01:10: 7000000 INFO @ Tue, 16 Jun 2020 09:01:13: 19000000 INFO @ Tue, 16 Jun 2020 09:01:15: 8000000 INFO @ Tue, 16 Jun 2020 09:01:16: 12000000 INFO @ Tue, 16 Jun 2020 09:01:18: 20000000 INFO @ Tue, 16 Jun 2020 09:01:20: 9000000 INFO @ Tue, 16 Jun 2020 09:01:22: 13000000 INFO @ Tue, 16 Jun 2020 09:01:23: 21000000 INFO @ Tue, 16 Jun 2020 09:01:25: 10000000 INFO @ Tue, 16 Jun 2020 09:01:28: 14000000 INFO @ Tue, 16 Jun 2020 09:01:28: 22000000 INFO @ Tue, 16 Jun 2020 09:01:30: 11000000 INFO @ Tue, 16 Jun 2020 09:01:34: 23000000 INFO @ Tue, 16 Jun 2020 09:01:34: 15000000 INFO @ Tue, 16 Jun 2020 09:01:36: 12000000 INFO @ Tue, 16 Jun 2020 09:01:39: 24000000 INFO @ Tue, 16 Jun 2020 09:01:40: 16000000 INFO @ Tue, 16 Jun 2020 09:01:41: 13000000 INFO @ Tue, 16 Jun 2020 09:01:44: 25000000 INFO @ Tue, 16 Jun 2020 09:01:46: 17000000 INFO @ Tue, 16 Jun 2020 09:01:46: 14000000 INFO @ Tue, 16 Jun 2020 09:01:50: 26000000 INFO @ Tue, 16 Jun 2020 09:01:51: 15000000 INFO @ Tue, 16 Jun 2020 09:01:52: 18000000 INFO @ Tue, 16 Jun 2020 09:01:55: 27000000 INFO @ Tue, 16 Jun 2020 09:01:56: 16000000 INFO @ Tue, 16 Jun 2020 09:01:58: 19000000 INFO @ Tue, 16 Jun 2020 09:02:00: 28000000 INFO @ Tue, 16 Jun 2020 09:02:01: 17000000 INFO @ Tue, 16 Jun 2020 09:02:03: 20000000 INFO @ Tue, 16 Jun 2020 09:02:05: 29000000 INFO @ Tue, 16 Jun 2020 09:02:06: 18000000 INFO @ Tue, 16 Jun 2020 09:02:09: 21000000 INFO @ Tue, 16 Jun 2020 09:02:10: 30000000 INFO @ Tue, 16 Jun 2020 09:02:11: 19000000 INFO @ Tue, 16 Jun 2020 09:02:14: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:02:14: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:02:14: #1 total tags in treatment: 30576620 INFO @ Tue, 16 Jun 2020 09:02:14: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:02:14: #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 09:02:14: #1 tags after filtering in treatment: 30576620 INFO @ Tue, 16 Jun 2020 09:02:14: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:02:14: #1 finished! INFO @ Tue, 16 Jun 2020 09:02:14: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:02:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:02:15: 22000000 INFO @ Tue, 16 Jun 2020 09:02:16: #2 number of paired peaks: 59 WARNING @ Tue, 16 Jun 2020 09:02:16: 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 09:02:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.05_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/SRX3583344/SRX3583344.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:02:17: 20000000 INFO @ Tue, 16 Jun 2020 09:02:21: 23000000 INFO @ Tue, 16 Jun 2020 09:02:22: 21000000 INFO @ Tue, 16 Jun 2020 09:02:27: 22000000 INFO @ Tue, 16 Jun 2020 09:02:27: 24000000 INFO @ Tue, 16 Jun 2020 09:02:32: 23000000 INFO @ Tue, 16 Jun 2020 09:02:33: 25000000 INFO @ Tue, 16 Jun 2020 09:02:37: 24000000 INFO @ Tue, 16 Jun 2020 09:02:40: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:02:42: 25000000 INFO @ Tue, 16 Jun 2020 09:02:46: 27000000 INFO @ Tue, 16 Jun 2020 09:02:47: 26000000 INFO @ Tue, 16 Jun 2020 09:02:52: 28000000 INFO @ Tue, 16 Jun 2020 09:02:52: 27000000 INFO @ Tue, 16 Jun 2020 09:02:58: 28000000 INFO @ Tue, 16 Jun 2020 09:02:58: 29000000 INFO @ Tue, 16 Jun 2020 09:03:03: 29000000 INFO @ Tue, 16 Jun 2020 09:03:04: 30000000 INFO @ Tue, 16 Jun 2020 09:03:07: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:03:07: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:03:07: #1 total tags in treatment: 30576620 INFO @ Tue, 16 Jun 2020 09:03:07: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:03:07: #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 09:03:08: 30000000 INFO @ Tue, 16 Jun 2020 09:03:08: #1 tags after filtering in treatment: 30576620 INFO @ Tue, 16 Jun 2020 09:03:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:03:08: #1 finished! INFO @ Tue, 16 Jun 2020 09:03:08: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:03:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:03:10: #2 number of paired peaks: 59 WARNING @ Tue, 16 Jun 2020 09:03:10: 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 09:03:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.10_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/SRX3583344/SRX3583344.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:03:11: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:03:11: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:03:11: #1 total tags in treatment: 30576620 INFO @ Tue, 16 Jun 2020 09:03:11: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:03:11: #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 09:03:11: #1 tags after filtering in treatment: 30576620 INFO @ Tue, 16 Jun 2020 09:03:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:03:11: #1 finished! INFO @ Tue, 16 Jun 2020 09:03:11: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:03:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:03:13: #2 number of paired peaks: 59 WARNING @ Tue, 16 Jun 2020 09:03:13: 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 09:03:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.20_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/SRX3583344/SRX3583344.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583344/SRX3583344.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。