Job ID = 6367641 SRX = SRX3583352 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:33:05 prefetch.2.10.7: 1) Downloading 'SRR6494008'... 2020-06-15T23:33:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:40:43 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:40:43 prefetch.2.10.7: 1) 'SRR6494008' was downloaded successfully 2020-06-15T23:40:43 prefetch.2.10.7: 'SRR6494008' has 0 unresolved dependencies Read 34339953 spots for SRR6494008/SRR6494008.sra Written 34339953 spots for SRR6494008/SRR6494008.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: 00:11:49 34339953 reads; of these: 34339953 (100.00%) were unpaired; of these: 656246 (1.91%) aligned 0 times 28083623 (81.78%) aligned exactly 1 time 5600084 (16.31%) aligned >1 times 98.09% overall alignment rate Time searching: 00:11:49 Overall time: 00:11:49 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] 4853508 / 33683707 = 0.1441 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 09:03:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.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 09:03:22: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:03:22: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:03:30: 1000000 INFO @ Tue, 16 Jun 2020 09:03:37: 2000000 INFO @ Tue, 16 Jun 2020 09:03:44: 3000000 INFO @ Tue, 16 Jun 2020 09:03:51: 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 09:03:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.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 09:03:52: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:03:52: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:03:58: 5000000 INFO @ Tue, 16 Jun 2020 09:04:00: 1000000 INFO @ Tue, 16 Jun 2020 09:04:05: 6000000 INFO @ Tue, 16 Jun 2020 09:04:07: 2000000 INFO @ Tue, 16 Jun 2020 09:04:12: 7000000 INFO @ Tue, 16 Jun 2020 09:04:15: 3000000 INFO @ Tue, 16 Jun 2020 09:04:20: 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 09:04:22: 4000000 INFO @ Tue, 16 Jun 2020 09:04:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.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 09:04:22: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:04:22: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:04:27: 9000000 INFO @ Tue, 16 Jun 2020 09:04:29: 5000000 INFO @ Tue, 16 Jun 2020 09:04:31: 1000000 INFO @ Tue, 16 Jun 2020 09:04:35: 10000000 INFO @ Tue, 16 Jun 2020 09:04:36: 6000000 INFO @ Tue, 16 Jun 2020 09:04:39: 2000000 INFO @ Tue, 16 Jun 2020 09:04:42: 11000000 INFO @ Tue, 16 Jun 2020 09:04:43: 7000000 INFO @ Tue, 16 Jun 2020 09:04:47: 3000000 INFO @ Tue, 16 Jun 2020 09:04:50: 12000000 INFO @ Tue, 16 Jun 2020 09:04:51: 8000000 INFO @ Tue, 16 Jun 2020 09:04:55: 4000000 INFO @ Tue, 16 Jun 2020 09:04:57: 13000000 INFO @ Tue, 16 Jun 2020 09:04:59: 9000000 INFO @ Tue, 16 Jun 2020 09:05:04: 5000000 INFO @ Tue, 16 Jun 2020 09:05:05: 14000000 INFO @ Tue, 16 Jun 2020 09:05:07: 10000000 INFO @ Tue, 16 Jun 2020 09:05:12: 6000000 INFO @ Tue, 16 Jun 2020 09:05:13: 15000000 INFO @ Tue, 16 Jun 2020 09:05:14: 11000000 INFO @ Tue, 16 Jun 2020 09:05:20: 7000000 INFO @ Tue, 16 Jun 2020 09:05:21: 16000000 INFO @ Tue, 16 Jun 2020 09:05:22: 12000000 INFO @ Tue, 16 Jun 2020 09:05:29: 17000000 INFO @ Tue, 16 Jun 2020 09:05:29: 8000000 INFO @ Tue, 16 Jun 2020 09:05:30: 13000000 INFO @ Tue, 16 Jun 2020 09:05:37: 18000000 INFO @ Tue, 16 Jun 2020 09:05:38: 9000000 INFO @ Tue, 16 Jun 2020 09:05:38: 14000000 INFO @ Tue, 16 Jun 2020 09:05:45: 19000000 INFO @ Tue, 16 Jun 2020 09:05:46: 15000000 INFO @ Tue, 16 Jun 2020 09:05:47: 10000000 INFO @ Tue, 16 Jun 2020 09:05:52: 20000000 INFO @ Tue, 16 Jun 2020 09:05:54: 16000000 INFO @ Tue, 16 Jun 2020 09:05:55: 11000000 INFO @ Tue, 16 Jun 2020 09:06:00: 21000000 INFO @ Tue, 16 Jun 2020 09:06:01: 17000000 INFO @ Tue, 16 Jun 2020 09:06:04: 12000000 INFO @ Tue, 16 Jun 2020 09:06:08: 22000000 INFO @ Tue, 16 Jun 2020 09:06:09: 18000000 INFO @ Tue, 16 Jun 2020 09:06:12: 13000000 INFO @ Tue, 16 Jun 2020 09:06:16: 23000000 INFO @ Tue, 16 Jun 2020 09:06:17: 19000000 INFO @ Tue, 16 Jun 2020 09:06:21: 14000000 INFO @ Tue, 16 Jun 2020 09:06:23: 24000000 INFO @ Tue, 16 Jun 2020 09:06:25: 20000000 INFO @ Tue, 16 Jun 2020 09:06:29: 15000000 INFO @ Tue, 16 Jun 2020 09:06:31: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:06:33: 21000000 INFO @ Tue, 16 Jun 2020 09:06:37: 16000000 INFO @ Tue, 16 Jun 2020 09:06:39: 26000000 INFO @ Tue, 16 Jun 2020 09:06:40: 22000000 INFO @ Tue, 16 Jun 2020 09:06:46: 17000000 INFO @ Tue, 16 Jun 2020 09:06:46: 27000000 INFO @ Tue, 16 Jun 2020 09:06:48: 23000000 INFO @ Tue, 16 Jun 2020 09:06:54: 28000000 INFO @ Tue, 16 Jun 2020 09:06:54: 18000000 INFO @ Tue, 16 Jun 2020 09:06:56: 24000000 INFO @ Tue, 16 Jun 2020 09:07:00: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:07:00: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:07:00: #1 total tags in treatment: 28830199 INFO @ Tue, 16 Jun 2020 09:07:00: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:07:00: #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 09:07:01: #1 tags after filtering in treatment: 28830199 INFO @ Tue, 16 Jun 2020 09:07:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:07:01: #1 finished! INFO @ Tue, 16 Jun 2020 09:07:01: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:07:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:07:03: #2 number of paired peaks: 68 WARNING @ Tue, 16 Jun 2020 09:07:03: Too few paired peaks (68) 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 09:07:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.05_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/SRX3583352/SRX3583352.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:07:03: 19000000 INFO @ Tue, 16 Jun 2020 09:07:03: 25000000 INFO @ Tue, 16 Jun 2020 09:07:10: 26000000 INFO @ Tue, 16 Jun 2020 09:07:11: 20000000 INFO @ Tue, 16 Jun 2020 09:07:17: 27000000 INFO @ Tue, 16 Jun 2020 09:07:19: 21000000 INFO @ Tue, 16 Jun 2020 09:07:24: 28000000 INFO @ Tue, 16 Jun 2020 09:07:28: 22000000 INFO @ Tue, 16 Jun 2020 09:07:30: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:07:30: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:07:30: #1 total tags in treatment: 28830199 INFO @ Tue, 16 Jun 2020 09:07:30: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:07:30: #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 09:07:31: #1 tags after filtering in treatment: 28830199 INFO @ Tue, 16 Jun 2020 09:07:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:07:31: #1 finished! INFO @ Tue, 16 Jun 2020 09:07:31: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:07:31: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:07:33: #2 number of paired peaks: 68 WARNING @ Tue, 16 Jun 2020 09:07:33: Too few paired peaks (68) 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 09:07:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.10_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/SRX3583352/SRX3583352.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:07:35: 23000000 INFO @ Tue, 16 Jun 2020 09:07:43: 24000000 INFO @ Tue, 16 Jun 2020 09:07:50: 25000000 INFO @ Tue, 16 Jun 2020 09:07:57: 26000000 INFO @ Tue, 16 Jun 2020 09:08:04: 27000000 INFO @ Tue, 16 Jun 2020 09:08:11: 28000000 INFO @ Tue, 16 Jun 2020 09:08:16: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:08:16: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:08:16: #1 total tags in treatment: 28830199 INFO @ Tue, 16 Jun 2020 09:08:16: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:08:16: #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 09:08:17: #1 tags after filtering in treatment: 28830199 INFO @ Tue, 16 Jun 2020 09:08:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:08:17: #1 finished! INFO @ Tue, 16 Jun 2020 09:08:17: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:08:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:08:19: #2 number of paired peaks: 68 WARNING @ Tue, 16 Jun 2020 09:08:19: Too few paired peaks (68) 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 09:08:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.20_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/SRX3583352/SRX3583352.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583352/SRX3583352.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling