Job ID = 6367625 SRX = SRX3583337 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:41:59 prefetch.2.10.7: 1) Downloading 'SRR6493993'... 2020-06-15T23:41:59 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:47:48 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:47:48 prefetch.2.10.7: 1) 'SRR6493993' was downloaded successfully 2020-06-15T23:47:48 prefetch.2.10.7: 'SRR6493993' has 0 unresolved dependencies Read 40124136 spots for SRR6493993/SRR6493993.sra Written 40124136 spots for SRR6493993/SRR6493993.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: 00:14:02 40124136 reads; of these: 40124136 (100.00%) were unpaired; of these: 2554954 (6.37%) aligned 0 times 32189972 (80.23%) aligned exactly 1 time 5379210 (13.41%) aligned >1 times 93.63% overall alignment rate Time searching: 00:14:02 Overall time: 00:14:02 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] 8014486 / 37569182 = 0.2133 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 09:13:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.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 09:13:34: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:13:34: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:13:41: 1000000 INFO @ Tue, 16 Jun 2020 09:13:48: 2000000 INFO @ Tue, 16 Jun 2020 09:13:55: 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 09:14:02: 4000000 INFO @ Tue, 16 Jun 2020 09:14:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.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 09:14:04: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:14:04: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:14:10: 5000000 INFO @ Tue, 16 Jun 2020 09:14:10: 1000000 INFO @ Tue, 16 Jun 2020 09:14:17: 2000000 INFO @ Tue, 16 Jun 2020 09:14:17: 6000000 INFO @ Tue, 16 Jun 2020 09:14:23: 3000000 INFO @ Tue, 16 Jun 2020 09:14:24: 7000000 INFO @ Tue, 16 Jun 2020 09:14:29: 4000000 INFO @ Tue, 16 Jun 2020 09:14:31: 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 09:14:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.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 09:14:34: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:14:34: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:14:36: 5000000 INFO @ Tue, 16 Jun 2020 09:14:39: 9000000 INFO @ Tue, 16 Jun 2020 09:14:41: 1000000 INFO @ Tue, 16 Jun 2020 09:14:42: 6000000 INFO @ Tue, 16 Jun 2020 09:14:46: 10000000 INFO @ Tue, 16 Jun 2020 09:14:48: 2000000 INFO @ Tue, 16 Jun 2020 09:14:48: 7000000 INFO @ Tue, 16 Jun 2020 09:14:53: 11000000 INFO @ Tue, 16 Jun 2020 09:14:54: 8000000 INFO @ Tue, 16 Jun 2020 09:14:55: 3000000 INFO @ Tue, 16 Jun 2020 09:15:01: 12000000 INFO @ Tue, 16 Jun 2020 09:15:01: 9000000 INFO @ Tue, 16 Jun 2020 09:15:01: 4000000 INFO @ Tue, 16 Jun 2020 09:15:07: 10000000 INFO @ Tue, 16 Jun 2020 09:15:08: 13000000 INFO @ Tue, 16 Jun 2020 09:15:08: 5000000 INFO @ Tue, 16 Jun 2020 09:15:13: 11000000 INFO @ Tue, 16 Jun 2020 09:15:15: 6000000 INFO @ Tue, 16 Jun 2020 09:15:15: 14000000 INFO @ Tue, 16 Jun 2020 09:15:19: 12000000 INFO @ Tue, 16 Jun 2020 09:15:21: 7000000 INFO @ Tue, 16 Jun 2020 09:15:22: 15000000 INFO @ Tue, 16 Jun 2020 09:15:26: 13000000 INFO @ Tue, 16 Jun 2020 09:15:28: 8000000 INFO @ Tue, 16 Jun 2020 09:15:29: 16000000 INFO @ Tue, 16 Jun 2020 09:15:32: 14000000 INFO @ Tue, 16 Jun 2020 09:15:34: 9000000 INFO @ Tue, 16 Jun 2020 09:15:36: 17000000 INFO @ Tue, 16 Jun 2020 09:15:38: 15000000 INFO @ Tue, 16 Jun 2020 09:15:41: 10000000 INFO @ Tue, 16 Jun 2020 09:15:44: 18000000 INFO @ Tue, 16 Jun 2020 09:15:45: 16000000 INFO @ Tue, 16 Jun 2020 09:15:48: 11000000 INFO @ Tue, 16 Jun 2020 09:15:51: 19000000 INFO @ Tue, 16 Jun 2020 09:15:51: 17000000 INFO @ Tue, 16 Jun 2020 09:15:55: 12000000 INFO @ Tue, 16 Jun 2020 09:15:57: 18000000 INFO @ Tue, 16 Jun 2020 09:15:58: 20000000 INFO @ Tue, 16 Jun 2020 09:16:02: 13000000 INFO @ Tue, 16 Jun 2020 09:16:03: 19000000 INFO @ Tue, 16 Jun 2020 09:16:05: 21000000 INFO @ Tue, 16 Jun 2020 09:16:09: 14000000 INFO @ Tue, 16 Jun 2020 09:16:10: 20000000 INFO @ Tue, 16 Jun 2020 09:16:12: 22000000 INFO @ Tue, 16 Jun 2020 09:16:16: 15000000 INFO @ Tue, 16 Jun 2020 09:16:16: 21000000 INFO @ Tue, 16 Jun 2020 09:16:19: 23000000 INFO @ Tue, 16 Jun 2020 09:16:22: 22000000 INFO @ Tue, 16 Jun 2020 09:16:23: 16000000 INFO @ Tue, 16 Jun 2020 09:16:26: 24000000 INFO @ Tue, 16 Jun 2020 09:16:28: 23000000 INFO @ Tue, 16 Jun 2020 09:16:31: 17000000 INFO @ Tue, 16 Jun 2020 09:16:32: 25000000 INFO @ Tue, 16 Jun 2020 09:16:34: 24000000 INFO @ Tue, 16 Jun 2020 09:16:39: 18000000 INFO @ Tue, 16 Jun 2020 09:16:39: 26000000 INFO @ Tue, 16 Jun 2020 09:16:41: 25000000 INFO @ Tue, 16 Jun 2020 09:16:46: 19000000 INFO @ Tue, 16 Jun 2020 09:16:46: 27000000 INFO @ Tue, 16 Jun 2020 09:16:47: 26000000 INFO @ Tue, 16 Jun 2020 09:16:53: 27000000 INFO @ Tue, 16 Jun 2020 09:16:53: 28000000 INFO @ Tue, 16 Jun 2020 09:16:54: 20000000 INFO @ Tue, 16 Jun 2020 09:16:59: 28000000 INFO @ Tue, 16 Jun 2020 09:17:00: 29000000 INFO @ Tue, 16 Jun 2020 09:17:01: 21000000 INFO @ Tue, 16 Jun 2020 09:17:04: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:17:04: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:17:04: #1 total tags in treatment: 29554696 INFO @ Tue, 16 Jun 2020 09:17:04: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:17:04: #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 09:17:05: #1 tags after filtering in treatment: 29554696 INFO @ Tue, 16 Jun 2020 09:17:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:17:05: #1 finished! INFO @ Tue, 16 Jun 2020 09:17:05: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:17:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:17:05: 29000000 INFO @ Tue, 16 Jun 2020 09:17:07: #2 number of paired peaks: 48 WARNING @ Tue, 16 Jun 2020 09:17:07: Too few paired peaks (48) 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 09:17:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.05_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/SRX3583337/SRX3583337.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:17:08: 22000000 INFO @ Tue, 16 Jun 2020 09:17:09: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:17:09: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:17:09: #1 total tags in treatment: 29554696 INFO @ Tue, 16 Jun 2020 09:17:09: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:17:09: #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 09:17:10: #1 tags after filtering in treatment: 29554696 INFO @ Tue, 16 Jun 2020 09:17:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:17:10: #1 finished! INFO @ Tue, 16 Jun 2020 09:17:10: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:17:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:17:12: #2 number of paired peaks: 48 WARNING @ Tue, 16 Jun 2020 09:17:12: Too few paired peaks (48) 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 09:17:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.10_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/SRX3583337/SRX3583337.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:17:15: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:17:22: 24000000 INFO @ Tue, 16 Jun 2020 09:17:29: 25000000 INFO @ Tue, 16 Jun 2020 09:17:36: 26000000 INFO @ Tue, 16 Jun 2020 09:17:43: 27000000 INFO @ Tue, 16 Jun 2020 09:17:49: 28000000 INFO @ Tue, 16 Jun 2020 09:17:56: 29000000 INFO @ Tue, 16 Jun 2020 09:18:00: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:18:00: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:18:00: #1 total tags in treatment: 29554696 INFO @ Tue, 16 Jun 2020 09:18:00: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:18:00: #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 09:18:00: #1 tags after filtering in treatment: 29554696 INFO @ Tue, 16 Jun 2020 09:18:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:18:00: #1 finished! INFO @ Tue, 16 Jun 2020 09:18:00: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:18:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:18:02: #2 number of paired peaks: 48 WARNING @ Tue, 16 Jun 2020 09:18:02: Too few paired peaks (48) 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 09:18:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.20_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/SRX3583337/SRX3583337.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583337/SRX3583337.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。