Job ID = 6367633 SRX = SRX3583345 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:30:50 prefetch.2.10.7: 1) Downloading 'SRR6494001'... 2020-06-15T23:30:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:40:08 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:40:08 prefetch.2.10.7: 1) 'SRR6494001' was downloaded successfully 2020-06-15T23:40:08 prefetch.2.10.7: 'SRR6494001' has 0 unresolved dependencies Read 43168615 spots for SRR6494001/SRR6494001.sra Written 43168615 spots for SRR6494001/SRR6494001.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: 00:14:22 43168615 reads; of these: 43168615 (100.00%) were unpaired; of these: 1738026 (4.03%) aligned 0 times 34749181 (80.50%) aligned exactly 1 time 6681408 (15.48%) aligned >1 times 95.97% overall alignment rate Time searching: 00:14:22 Overall time: 00:14:22 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 20 files... [bam_rmdupse_core] 10603853 / 41430589 = 0.2559 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 09:05:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.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 09:05:52: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:05:52: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:06:00: 1000000 INFO @ Tue, 16 Jun 2020 09:06:08: 2000000 INFO @ Tue, 16 Jun 2020 09:06:16: 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 09:06:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.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 09:06:22: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:06:22: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:06:24: 4000000 INFO @ Tue, 16 Jun 2020 09:06:30: 1000000 INFO @ Tue, 16 Jun 2020 09:06:32: 5000000 INFO @ Tue, 16 Jun 2020 09:06:39: 2000000 INFO @ Tue, 16 Jun 2020 09:06:41: 6000000 INFO @ Tue, 16 Jun 2020 09:06:47: 3000000 INFO @ Tue, 16 Jun 2020 09:06:49: 7000000 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 09:06:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.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 09:06:54: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:06:54: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:06:56: 4000000 INFO @ Tue, 16 Jun 2020 09:06:58: 8000000 INFO @ Tue, 16 Jun 2020 09:07:01: 1000000 INFO @ Tue, 16 Jun 2020 09:07:04: 5000000 INFO @ Tue, 16 Jun 2020 09:07:06: 9000000 INFO @ Tue, 16 Jun 2020 09:07:09: 2000000 INFO @ Tue, 16 Jun 2020 09:07:13: 6000000 INFO @ Tue, 16 Jun 2020 09:07:15: 10000000 INFO @ Tue, 16 Jun 2020 09:07:16: 3000000 INFO @ Tue, 16 Jun 2020 09:07:21: 7000000 INFO @ Tue, 16 Jun 2020 09:07:23: 4000000 INFO @ Tue, 16 Jun 2020 09:07:24: 11000000 INFO @ Tue, 16 Jun 2020 09:07:30: 8000000 INFO @ Tue, 16 Jun 2020 09:07:31: 5000000 INFO @ Tue, 16 Jun 2020 09:07:32: 12000000 INFO @ Tue, 16 Jun 2020 09:07:38: 9000000 INFO @ Tue, 16 Jun 2020 09:07:39: 6000000 INFO @ Tue, 16 Jun 2020 09:07:41: 13000000 INFO @ Tue, 16 Jun 2020 09:07:46: 7000000 INFO @ Tue, 16 Jun 2020 09:07:47: 10000000 INFO @ Tue, 16 Jun 2020 09:07:50: 14000000 INFO @ Tue, 16 Jun 2020 09:07:54: 8000000 INFO @ Tue, 16 Jun 2020 09:07:55: 11000000 INFO @ Tue, 16 Jun 2020 09:07:58: 15000000 INFO @ Tue, 16 Jun 2020 09:08:01: 9000000 INFO @ Tue, 16 Jun 2020 09:08:04: 12000000 INFO @ Tue, 16 Jun 2020 09:08:07: 16000000 INFO @ Tue, 16 Jun 2020 09:08:09: 10000000 INFO @ Tue, 16 Jun 2020 09:08:13: 13000000 INFO @ Tue, 16 Jun 2020 09:08:16: 17000000 INFO @ Tue, 16 Jun 2020 09:08:17: 11000000 INFO @ Tue, 16 Jun 2020 09:08:21: 14000000 INFO @ Tue, 16 Jun 2020 09:08:25: 12000000 INFO @ Tue, 16 Jun 2020 09:08:25: 18000000 INFO @ Tue, 16 Jun 2020 09:08:30: 15000000 INFO @ Tue, 16 Jun 2020 09:08:32: 13000000 INFO @ Tue, 16 Jun 2020 09:08:34: 19000000 INFO @ Tue, 16 Jun 2020 09:08:39: 16000000 INFO @ Tue, 16 Jun 2020 09:08:40: 14000000 INFO @ Tue, 16 Jun 2020 09:08:43: 20000000 INFO @ Tue, 16 Jun 2020 09:08:48: 15000000 INFO @ Tue, 16 Jun 2020 09:08:48: 17000000 INFO @ Tue, 16 Jun 2020 09:08:51: 21000000 INFO @ Tue, 16 Jun 2020 09:08:55: 16000000 INFO @ Tue, 16 Jun 2020 09:08:57: 18000000 INFO @ Tue, 16 Jun 2020 09:09:00: 22000000 INFO @ Tue, 16 Jun 2020 09:09:03: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:09:06: 19000000 INFO @ Tue, 16 Jun 2020 09:09:09: 23000000 INFO @ Tue, 16 Jun 2020 09:09:11: 18000000 INFO @ Tue, 16 Jun 2020 09:09:14: 20000000 INFO @ Tue, 16 Jun 2020 09:09:18: 24000000 INFO @ Tue, 16 Jun 2020 09:09:19: 19000000 INFO @ Tue, 16 Jun 2020 09:09:23: 21000000 INFO @ Tue, 16 Jun 2020 09:09:27: 20000000 INFO @ Tue, 16 Jun 2020 09:09:27: 25000000 INFO @ Tue, 16 Jun 2020 09:09:32: 22000000 INFO @ Tue, 16 Jun 2020 09:09:34: 21000000 INFO @ Tue, 16 Jun 2020 09:09:36: 26000000 INFO @ Tue, 16 Jun 2020 09:09:41: 23000000 INFO @ Tue, 16 Jun 2020 09:09:42: 22000000 INFO @ Tue, 16 Jun 2020 09:09:45: 27000000 INFO @ Tue, 16 Jun 2020 09:09:50: 23000000 INFO @ Tue, 16 Jun 2020 09:09:50: 24000000 INFO @ Tue, 16 Jun 2020 09:09:54: 28000000 INFO @ Tue, 16 Jun 2020 09:09:57: 24000000 INFO @ Tue, 16 Jun 2020 09:09:59: 25000000 INFO @ Tue, 16 Jun 2020 09:10:04: 29000000 INFO @ Tue, 16 Jun 2020 09:10:05: 25000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:10:09: 26000000 INFO @ Tue, 16 Jun 2020 09:10:13: 30000000 INFO @ Tue, 16 Jun 2020 09:10:13: 26000000 INFO @ Tue, 16 Jun 2020 09:10:18: 27000000 INFO @ Tue, 16 Jun 2020 09:10:20: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:10:20: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:10:20: #1 total tags in treatment: 30826736 INFO @ Tue, 16 Jun 2020 09:10:20: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:10:20: #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 09:10:21: #1 tags after filtering in treatment: 30826736 INFO @ Tue, 16 Jun 2020 09:10:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:10:21: #1 finished! INFO @ Tue, 16 Jun 2020 09:10:21: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:10:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:10:21: 27000000 INFO @ Tue, 16 Jun 2020 09:10:23: #2 number of paired peaks: 58 WARNING @ Tue, 16 Jun 2020 09:10:23: Too few paired peaks (58) 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 09:10:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.05_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/SRX3583345/SRX3583345.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:10:27: 28000000 INFO @ Tue, 16 Jun 2020 09:10:29: 28000000 INFO @ Tue, 16 Jun 2020 09:10:37: 29000000 INFO @ Tue, 16 Jun 2020 09:10:38: 29000000 INFO @ Tue, 16 Jun 2020 09:10:46: 30000000 INFO @ Tue, 16 Jun 2020 09:10:47: 30000000 INFO @ Tue, 16 Jun 2020 09:10:54: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:10:54: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:10:54: #1 total tags in treatment: 30826736 INFO @ Tue, 16 Jun 2020 09:10:54: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:10:54: #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 09:10:55: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:10:55: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:10:55: #1 total tags in treatment: 30826736 INFO @ Tue, 16 Jun 2020 09:10:55: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:10:55: #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 09:10:55: #1 tags after filtering in treatment: 30826736 INFO @ Tue, 16 Jun 2020 09:10:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:10:55: #1 finished! INFO @ Tue, 16 Jun 2020 09:10:55: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:10:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:10:55: #1 tags after filtering in treatment: 30826736 INFO @ Tue, 16 Jun 2020 09:10:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:10:55: #1 finished! INFO @ Tue, 16 Jun 2020 09:10:55: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:10:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:10:57: #2 number of paired peaks: 58 WARNING @ Tue, 16 Jun 2020 09:10:57: Too few paired peaks (58) 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 09:10:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.10_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/SRX3583345/SRX3583345.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:10:57: #2 number of paired peaks: 58 WARNING @ Tue, 16 Jun 2020 09:10:57: Too few paired peaks (58) 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 09:10:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.20_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/SRX3583345/SRX3583345.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583345/SRX3583345.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling