Job ID = 6367181 SRX = SRX2973387 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:15:16 prefetch.2.10.7: 1) Downloading 'SRR5786982'... 2020-06-15T23:15:16 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:18:30 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:18:30 prefetch.2.10.7: 1) 'SRR5786982' was downloaded successfully 2020-06-15T23:18:30 prefetch.2.10.7: 'SRR5786982' has 0 unresolved dependencies Read 49540971 spots for SRR5786982/SRR5786982.sra Written 49540971 spots for SRR5786982/SRR5786982.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: 00:16:01 49540971 reads; of these: 49540971 (100.00%) were unpaired; of these: 4122228 (8.32%) aligned 0 times 38470274 (77.65%) aligned exactly 1 time 6948469 (14.03%) aligned >1 times 91.68% overall alignment rate Time searching: 00:16:01 Overall time: 00:16:01 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] 12190014 / 45418743 = 0.2684 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 08:47:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.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 08:47:52: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:47:52: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:47:58: 1000000 INFO @ Tue, 16 Jun 2020 08:48:04: 2000000 INFO @ Tue, 16 Jun 2020 08:48:09: 3000000 INFO @ Tue, 16 Jun 2020 08:48:15: 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 08:48:21: 5000000 INFO @ Tue, 16 Jun 2020 08:48:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.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 08:48:22: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:48:22: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:48:28: 6000000 INFO @ Tue, 16 Jun 2020 08:48:28: 1000000 INFO @ Tue, 16 Jun 2020 08:48:35: 7000000 INFO @ Tue, 16 Jun 2020 08:48:35: 2000000 INFO @ Tue, 16 Jun 2020 08:48:42: 8000000 INFO @ Tue, 16 Jun 2020 08:48:42: 3000000 INFO @ Tue, 16 Jun 2020 08:48:49: 9000000 INFO @ Tue, 16 Jun 2020 08:48:49: 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 08:48:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.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 08:48:52: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:48:52: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:48:55: 10000000 INFO @ Tue, 16 Jun 2020 08:48:56: 5000000 INFO @ Tue, 16 Jun 2020 08:48:59: 1000000 INFO @ Tue, 16 Jun 2020 08:49:02: 11000000 INFO @ Tue, 16 Jun 2020 08:49:03: 6000000 INFO @ Tue, 16 Jun 2020 08:49:05: 2000000 INFO @ Tue, 16 Jun 2020 08:49:09: 12000000 INFO @ Tue, 16 Jun 2020 08:49:10: 7000000 INFO @ Tue, 16 Jun 2020 08:49:13: 3000000 INFO @ Tue, 16 Jun 2020 08:49:16: 13000000 INFO @ Tue, 16 Jun 2020 08:49:17: 8000000 INFO @ Tue, 16 Jun 2020 08:49:19: 4000000 INFO @ Tue, 16 Jun 2020 08:49:23: 14000000 INFO @ Tue, 16 Jun 2020 08:49:24: 9000000 INFO @ Tue, 16 Jun 2020 08:49:26: 5000000 INFO @ Tue, 16 Jun 2020 08:49:30: 15000000 INFO @ Tue, 16 Jun 2020 08:49:31: 10000000 INFO @ Tue, 16 Jun 2020 08:49:33: 6000000 INFO @ Tue, 16 Jun 2020 08:49:37: 16000000 INFO @ Tue, 16 Jun 2020 08:49:38: 11000000 INFO @ Tue, 16 Jun 2020 08:49:40: 7000000 INFO @ Tue, 16 Jun 2020 08:49:44: 17000000 INFO @ Tue, 16 Jun 2020 08:49:45: 12000000 INFO @ Tue, 16 Jun 2020 08:49:47: 8000000 INFO @ Tue, 16 Jun 2020 08:49:51: 18000000 INFO @ Tue, 16 Jun 2020 08:49:52: 13000000 INFO @ Tue, 16 Jun 2020 08:49:54: 9000000 INFO @ Tue, 16 Jun 2020 08:49:58: 19000000 INFO @ Tue, 16 Jun 2020 08:49:59: 14000000 INFO @ Tue, 16 Jun 2020 08:50:01: 10000000 INFO @ Tue, 16 Jun 2020 08:50:05: 20000000 INFO @ Tue, 16 Jun 2020 08:50:07: 15000000 INFO @ Tue, 16 Jun 2020 08:50:08: 11000000 INFO @ Tue, 16 Jun 2020 08:50:12: 21000000 INFO @ Tue, 16 Jun 2020 08:50:14: 16000000 INFO @ Tue, 16 Jun 2020 08:50:15: 12000000 INFO @ Tue, 16 Jun 2020 08:50:19: 22000000 INFO @ Tue, 16 Jun 2020 08:50:21: 17000000 INFO @ Tue, 16 Jun 2020 08:50:22: 13000000 INFO @ Tue, 16 Jun 2020 08:50:26: 23000000 INFO @ Tue, 16 Jun 2020 08:50:28: 18000000 INFO @ Tue, 16 Jun 2020 08:50:29: 14000000 INFO @ Tue, 16 Jun 2020 08:50:34: 24000000 INFO @ Tue, 16 Jun 2020 08:50:36: 19000000 INFO @ Tue, 16 Jun 2020 08:50:37: 15000000 INFO @ Tue, 16 Jun 2020 08:50:41: 25000000 INFO @ Tue, 16 Jun 2020 08:50:43: 20000000 INFO @ Tue, 16 Jun 2020 08:50:44: 16000000 INFO @ Tue, 16 Jun 2020 08:50:48: 26000000 INFO @ Tue, 16 Jun 2020 08:50:50: 21000000 INFO @ Tue, 16 Jun 2020 08:50:51: 17000000 INFO @ Tue, 16 Jun 2020 08:50:55: 27000000 INFO @ Tue, 16 Jun 2020 08:50:58: 22000000 INFO @ Tue, 16 Jun 2020 08:50:58: 18000000 INFO @ Tue, 16 Jun 2020 08:51:03: 28000000 INFO @ Tue, 16 Jun 2020 08:51:05: 23000000 INFO @ Tue, 16 Jun 2020 08:51:06: 19000000 INFO @ Tue, 16 Jun 2020 08:51:10: 29000000 INFO @ Tue, 16 Jun 2020 08:51:13: 20000000 INFO @ Tue, 16 Jun 2020 08:51:13: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:51:17: 30000000 INFO @ Tue, 16 Jun 2020 08:51:20: 21000000 INFO @ Tue, 16 Jun 2020 08:51:21: 25000000 INFO @ Tue, 16 Jun 2020 08:51:25: 31000000 INFO @ Tue, 16 Jun 2020 08:51:28: 22000000 INFO @ Tue, 16 Jun 2020 08:51:28: 26000000 INFO @ Tue, 16 Jun 2020 08:51:32: 32000000 INFO @ Tue, 16 Jun 2020 08:51:35: 23000000 INFO @ Tue, 16 Jun 2020 08:51:36: 27000000 INFO @ Tue, 16 Jun 2020 08:51:39: 33000000 INFO @ Tue, 16 Jun 2020 08:51:41: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 08:51:41: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 08:51:41: #1 total tags in treatment: 33228729 INFO @ Tue, 16 Jun 2020 08:51:41: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:51:41: #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 08:51:42: #1 tags after filtering in treatment: 33228729 INFO @ Tue, 16 Jun 2020 08:51:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:51:42: #1 finished! INFO @ Tue, 16 Jun 2020 08:51:42: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:51:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:51:42: 24000000 INFO @ Tue, 16 Jun 2020 08:51:43: 28000000 INFO @ Tue, 16 Jun 2020 08:51:44: #2 number of paired peaks: 56 WARNING @ Tue, 16 Jun 2020 08:51:44: Too few paired peaks (56) 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 08:51:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.05_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/SRX2973387/SRX2973387.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:51:50: 25000000 INFO @ Tue, 16 Jun 2020 08:51:50: 29000000 INFO @ Tue, 16 Jun 2020 08:51:57: 26000000 INFO @ Tue, 16 Jun 2020 08:51:58: 30000000 INFO @ Tue, 16 Jun 2020 08:52:04: 27000000 INFO @ Tue, 16 Jun 2020 08:52:05: 31000000 INFO @ Tue, 16 Jun 2020 08:52:12: 28000000 INFO @ Tue, 16 Jun 2020 08:52:12: 32000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 08:52:19: 29000000 INFO @ Tue, 16 Jun 2020 08:52:20: 33000000 INFO @ Tue, 16 Jun 2020 08:52:21: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 08:52:21: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 08:52:21: #1 total tags in treatment: 33228729 INFO @ Tue, 16 Jun 2020 08:52:21: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:52:21: #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 08:52:22: #1 tags after filtering in treatment: 33228729 INFO @ Tue, 16 Jun 2020 08:52:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:52:22: #1 finished! INFO @ Tue, 16 Jun 2020 08:52:22: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:52:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:52:24: #2 number of paired peaks: 56 WARNING @ Tue, 16 Jun 2020 08:52:24: Too few paired peaks (56) 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 08:52:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.10_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/SRX2973387/SRX2973387.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:52:26: 30000000 INFO @ Tue, 16 Jun 2020 08:52:32: 31000000 INFO @ Tue, 16 Jun 2020 08:52:39: 32000000 INFO @ Tue, 16 Jun 2020 08:52:46: 33000000 INFO @ Tue, 16 Jun 2020 08:52:48: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 08:52:48: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 08:52:48: #1 total tags in treatment: 33228729 INFO @ Tue, 16 Jun 2020 08:52:48: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:52:48: #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 08:52:48: #1 tags after filtering in treatment: 33228729 INFO @ Tue, 16 Jun 2020 08:52:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:52:48: #1 finished! INFO @ Tue, 16 Jun 2020 08:52:48: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:52:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:52:50: #2 number of paired peaks: 56 WARNING @ Tue, 16 Jun 2020 08:52:50: Too few paired peaks (56) 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 08:52:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.20_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/SRX2973387/SRX2973387.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973387/SRX2973387.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling