Job ID = 6366652 SRX = SRX216728 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:03:53 prefetch.2.10.7: 1) Downloading 'SRR648330'... 2020-06-15T23:03:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:06:32 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:06:32 prefetch.2.10.7: 1) 'SRR648330' was downloaded successfully Read 35077847 spots for SRR648330/SRR648330.sra Written 35077847 spots for SRR648330/SRR648330.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: 00:07:29 35077847 reads; of these: 35077847 (100.00%) were unpaired; of these: 2381766 (6.79%) aligned 0 times 28160717 (80.28%) aligned exactly 1 time 4535364 (12.93%) aligned >1 times 93.21% overall alignment rate Time searching: 00:07:29 Overall time: 00:07:29 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] 5393842 / 32696081 = 0.1650 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 08:23:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.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 08:23:23: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:23:23: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:23:29: 1000000 INFO @ Tue, 16 Jun 2020 08:23:35: 2000000 INFO @ Tue, 16 Jun 2020 08:23:41: 3000000 INFO @ Tue, 16 Jun 2020 08:23:47: 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 08:23:53: 5000000 INFO @ Tue, 16 Jun 2020 08:23:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.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 08:23:53: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:23:53: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:24:00: 6000000 INFO @ Tue, 16 Jun 2020 08:24:01: 1000000 INFO @ Tue, 16 Jun 2020 08:24:07: 7000000 INFO @ Tue, 16 Jun 2020 08:24:08: 2000000 INFO @ Tue, 16 Jun 2020 08:24:14: 8000000 INFO @ Tue, 16 Jun 2020 08:24:16: 3000000 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 08:24:22: 9000000 INFO @ Tue, 16 Jun 2020 08:24:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.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 08:24:23: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:24:23: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:24:24: 4000000 INFO @ Tue, 16 Jun 2020 08:24:29: 10000000 INFO @ Tue, 16 Jun 2020 08:24:30: 1000000 INFO @ Tue, 16 Jun 2020 08:24:32: 5000000 INFO @ Tue, 16 Jun 2020 08:24:37: 11000000 INFO @ Tue, 16 Jun 2020 08:24:38: 2000000 INFO @ Tue, 16 Jun 2020 08:24:39: 6000000 INFO @ Tue, 16 Jun 2020 08:24:44: 12000000 INFO @ Tue, 16 Jun 2020 08:24:45: 3000000 INFO @ Tue, 16 Jun 2020 08:24:48: 7000000 INFO @ Tue, 16 Jun 2020 08:24:51: 13000000 INFO @ Tue, 16 Jun 2020 08:24:52: 4000000 INFO @ Tue, 16 Jun 2020 08:24:56: 8000000 INFO @ Tue, 16 Jun 2020 08:24:59: 14000000 INFO @ Tue, 16 Jun 2020 08:25:00: 5000000 INFO @ Tue, 16 Jun 2020 08:25:04: 9000000 INFO @ Tue, 16 Jun 2020 08:25:06: 15000000 INFO @ Tue, 16 Jun 2020 08:25:07: 6000000 INFO @ Tue, 16 Jun 2020 08:25:12: 10000000 INFO @ Tue, 16 Jun 2020 08:25:14: 16000000 INFO @ Tue, 16 Jun 2020 08:25:15: 7000000 INFO @ Tue, 16 Jun 2020 08:25:20: 11000000 INFO @ Tue, 16 Jun 2020 08:25:21: 17000000 INFO @ Tue, 16 Jun 2020 08:25:22: 8000000 INFO @ Tue, 16 Jun 2020 08:25:28: 12000000 INFO @ Tue, 16 Jun 2020 08:25:29: 18000000 INFO @ Tue, 16 Jun 2020 08:25:30: 9000000 INFO @ Tue, 16 Jun 2020 08:25:36: 19000000 INFO @ Tue, 16 Jun 2020 08:25:37: 13000000 INFO @ Tue, 16 Jun 2020 08:25:38: 10000000 INFO @ Tue, 16 Jun 2020 08:25:44: 20000000 INFO @ Tue, 16 Jun 2020 08:25:45: 11000000 INFO @ Tue, 16 Jun 2020 08:25:45: 14000000 INFO @ Tue, 16 Jun 2020 08:25:51: 21000000 INFO @ Tue, 16 Jun 2020 08:25:53: 12000000 INFO @ Tue, 16 Jun 2020 08:25:54: 15000000 INFO @ Tue, 16 Jun 2020 08:25:59: 22000000 INFO @ Tue, 16 Jun 2020 08:26:00: 13000000 INFO @ Tue, 16 Jun 2020 08:26:02: 16000000 INFO @ Tue, 16 Jun 2020 08:26:07: 23000000 INFO @ Tue, 16 Jun 2020 08:26:08: 14000000 INFO @ Tue, 16 Jun 2020 08:26:10: 17000000 INFO @ Tue, 16 Jun 2020 08:26:15: 24000000 INFO @ Tue, 16 Jun 2020 08:26:16: 15000000 INFO @ Tue, 16 Jun 2020 08:26:19: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:26:23: 25000000 INFO @ Tue, 16 Jun 2020 08:26:24: 16000000 INFO @ Tue, 16 Jun 2020 08:26:27: 19000000 INFO @ Tue, 16 Jun 2020 08:26:31: 26000000 INFO @ Tue, 16 Jun 2020 08:26:32: 17000000 INFO @ Tue, 16 Jun 2020 08:26:36: 20000000 INFO @ Tue, 16 Jun 2020 08:26:39: 27000000 INFO @ Tue, 16 Jun 2020 08:26:40: 18000000 INFO @ Tue, 16 Jun 2020 08:26:41: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 08:26:41: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 08:26:41: #1 total tags in treatment: 27302239 INFO @ Tue, 16 Jun 2020 08:26:41: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:26:41: #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 08:26:42: #1 tags after filtering in treatment: 27302239 INFO @ Tue, 16 Jun 2020 08:26:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:26:42: #1 finished! INFO @ Tue, 16 Jun 2020 08:26:42: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:26:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:26:43: #2 number of paired peaks: 93 WARNING @ Tue, 16 Jun 2020 08:26:43: Too few paired peaks (93) 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 08:26:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.05_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/SRX216728/SRX216728.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:26:44: 21000000 INFO @ Tue, 16 Jun 2020 08:26:48: 19000000 INFO @ Tue, 16 Jun 2020 08:26:53: 22000000 INFO @ Tue, 16 Jun 2020 08:26:56: 20000000 INFO @ Tue, 16 Jun 2020 08:27:01: 23000000 INFO @ Tue, 16 Jun 2020 08:27:03: 21000000 INFO @ Tue, 16 Jun 2020 08:27:09: 24000000 INFO @ Tue, 16 Jun 2020 08:27:11: 22000000 INFO @ Tue, 16 Jun 2020 08:27:17: 25000000 INFO @ Tue, 16 Jun 2020 08:27:19: 23000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 08:27:26: 26000000 INFO @ Tue, 16 Jun 2020 08:27:27: 24000000 INFO @ Tue, 16 Jun 2020 08:27:34: 27000000 INFO @ Tue, 16 Jun 2020 08:27:35: 25000000 INFO @ Tue, 16 Jun 2020 08:27:36: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 08:27:36: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 08:27:36: #1 total tags in treatment: 27302239 INFO @ Tue, 16 Jun 2020 08:27:36: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:27:36: #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 08:27:37: #1 tags after filtering in treatment: 27302239 INFO @ Tue, 16 Jun 2020 08:27:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:27:37: #1 finished! INFO @ Tue, 16 Jun 2020 08:27:37: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:27:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:27:39: #2 number of paired peaks: 93 WARNING @ Tue, 16 Jun 2020 08:27:39: Too few paired peaks (93) 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 08:27:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.10_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/SRX216728/SRX216728.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:27:41: 26000000 INFO @ Tue, 16 Jun 2020 08:27:47: 27000000 INFO @ Tue, 16 Jun 2020 08:27:49: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 08:27:49: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 08:27:49: #1 total tags in treatment: 27302239 INFO @ Tue, 16 Jun 2020 08:27:49: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:27:49: #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 08:27:50: #1 tags after filtering in treatment: 27302239 INFO @ Tue, 16 Jun 2020 08:27:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:27:50: #1 finished! INFO @ Tue, 16 Jun 2020 08:27:50: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:27:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:27:51: #2 number of paired peaks: 93 WARNING @ Tue, 16 Jun 2020 08:27:51: Too few paired peaks (93) 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 08:27:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.20_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/SRX216728/SRX216728.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX216728/SRX216728.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling