Job ID = 6367185 SRX = SRX2973394 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:31:35 prefetch.2.10.7: 1) Downloading 'SRR5786975'... 2020-06-15T23:31:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:42:55 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:42:55 prefetch.2.10.7: 1) 'SRR5786975' was downloaded successfully Read 35206966 spots for SRR5786975/SRR5786975.sra Written 35206966 spots for SRR5786975/SRR5786975.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: 00:15:51 35206966 reads; of these: 35206966 (100.00%) were unpaired; of these: 2311285 (6.56%) aligned 0 times 27522299 (78.17%) aligned exactly 1 time 5373382 (15.26%) aligned >1 times 93.44% overall alignment rate Time searching: 00:15:51 Overall time: 00:15:51 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] 5963410 / 32895681 = 0.1813 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 09:10:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.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 09:10:57: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:10:57: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:11:04: 1000000 INFO @ Tue, 16 Jun 2020 09:11:10: 2000000 INFO @ Tue, 16 Jun 2020 09:11:17: 3000000 INFO @ Tue, 16 Jun 2020 09:11:23: 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 09:11:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.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 09:11:27: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:11:27: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:11:30: 5000000 INFO @ Tue, 16 Jun 2020 09:11:35: 1000000 INFO @ Tue, 16 Jun 2020 09:11:38: 6000000 INFO @ Tue, 16 Jun 2020 09:11:43: 2000000 INFO @ Tue, 16 Jun 2020 09:11:46: 7000000 INFO @ Tue, 16 Jun 2020 09:11:51: 3000000 INFO @ Tue, 16 Jun 2020 09:11:53: 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 09:11:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.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 09:11:57: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:11:57: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:11:58: 4000000 INFO @ Tue, 16 Jun 2020 09:12:01: 9000000 INFO @ Tue, 16 Jun 2020 09:12:05: 1000000 INFO @ Tue, 16 Jun 2020 09:12:06: 5000000 INFO @ Tue, 16 Jun 2020 09:12:08: 10000000 INFO @ Tue, 16 Jun 2020 09:12:13: 2000000 INFO @ Tue, 16 Jun 2020 09:12:14: 6000000 INFO @ Tue, 16 Jun 2020 09:12:16: 11000000 INFO @ Tue, 16 Jun 2020 09:12:20: 3000000 INFO @ Tue, 16 Jun 2020 09:12:22: 7000000 INFO @ Tue, 16 Jun 2020 09:12:24: 12000000 INFO @ Tue, 16 Jun 2020 09:12:28: 4000000 INFO @ Tue, 16 Jun 2020 09:12:29: 8000000 INFO @ Tue, 16 Jun 2020 09:12:31: 13000000 INFO @ Tue, 16 Jun 2020 09:12:35: 5000000 INFO @ Tue, 16 Jun 2020 09:12:37: 9000000 INFO @ Tue, 16 Jun 2020 09:12:39: 14000000 INFO @ Tue, 16 Jun 2020 09:12:43: 6000000 INFO @ Tue, 16 Jun 2020 09:12:45: 10000000 INFO @ Tue, 16 Jun 2020 09:12:47: 15000000 INFO @ Tue, 16 Jun 2020 09:12:51: 7000000 INFO @ Tue, 16 Jun 2020 09:12:53: 11000000 INFO @ Tue, 16 Jun 2020 09:12:55: 16000000 INFO @ Tue, 16 Jun 2020 09:12:58: 8000000 INFO @ Tue, 16 Jun 2020 09:13:01: 12000000 INFO @ Tue, 16 Jun 2020 09:13:02: 17000000 INFO @ Tue, 16 Jun 2020 09:13:06: 9000000 INFO @ Tue, 16 Jun 2020 09:13:09: 13000000 INFO @ Tue, 16 Jun 2020 09:13:10: 18000000 INFO @ Tue, 16 Jun 2020 09:13:14: 10000000 INFO @ Tue, 16 Jun 2020 09:13:17: 14000000 INFO @ Tue, 16 Jun 2020 09:13:18: 19000000 INFO @ Tue, 16 Jun 2020 09:13:22: 11000000 INFO @ Tue, 16 Jun 2020 09:13:25: 15000000 INFO @ Tue, 16 Jun 2020 09:13:26: 20000000 INFO @ Tue, 16 Jun 2020 09:13:30: 12000000 INFO @ Tue, 16 Jun 2020 09:13:33: 16000000 INFO @ Tue, 16 Jun 2020 09:13:34: 21000000 INFO @ Tue, 16 Jun 2020 09:13:37: 13000000 INFO @ Tue, 16 Jun 2020 09:13:40: 17000000 INFO @ Tue, 16 Jun 2020 09:13:42: 22000000 INFO @ Tue, 16 Jun 2020 09:13:45: 14000000 INFO @ Tue, 16 Jun 2020 09:13:48: 18000000 INFO @ Tue, 16 Jun 2020 09:13:49: 23000000 INFO @ Tue, 16 Jun 2020 09:13:53: 15000000 INFO @ Tue, 16 Jun 2020 09:13:56: 19000000 INFO @ Tue, 16 Jun 2020 09:13:57: 24000000 INFO @ Tue, 16 Jun 2020 09:14:01: 16000000 INFO @ Tue, 16 Jun 2020 09:14:04: 20000000 INFO @ Tue, 16 Jun 2020 09:14:05: 25000000 INFO @ Tue, 16 Jun 2020 09:14:08: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:14:11: 21000000 INFO @ Tue, 16 Jun 2020 09:14:12: 26000000 INFO @ Tue, 16 Jun 2020 09:14:16: 18000000 INFO @ Tue, 16 Jun 2020 09:14:19: 22000000 INFO @ Tue, 16 Jun 2020 09:14:20: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 09:14:20: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 09:14:20: #1 total tags in treatment: 26932271 INFO @ Tue, 16 Jun 2020 09:14:20: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:14:20: #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 09:14:20: #1 tags after filtering in treatment: 26932271 INFO @ Tue, 16 Jun 2020 09:14:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:14:20: #1 finished! INFO @ Tue, 16 Jun 2020 09:14:20: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:14:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:14:22: #2 number of paired peaks: 84 WARNING @ Tue, 16 Jun 2020 09:14:22: Too few paired peaks (84) 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 09:14:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.05_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/SRX2973394/SRX2973394.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:14:24: 19000000 INFO @ Tue, 16 Jun 2020 09:14:27: 23000000 INFO @ Tue, 16 Jun 2020 09:14:31: 20000000 INFO @ Tue, 16 Jun 2020 09:14:34: 24000000 INFO @ Tue, 16 Jun 2020 09:14:39: 21000000 INFO @ Tue, 16 Jun 2020 09:14:42: 25000000 INFO @ Tue, 16 Jun 2020 09:14:46: 22000000 INFO @ Tue, 16 Jun 2020 09:14:50: 26000000 INFO @ Tue, 16 Jun 2020 09:14:54: 23000000 INFO @ Tue, 16 Jun 2020 09:14:57: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 09:14:57: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 09:14:57: #1 total tags in treatment: 26932271 INFO @ Tue, 16 Jun 2020 09:14:57: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:14:57: #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 09:14:57: #1 tags after filtering in treatment: 26932271 INFO @ Tue, 16 Jun 2020 09:14:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:14:57: #1 finished! INFO @ Tue, 16 Jun 2020 09:14:57: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:14:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:14:59: #2 number of paired peaks: 84 WARNING @ Tue, 16 Jun 2020 09:14:59: Too few paired peaks (84) 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 09:14:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.10_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/SRX2973394/SRX2973394.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:15:01: 24000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:15:08: 25000000 INFO @ Tue, 16 Jun 2020 09:15:15: 26000000 INFO @ Tue, 16 Jun 2020 09:15:21: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 09:15:21: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 09:15:21: #1 total tags in treatment: 26932271 INFO @ Tue, 16 Jun 2020 09:15:21: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:15:21: #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 09:15:21: #1 tags after filtering in treatment: 26932271 INFO @ Tue, 16 Jun 2020 09:15:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:15:21: #1 finished! INFO @ Tue, 16 Jun 2020 09:15:21: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:15:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:15:23: #2 number of paired peaks: 84 WARNING @ Tue, 16 Jun 2020 09:15:23: Too few paired peaks (84) 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 09:15:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.20_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/SRX2973394/SRX2973394.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973394/SRX2973394.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling