Job ID = 7115584 SRX = SRX8539198 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T06:10:44 prefetch.2.10.7: 1) Downloading 'SRR12006035'... 2020-07-22T06:10:44 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:12:02 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:12:02 prefetch.2.10.7: 1) 'SRR12006035' was downloaded successfully Read 20300836 spots for SRR12006035/SRR12006035.sra Written 20300836 spots for SRR12006035/SRR12006035.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: 00:02:16 20300836 reads; of these: 20300836 (100.00%) were unpaired; of these: 1925367 (9.48%) aligned 0 times 15270544 (75.22%) aligned exactly 1 time 3104925 (15.29%) aligned >1 times 90.52% overall alignment rate Time searching: 00:02:16 Overall time: 00:02:16 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 7479151 / 18375469 = 0.4070 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 @ Wed, 22 Jul 2020 15:19:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 22 Jul 2020 15:19:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:19:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:19:12: 1000000 INFO @ Wed, 22 Jul 2020 15:19:17: 2000000 INFO @ Wed, 22 Jul 2020 15:19:22: 3000000 INFO @ Wed, 22 Jul 2020 15:19:27: 4000000 INFO @ Wed, 22 Jul 2020 15:19:32: 5000000 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 @ Wed, 22 Jul 2020 15:19:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 22 Jul 2020 15:19:36: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:19:36: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:19:37: 6000000 INFO @ Wed, 22 Jul 2020 15:19:43: 7000000 INFO @ Wed, 22 Jul 2020 15:19:43: 1000000 INFO @ Wed, 22 Jul 2020 15:19:48: 8000000 INFO @ Wed, 22 Jul 2020 15:19:49: 2000000 INFO @ Wed, 22 Jul 2020 15:19:53: 9000000 INFO @ Wed, 22 Jul 2020 15:19:55: 3000000 INFO @ Wed, 22 Jul 2020 15:19:59: 10000000 INFO @ Wed, 22 Jul 2020 15:20:01: 4000000 INFO @ Wed, 22 Jul 2020 15:20:04: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:20:04: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:20:04: #1 total tags in treatment: 10896318 INFO @ Wed, 22 Jul 2020 15:20:04: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:20:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:20:04: #1 tags after filtering in treatment: 10896318 INFO @ Wed, 22 Jul 2020 15:20:04: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:20:04: #1 finished! INFO @ Wed, 22 Jul 2020 15:20:04: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:20:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:20:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:20:04: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 15:20:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.05_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/sacCer3/SRX8539198/SRX8539198.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 @ Wed, 22 Jul 2020 15:20:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 22 Jul 2020 15:20:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:20:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:20:07: 5000000 INFO @ Wed, 22 Jul 2020 15:20:12: 1000000 INFO @ Wed, 22 Jul 2020 15:20:13: 6000000 INFO @ Wed, 22 Jul 2020 15:20:18: 2000000 INFO @ Wed, 22 Jul 2020 15:20:20: 7000000 INFO @ Wed, 22 Jul 2020 15:20:23: 3000000 INFO @ Wed, 22 Jul 2020 15:20:26: 8000000 INFO @ Wed, 22 Jul 2020 15:20:28: 4000000 INFO @ Wed, 22 Jul 2020 15:20:32: 9000000 INFO @ Wed, 22 Jul 2020 15:20:34: 5000000 INFO @ Wed, 22 Jul 2020 15:20:38: 10000000 INFO @ Wed, 22 Jul 2020 15:20:40: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:20:44: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:20:44: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:20:44: #1 total tags in treatment: 10896318 INFO @ Wed, 22 Jul 2020 15:20:44: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:20:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:20:44: #1 tags after filtering in treatment: 10896318 INFO @ Wed, 22 Jul 2020 15:20:44: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:20:44: #1 finished! INFO @ Wed, 22 Jul 2020 15:20:44: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:20:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:20:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:20:45: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 15:20:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.10_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/sacCer3/SRX8539198/SRX8539198.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:20:45: 7000000 INFO @ Wed, 22 Jul 2020 15:20:50: 8000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:20:55: 9000000 INFO @ Wed, 22 Jul 2020 15:21:01: 10000000 INFO @ Wed, 22 Jul 2020 15:21:05: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:21:05: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:21:05: #1 total tags in treatment: 10896318 INFO @ Wed, 22 Jul 2020 15:21:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:21:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:21:05: #1 tags after filtering in treatment: 10896318 INFO @ Wed, 22 Jul 2020 15:21:05: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:21:05: #1 finished! INFO @ Wed, 22 Jul 2020 15:21:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:21:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:21:06: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:21:06: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 15:21:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.20_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/sacCer3/SRX8539198/SRX8539198.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539198/SRX8539198.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling