Job ID = 7115580 SRX = SRX8539197 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T06:10:28 prefetch.2.10.7: 1) Downloading 'SRR12006036'... 2020-07-22T06:10:28 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:11:03 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:11:03 prefetch.2.10.7: 'SRR12006036' is valid 2020-07-22T06:11:03 prefetch.2.10.7: 1) 'SRR12006036' was downloaded successfully Read 9382708 spots for SRR12006036/SRR12006036.sra Written 9382708 spots for SRR12006036/SRR12006036.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: 00:01:03 9382708 reads; of these: 9382708 (100.00%) were unpaired; of these: 1083797 (11.55%) aligned 0 times 6387218 (68.07%) aligned exactly 1 time 1911693 (20.37%) aligned >1 times 88.45% overall alignment rate Time searching: 00:01:03 Overall time: 00:01:03 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_rmdupse_core] 2418761 / 8298911 = 0.2915 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 15:14:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.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 15:14:40: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:14:40: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:14:45: 1000000 INFO @ Wed, 22 Jul 2020 15:14:50: 2000000 INFO @ Wed, 22 Jul 2020 15:14:55: 3000000 INFO @ Wed, 22 Jul 2020 15:15:00: 4000000 INFO @ Wed, 22 Jul 2020 15:15:04: 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 15:15:09: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:15:09: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:15:09: #1 total tags in treatment: 5880150 INFO @ Wed, 22 Jul 2020 15:15:09: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:15:09: #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 15:15:09: #1 tags after filtering in treatment: 5880150 INFO @ Wed, 22 Jul 2020 15:15:09: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:15:09: #1 finished! INFO @ Wed, 22 Jul 2020 15:15:09: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:15:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:15:09: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:15:09: 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 15:15:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.05_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/SRX8539197/SRX8539197.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:15:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.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 15:15:10: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:15:10: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:15:15: 1000000 INFO @ Wed, 22 Jul 2020 15:15:20: 2000000 INFO @ Wed, 22 Jul 2020 15:15:25: 3000000 INFO @ Wed, 22 Jul 2020 15:15:29: 4000000 INFO @ Wed, 22 Jul 2020 15:15:34: 5000000 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 15:15:38: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:15:38: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:15:38: #1 total tags in treatment: 5880150 INFO @ Wed, 22 Jul 2020 15:15:38: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:15:38: #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 15:15:39: #1 tags after filtering in treatment: 5880150 INFO @ Wed, 22 Jul 2020 15:15:39: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:15:39: #1 finished! INFO @ Wed, 22 Jul 2020 15:15:39: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:15:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:15:39: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:15:39: 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 15:15:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.10_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/SRX8539197/SRX8539197.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:15:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.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 15:15:40: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:15:40: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:15:45: 1000000 INFO @ Wed, 22 Jul 2020 15:15:50: 2000000 INFO @ Wed, 22 Jul 2020 15:15:55: 3000000 INFO @ Wed, 22 Jul 2020 15:16:00: 4000000 INFO @ Wed, 22 Jul 2020 15:16:05: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:16:09: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:16:09: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:16:09: #1 total tags in treatment: 5880150 INFO @ Wed, 22 Jul 2020 15:16:09: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:16:09: #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 15:16:09: #1 tags after filtering in treatment: 5880150 INFO @ Wed, 22 Jul 2020 15:16:09: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:16:09: #1 finished! INFO @ Wed, 22 Jul 2020 15:16:09: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:16:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:16:09: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:16:09: 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 15:16:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539197/SRX8539197.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。