Job ID = 7111336 SRX = SRX8189513 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T05:05:12 prefetch.2.10.7: 1) Downloading 'SRR11625409'... 2020-07-22T05:05:13 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:05:50 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:05:51 prefetch.2.10.7: 'SRR11625409' is valid 2020-07-22T05:05:51 prefetch.2.10.7: 1) 'SRR11625409' was downloaded successfully 2020-07-22T05:06:33 prefetch.2.10.7: 'SRR11625409' has 8 unresolved dependencies 2020-07-22T05:06:33 prefetch.2.10.7: 2) Downloading 'ncbi-acc:NC_001133.9?vdb-ctx=refseq'... 2020-07-22T05:06:33 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:06:40 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:06:40 prefetch.2.10.7: 2) 'ncbi-acc:NC_001133.9?vdb-ctx=refseq' was downloaded successfully 2020-07-22T05:06:40 prefetch.2.10.7: 3) Downloading 'ncbi-acc:NC_001134.8?vdb-ctx=refseq'... 2020-07-22T05:06:40 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:06:49 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:06:49 prefetch.2.10.7: 3) 'ncbi-acc:NC_001134.8?vdb-ctx=refseq' was downloaded successfully 2020-07-22T05:06:49 prefetch.2.10.7: 4) Downloading 'ncbi-acc:NC_001135.5?vdb-ctx=refseq'... 2020-07-22T05:06:49 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:06:55 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:06:55 prefetch.2.10.7: 4) 'ncbi-acc:NC_001135.5?vdb-ctx=refseq' was downloaded successfully 2020-07-22T05:06:55 prefetch.2.10.7: 5) Downloading 'ncbi-acc:NC_001136.10?vdb-ctx=refseq'... 2020-07-22T05:06:55 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:07:05 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:07:05 prefetch.2.10.7: 5) 'ncbi-acc:NC_001136.10?vdb-ctx=refseq' was downloaded successfully 2020-07-22T05:07:05 prefetch.2.10.7: 6) Downloading 'ncbi-acc:NC_001139.9?vdb-ctx=refseq'... 2020-07-22T05:07:05 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:07:14 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:07:14 prefetch.2.10.7: 6) 'ncbi-acc:NC_001139.9?vdb-ctx=refseq' was downloaded successfully 2020-07-22T05:07:14 prefetch.2.10.7: 7) Downloading 'ncbi-acc:NC_001144.5?vdb-ctx=refseq'... 2020-07-22T05:07:14 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:07:22 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:07:22 prefetch.2.10.7: 7) 'ncbi-acc:NC_001144.5?vdb-ctx=refseq' was downloaded successfully 2020-07-22T05:07:22 prefetch.2.10.7: 8) Downloading 'ncbi-acc:NC_001147.6?vdb-ctx=refseq'... 2020-07-22T05:07:22 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:07:30 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:07:30 prefetch.2.10.7: 8) 'ncbi-acc:NC_001147.6?vdb-ctx=refseq' was downloaded successfully 2020-07-22T05:07:30 prefetch.2.10.7: 9) Downloading 'ncbi-acc:NC_001224.1?vdb-ctx=refseq'... 2020-07-22T05:07:30 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:07:36 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:07:36 prefetch.2.10.7: 9) 'ncbi-acc:NC_001224.1?vdb-ctx=refseq' was downloaded successfully Read 19531001 spots for SRR11625409/SRR11625409.sra Written 19531001 spots for SRR11625409/SRR11625409.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: 00:02:09 19531001 reads; of these: 19531001 (100.00%) were unpaired; of these: 787098 (4.03%) aligned 0 times 13672934 (70.01%) aligned exactly 1 time 5070969 (25.96%) aligned >1 times 95.97% overall alignment rate Time searching: 00:02:09 Overall time: 00:02:09 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] 8786925 / 18743903 = 0.4688 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 14:15:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.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 14:15:18: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:15:18: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:15:24: 1000000 INFO @ Wed, 22 Jul 2020 14:15:29: 2000000 INFO @ Wed, 22 Jul 2020 14:15:35: 3000000 INFO @ Wed, 22 Jul 2020 14:15:40: 4000000 INFO @ Wed, 22 Jul 2020 14:15:45: 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 14:15:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.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 14:15:48: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:15:48: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:15:51: 6000000 INFO @ Wed, 22 Jul 2020 14:15:54: 1000000 INFO @ Wed, 22 Jul 2020 14:15:57: 7000000 INFO @ Wed, 22 Jul 2020 14:16:00: 2000000 INFO @ Wed, 22 Jul 2020 14:16:03: 8000000 INFO @ Wed, 22 Jul 2020 14:16:06: 3000000 INFO @ Wed, 22 Jul 2020 14:16:09: 9000000 INFO @ Wed, 22 Jul 2020 14:16:12: 4000000 INFO @ Wed, 22 Jul 2020 14:16:15: #1 tag size is determined as 64 bps INFO @ Wed, 22 Jul 2020 14:16:15: #1 tag size = 64 INFO @ Wed, 22 Jul 2020 14:16:15: #1 total tags in treatment: 9956978 INFO @ Wed, 22 Jul 2020 14:16:15: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:16:15: #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 14:16:15: #1 tags after filtering in treatment: 9956978 INFO @ Wed, 22 Jul 2020 14:16:15: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 14:16:15: #1 finished! INFO @ Wed, 22 Jul 2020 14:16:15: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:16:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:16:16: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:16:16: 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 14:16:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.05_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/sacCer3/SRX8189513/SRX8189513.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.05_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 14:16:18: 5000000 INFO @ Wed, 22 Jul 2020 14:16:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.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 14:16:18: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:16:18: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:16:24: 6000000 INFO @ Wed, 22 Jul 2020 14:16:24: 1000000 INFO @ Wed, 22 Jul 2020 14:16:30: 7000000 INFO @ Wed, 22 Jul 2020 14:16:30: 2000000 INFO @ Wed, 22 Jul 2020 14:16:36: 8000000 INFO @ Wed, 22 Jul 2020 14:16:36: 3000000 INFO @ Wed, 22 Jul 2020 14:16:42: 4000000 INFO @ Wed, 22 Jul 2020 14:16:42: 9000000 INFO @ Wed, 22 Jul 2020 14:16:47: #1 tag size is determined as 64 bps INFO @ Wed, 22 Jul 2020 14:16:47: #1 tag size = 64 INFO @ Wed, 22 Jul 2020 14:16:47: #1 total tags in treatment: 9956978 INFO @ Wed, 22 Jul 2020 14:16:47: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:16:47: #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 14:16:47: #1 tags after filtering in treatment: 9956978 INFO @ Wed, 22 Jul 2020 14:16:47: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 14:16:47: #1 finished! INFO @ Wed, 22 Jul 2020 14:16:47: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:16:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:16:48: 5000000 INFO @ Wed, 22 Jul 2020 14:16:48: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:16:48: 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 14:16:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.10_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/SRX8189513/SRX8189513.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:16:53: 6000000 INFO @ Wed, 22 Jul 2020 14:16:59: 7000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:17:04: 8000000 INFO @ Wed, 22 Jul 2020 14:17:09: 9000000 INFO @ Wed, 22 Jul 2020 14:17:14: #1 tag size is determined as 64 bps INFO @ Wed, 22 Jul 2020 14:17:14: #1 tag size = 64 INFO @ Wed, 22 Jul 2020 14:17:14: #1 total tags in treatment: 9956978 INFO @ Wed, 22 Jul 2020 14:17:14: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:17:14: #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 14:17:15: #1 tags after filtering in treatment: 9956978 INFO @ Wed, 22 Jul 2020 14:17:15: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 14:17:15: #1 finished! INFO @ Wed, 22 Jul 2020 14:17:15: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:17:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:17:15: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:17:15: 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 14:17:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.20_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/SRX8189513/SRX8189513.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8189513/SRX8189513.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling