Job ID = 10254459 sra ファイルのダウンロード中... Completed: 294199K bytes transferred in 9 seconds (252155K bits/sec), in 1 file. Completed: 360225K bytes transferred in 13 seconds (218594K bits/sec), in 1 file. sra ファイルのダウンロードが完了しました。 Read layout: SINGLE fastq に変換中... Written 8383445 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353396/SRR6246266.sra Written 8383445 spots total Written 10223101 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353396/SRR6246267.sra Written 10223101 spots total rm: cannot remove `[DSE]RX*': そのようなファイルやディレクトリはありません 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: 00:03:08 18606546 reads; of these: 18606546 (100.00%) were unpaired; of these: 1723695 (9.26%) aligned 0 times 12002497 (64.51%) aligned exactly 1 time 4880354 (26.23%) aligned >1 times 90.74% overall alignment rate Time searching: 00:03:08 Overall time: 00:03:08 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] 9887054 / 16882851 = 0.5856 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Wed, 06 Dec 2017 18:28:46: # Command line: callpeak -t SRX3353396.bam -f BAM -g 12100000 -n SRX3353396.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3353396.05 # format = BAM # ChIP-seq file = ['SRX3353396.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, 06 Dec 2017 18:28:46: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:28:46: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:28:46: # Command line: callpeak -t SRX3353396.bam -f BAM -g 12100000 -n SRX3353396.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3353396.10 # format = BAM # ChIP-seq file = ['SRX3353396.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, 06 Dec 2017 18:28:46: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:28:46: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:28:46: # Command line: callpeak -t SRX3353396.bam -f BAM -g 12100000 -n SRX3353396.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3353396.20 # format = BAM # ChIP-seq file = ['SRX3353396.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, 06 Dec 2017 18:28:46: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:28:46: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:28:53: 1000000 INFO @ Wed, 06 Dec 2017 18:28:53: 1000000 INFO @ Wed, 06 Dec 2017 18:28:53: 1000000 INFO @ Wed, 06 Dec 2017 18:29:00: 2000000 INFO @ Wed, 06 Dec 2017 18:29:00: 2000000 INFO @ Wed, 06 Dec 2017 18:29:00: 2000000 INFO @ Wed, 06 Dec 2017 18:29:07: 3000000 INFO @ Wed, 06 Dec 2017 18:29:07: 3000000 INFO @ Wed, 06 Dec 2017 18:29:07: 3000000 INFO @ Wed, 06 Dec 2017 18:29:14: 4000000 INFO @ Wed, 06 Dec 2017 18:29:15: 4000000 INFO @ Wed, 06 Dec 2017 18:29:15: 4000000 INFO @ Wed, 06 Dec 2017 18:29:20: 5000000 INFO @ Wed, 06 Dec 2017 18:29:22: 5000000 INFO @ Wed, 06 Dec 2017 18:29:22: 5000000 INFO @ Wed, 06 Dec 2017 18:29:27: 6000000 INFO @ Wed, 06 Dec 2017 18:29:30: 6000000 INFO @ Wed, 06 Dec 2017 18:29:30: 6000000 INFO @ Wed, 06 Dec 2017 18:29:34: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:29:34: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:29:34: #1 total tags in treatment: 6995797 INFO @ Wed, 06 Dec 2017 18:29:34: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:29:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 18:29:34: #1 tags after filtering in treatment: 6995797 INFO @ Wed, 06 Dec 2017 18:29:34: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:29:34: #1 finished! INFO @ Wed, 06 Dec 2017 18:29:34: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:29:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:29:35: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:29:35: 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, 06 Dec 2017 18:29:35: Process for pairing-model is terminated! cat: SRX3353396.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3353396.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3353396.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3353396.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Wed, 06 Dec 2017 18:29:37: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:29:37: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:29:37: #1 total tags in treatment: 6995797 INFO @ Wed, 06 Dec 2017 18:29:37: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:29:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 18:29:37: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:29:37: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:29:37: #1 total tags in treatment: 6995797 INFO @ Wed, 06 Dec 2017 18:29:37: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:29:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 18:29:37: #1 tags after filtering in treatment: 6995797 INFO @ Wed, 06 Dec 2017 18:29:37: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:29:37: #1 finished! INFO @ Wed, 06 Dec 2017 18:29:37: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:29:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:29:37: #1 tags after filtering in treatment: 6995797 INFO @ Wed, 06 Dec 2017 18:29:37: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:29:37: #1 finished! INFO @ Wed, 06 Dec 2017 18:29:37: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:29:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:29:38: #2 number of paired peaks: 0 INFO @ Wed, 06 Dec 2017 18:29:38: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:29:38: 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, 06 Dec 2017 18:29:38: 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, 06 Dec 2017 18:29:38: Process for pairing-model is terminated! WARNING @ Wed, 06 Dec 2017 18:29:38: Process for pairing-model is terminated! cat: SRX3353396.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX3353396.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3353396.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3353396.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3353396.20_model.r'rm: cannot remove `SRX3353396.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません: そのようなファイルやディレクトリはありません rm: cannot remove `SRX3353396.20_*.xls': そのようなファイルやディレクトリはありません rm: CompletedMACS2peakCalling cannot remove `SRX3353396.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。