Job ID = 10254455 sra ファイルのダウンロード中... Completed: 128033K bytes transferred in 6 seconds (166713K bits/sec), in 1 file. Completed: 114873K bytes transferred in 5 seconds (171306K 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 4496956 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353393/SRR6246261.sra Written 4496956 spots total Written 5062525 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353393/SRR6246260.sra Written 5062525 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: 00:01:29 9559481 reads; of these: 9559481 (100.00%) were unpaired; of these: 2583389 (27.02%) aligned 0 times 6097850 (63.79%) aligned exactly 1 time 878242 (9.19%) aligned >1 times 72.98% overall alignment rate Time searching: 00:01:29 Overall time: 00:01:29 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] 1828399 / 6976092 = 0.2621 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 18:20:03: # Command line: callpeak -t SRX3353393.bam -f BAM -g 12100000 -n SRX3353393.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3353393.20 # format = BAM # ChIP-seq file = ['SRX3353393.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 18:20:03: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:20:03: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:20:03: # Command line: callpeak -t SRX3353393.bam -f BAM -g 12100000 -n SRX3353393.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3353393.10 # format = BAM # ChIP-seq file = ['SRX3353393.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 18:20:03: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:20:03: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:20:03: # Command line: callpeak -t SRX3353393.bam -f BAM -g 12100000 -n SRX3353393.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3353393.05 # format = BAM # ChIP-seq file = ['SRX3353393.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 18:20:03: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:20:03: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:20:10: 1000000 INFO @ Wed, 06 Dec 2017 18:20:10: 1000000 INFO @ Wed, 06 Dec 2017 18:20:10: 1000000 INFO @ Wed, 06 Dec 2017 18:20:17: 2000000 INFO @ Wed, 06 Dec 2017 18:20:18: 2000000 INFO @ Wed, 06 Dec 2017 18:20:18: 2000000 INFO @ Wed, 06 Dec 2017 18:20:24: 3000000 INFO @ Wed, 06 Dec 2017 18:20:25: 3000000 INFO @ Wed, 06 Dec 2017 18:20:25: 3000000 INFO @ Wed, 06 Dec 2017 18:20:31: 4000000 INFO @ Wed, 06 Dec 2017 18:20:33: 4000000 INFO @ Wed, 06 Dec 2017 18:20:33: 4000000 INFO @ Wed, 06 Dec 2017 18:20:38: 5000000 INFO @ Wed, 06 Dec 2017 18:20:39: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:20:39: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:20:39: #1 total tags in treatment: 5147693 INFO @ Wed, 06 Dec 2017 18:20:39: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:20:39: #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 18:20:39: #1 tags after filtering in treatment: 5147693 INFO @ Wed, 06 Dec 2017 18:20:39: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:20:39: #1 finished! INFO @ Wed, 06 Dec 2017 18:20:39: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:20:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:20:40: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:20:40: 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 18:20:40: Process for pairing-model is terminated! cat: SRX3353393.05_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 `SRX3353393.05_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 `SRX3353393.05_*.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 `SRX3353393.05_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 18:20:40: 5000000 INFO @ Wed, 06 Dec 2017 18:20:40: 5000000 INFO @ Wed, 06 Dec 2017 18:20:41: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:20:41: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:20:41: #1 total tags in treatment: 5147693 INFO @ Wed, 06 Dec 2017 18:20:41: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:20:41: #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 18:20:41: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:20:41: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:20:41: #1 total tags in treatment: 5147693 INFO @ Wed, 06 Dec 2017 18:20:41: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:20:41: #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 18:20:41: #1 tags after filtering in treatment: 5147693 INFO @ Wed, 06 Dec 2017 18:20:41: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:20:41: #1 finished! INFO @ Wed, 06 Dec 2017 18:20:41: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:20:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:20:41: #1 tags after filtering in treatment: 5147693 INFO @ Wed, 06 Dec 2017 18:20:41: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:20:41: #1 finished! INFO @ Wed, 06 Dec 2017 18:20:41: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:20:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:20:41: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:20:41: 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 18:20:41: Process for pairing-model is terminated! cat: SRX3353393.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3353393.10_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 `SRX3353393.10_*.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 `SRX3353393.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Wed, 06 Dec 2017 18:20:41: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:20:41: 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 18:20:41: Process for pairing-model is terminated! cat: SRX3353393.20_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 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3353393.20_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 `SRX3353393.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3353393.20_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。