Job ID = 9162022 sra ファイルのダウンロード中... Completed: 416492K bytes transferred in 7 seconds (466999K bits/sec), in 1 file, 2 directories. 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 19575891 spots for /home/okishinya/chipatlas/results/sacCer3/SRX149457/SRR500620.sra Written 19575891 spots total rm: cannot remove `[DSE]RR*.fastq': 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: 00:02:58 19575891 reads; of these: 19575891 (100.00%) were unpaired; of these: 4353455 (22.24%) aligned 0 times 12359541 (63.14%) aligned exactly 1 time 2862895 (14.62%) aligned >1 times 77.76% overall alignment rate Time searching: 00:02:58 Overall time: 00:02:58 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] 7084930 / 15222436 = 0.4654 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, 28 Jun 2017 05:34:44: # Command line: callpeak -t SRX149457.bam -f BAM -g 12100000 -n SRX149457.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX149457.10 # format = BAM # ChIP-seq file = ['SRX149457.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, 28 Jun 2017 05:34:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:34:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:34:44: # Command line: callpeak -t SRX149457.bam -f BAM -g 12100000 -n SRX149457.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX149457.05 # format = BAM # ChIP-seq file = ['SRX149457.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, 28 Jun 2017 05:34:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:34:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:34:44: # Command line: callpeak -t SRX149457.bam -f BAM -g 12100000 -n SRX149457.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX149457.20 # format = BAM # ChIP-seq file = ['SRX149457.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, 28 Jun 2017 05:34:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:34:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:34:50: 1000000 INFO @ Wed, 28 Jun 2017 05:34:50: 1000000 INFO @ Wed, 28 Jun 2017 05:34:51: 1000000 INFO @ Wed, 28 Jun 2017 05:34:56: 2000000 INFO @ Wed, 28 Jun 2017 05:34:56: 2000000 INFO @ Wed, 28 Jun 2017 05:34:57: 2000000 INFO @ Wed, 28 Jun 2017 05:35:02: 3000000 INFO @ Wed, 28 Jun 2017 05:35:03: 3000000 INFO @ Wed, 28 Jun 2017 05:35:05: 3000000 INFO @ Wed, 28 Jun 2017 05:35:08: 4000000 INFO @ Wed, 28 Jun 2017 05:35:09: 4000000 INFO @ Wed, 28 Jun 2017 05:35:13: 4000000 INFO @ Wed, 28 Jun 2017 05:35:15: 5000000 INFO @ Wed, 28 Jun 2017 05:35:16: 5000000 INFO @ Wed, 28 Jun 2017 05:35:20: 6000000 INFO @ Wed, 28 Jun 2017 05:35:21: 5000000 INFO @ Wed, 28 Jun 2017 05:35:22: 6000000 INFO @ Wed, 28 Jun 2017 05:35:26: 7000000 INFO @ Wed, 28 Jun 2017 05:35:28: 7000000 INFO @ Wed, 28 Jun 2017 05:35:29: 6000000 INFO @ Wed, 28 Jun 2017 05:35:32: 8000000 INFO @ Wed, 28 Jun 2017 05:35:33: #1 tag size is determined as 42 bps INFO @ Wed, 28 Jun 2017 05:35:33: #1 tag size = 42 INFO @ Wed, 28 Jun 2017 05:35:33: #1 total tags in treatment: 8137506 INFO @ Wed, 28 Jun 2017 05:35:33: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:35:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 05:35:34: #1 tags after filtering in treatment: 8137506 INFO @ Wed, 28 Jun 2017 05:35:34: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:35:34: #1 finished! INFO @ Wed, 28 Jun 2017 05:35:34: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:35:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:35:34: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:35:34: 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, 28 Jun 2017 05:35:34: Process for pairing-model is terminated! cat: SRX149457.10_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 `SRX149457.10_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 `SRX149457.10_*.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 `SRX149457.10_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, 28 Jun 2017 05:35:34: 8000000 INFO @ Wed, 28 Jun 2017 05:35:35: #1 tag size is determined as 42 bps INFO @ Wed, 28 Jun 2017 05:35:35: #1 tag size = 42 INFO @ Wed, 28 Jun 2017 05:35:35: #1 total tags in treatment: 8137506 INFO @ Wed, 28 Jun 2017 05:35:35: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:35:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 05:35:36: #1 tags after filtering in treatment: 8137506 INFO @ Wed, 28 Jun 2017 05:35:36: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:35:36: #1 finished! INFO @ Wed, 28 Jun 2017 05:35:36: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:35:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:35:36: 7000000 INFO @ Wed, 28 Jun 2017 05:35:36: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:35:36: 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, 28 Jun 2017 05:35:36: Process for pairing-model is terminated! cat: SRX149457.20_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 `SRX149457.20_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 `SRX149457.20_*.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 `SRX149457.20_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 INFO @ Wed, 28 Jun 2017 05:35:42: 8000000 INFO @ Wed, 28 Jun 2017 05:35:43: #1 tag size is determined as 42 bps INFO @ Wed, 28 Jun 2017 05:35:43: #1 tag size = 42 INFO @ Wed, 28 Jun 2017 05:35:43: #1 total tags in treatment: 8137506 INFO @ Wed, 28 Jun 2017 05:35:43: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:35:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 05:35:43: #1 tags after filtering in treatment: 8137506 INFO @ Wed, 28 Jun 2017 05:35:43: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:35:43: #1 finished! INFO @ Wed, 28 Jun 2017 05:35:43: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:35:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:35:43: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:35:43: 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, 28 Jun 2017 05:35:43: Process for pairing-model is terminated! cat: SRX149457.05_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 `SRX149457.05_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 `SRX149457.05_*.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 `SRX149457.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。