Job ID = 9162144 sra ファイルのダウンロード中... Completed: 1758148K bytes transferred in 15 seconds (913413K 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 26633213 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1702423/SRR3375888.sra Written 26633213 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: 00:10:59 26633213 reads; of these: 26633213 (100.00%) were unpaired; of these: 1469541 (5.52%) aligned 0 times 21964943 (82.47%) aligned exactly 1 time 3198729 (12.01%) aligned >1 times 94.48% overall alignment rate Time searching: 00:10:59 Overall time: 00:10:59 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 20 files... [bam_rmdupse_core] 19398552 / 25163672 = 0.7709 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 06:34:08: # Command line: callpeak -t SRX1702423.bam -f BAM -g 12100000 -n SRX1702423.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1702423.05 # format = BAM # ChIP-seq file = ['SRX1702423.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 06:34:08: # Command line: callpeak -t SRX1702423.bam -f BAM -g 12100000 -n SRX1702423.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1702423.10 # format = BAM # ChIP-seq file = ['SRX1702423.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 06:34:08: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:34:08: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:34:08: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:34:08: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:34:08: # Command line: callpeak -t SRX1702423.bam -f BAM -g 12100000 -n SRX1702423.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1702423.20 # format = BAM # ChIP-seq file = ['SRX1702423.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 06:34:08: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:34:08: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:34:17: 1000000 INFO @ Wed, 28 Jun 2017 06:34:17: 1000000 INFO @ Wed, 28 Jun 2017 06:34:17: 1000000 INFO @ Wed, 28 Jun 2017 06:34:26: 2000000 INFO @ Wed, 28 Jun 2017 06:34:26: 2000000 INFO @ Wed, 28 Jun 2017 06:34:26: 2000000 INFO @ Wed, 28 Jun 2017 06:34:35: 3000000 INFO @ Wed, 28 Jun 2017 06:34:35: 3000000 INFO @ Wed, 28 Jun 2017 06:34:36: 3000000 INFO @ Wed, 28 Jun 2017 06:34:44: 4000000 INFO @ Wed, 28 Jun 2017 06:34:45: 4000000 INFO @ Wed, 28 Jun 2017 06:34:47: 4000000 INFO @ Wed, 28 Jun 2017 06:34:54: 5000000 INFO @ Wed, 28 Jun 2017 06:34:54: 5000000 INFO @ Wed, 28 Jun 2017 06:34:57: 5000000 INFO @ Wed, 28 Jun 2017 06:35:01: #1 tag size is determined as 128 bps INFO @ Wed, 28 Jun 2017 06:35:01: #1 tag size = 128 INFO @ Wed, 28 Jun 2017 06:35:01: #1 total tags in treatment: 5765120 INFO @ Wed, 28 Jun 2017 06:35:01: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:35:01: #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 06:35:01: #1 tags after filtering in treatment: 5765120 INFO @ Wed, 28 Jun 2017 06:35:01: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:35:01: #1 finished! INFO @ Wed, 28 Jun 2017 06:35:01: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:35:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:35:01: #1 tag size is determined as 128 bps INFO @ Wed, 28 Jun 2017 06:35:01: #1 tag size = 128 INFO @ Wed, 28 Jun 2017 06:35:01: #1 total tags in treatment: 5765120 INFO @ Wed, 28 Jun 2017 06:35:01: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:35:01: #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 06:35:01: #1 tags after filtering in treatment: 5765120 INFO @ Wed, 28 Jun 2017 06:35:01: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:35:01: #1 finished! INFO @ Wed, 28 Jun 2017 06:35:01: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:35:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:35:02: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:35:02: 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 06:35:02: Process for pairing-model is terminated! cat: SRX1702423.20_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 `SRX1702423.20_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 `SRX1702423.20_*.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 `SRX1702423.20_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 06:35:02: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:35:02: 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 06:35:02: Process for pairing-model is terminated! cat: SRX1702423.05_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 `SRX1702423.05_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 `SRX1702423.05_*.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 `SRX1702423.05_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, 28 Jun 2017 06:35:04: #1 tag size is determined as 128 bps INFO @ Wed, 28 Jun 2017 06:35:04: #1 tag size = 128 INFO @ Wed, 28 Jun 2017 06:35:04: #1 total tags in treatment: 5765120 INFO @ Wed, 28 Jun 2017 06:35:04: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:35:04: #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 06:35:04: #1 tags after filtering in treatment: 5765120 INFO @ Wed, 28 Jun 2017 06:35:04: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:35:04: #1 finished! INFO @ Wed, 28 Jun 2017 06:35:04: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:35:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:35:05: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:35:05: 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 06:35:05: Process for pairing-model is terminated! cat: SRX1702423.10_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 `SRX1702423.10_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 `SRX1702423.10_*.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 `SRX1702423.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。