Job ID = 9163591 sra ファイルのダウンロード中... Completed: 623189K bytes transferred in 8 seconds (625084K 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 20431973 spots for /home/okishinya/chipatlas/results/sacCer3/SRX964214/SRR1924321.sra Written 20431973 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: 00:03:28 20431973 reads; of these: 20431973 (100.00%) were unpaired; of these: 993368 (4.86%) aligned 0 times 15754209 (77.11%) aligned exactly 1 time 3684396 (18.03%) aligned >1 times 95.14% overall alignment rate Time searching: 00:03:28 Overall time: 00:03:28 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] 7849995 / 19438605 = 0.4038 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 11:09:17: # Command line: callpeak -t SRX964214.bam -f BAM -g 12100000 -n SRX964214.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX964214.05 # format = BAM # ChIP-seq file = ['SRX964214.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 11:09:17: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:09:17: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:09:17: # Command line: callpeak -t SRX964214.bam -f BAM -g 12100000 -n SRX964214.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX964214.10 # format = BAM # ChIP-seq file = ['SRX964214.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 11:09:17: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:09:17: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:09:17: # Command line: callpeak -t SRX964214.bam -f BAM -g 12100000 -n SRX964214.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX964214.20 # format = BAM # ChIP-seq file = ['SRX964214.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 11:09:17: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:09:17: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:09:23: 1000000 INFO @ Wed, 28 Jun 2017 11:09:23: 1000000 INFO @ Wed, 28 Jun 2017 11:09:23: 1000000 INFO @ Wed, 28 Jun 2017 11:09:30: 2000000 INFO @ Wed, 28 Jun 2017 11:09:30: 2000000 INFO @ Wed, 28 Jun 2017 11:09:30: 2000000 INFO @ Wed, 28 Jun 2017 11:09:36: 3000000 INFO @ Wed, 28 Jun 2017 11:09:36: 3000000 INFO @ Wed, 28 Jun 2017 11:09:37: 3000000 INFO @ Wed, 28 Jun 2017 11:09:43: 4000000 INFO @ Wed, 28 Jun 2017 11:09:43: 4000000 INFO @ Wed, 28 Jun 2017 11:09:44: 4000000 INFO @ Wed, 28 Jun 2017 11:09:49: 5000000 INFO @ Wed, 28 Jun 2017 11:09:50: 5000000 INFO @ Wed, 28 Jun 2017 11:09:51: 5000000 INFO @ Wed, 28 Jun 2017 11:09:55: 6000000 INFO @ Wed, 28 Jun 2017 11:09:58: 6000000 INFO @ Wed, 28 Jun 2017 11:09:59: 6000000 INFO @ Wed, 28 Jun 2017 11:10:02: 7000000 INFO @ Wed, 28 Jun 2017 11:10:05: 7000000 INFO @ Wed, 28 Jun 2017 11:10:06: 7000000 INFO @ Wed, 28 Jun 2017 11:10:08: 8000000 INFO @ Wed, 28 Jun 2017 11:10:12: 8000000 INFO @ Wed, 28 Jun 2017 11:10:13: 8000000 INFO @ Wed, 28 Jun 2017 11:10:15: 9000000 INFO @ Wed, 28 Jun 2017 11:10:18: 9000000 INFO @ Wed, 28 Jun 2017 11:10:20: 9000000 INFO @ Wed, 28 Jun 2017 11:10:22: 10000000 INFO @ Wed, 28 Jun 2017 11:10:25: 10000000 INFO @ Wed, 28 Jun 2017 11:10:27: 10000000 INFO @ Wed, 28 Jun 2017 11:10:29: 11000000 INFO @ Wed, 28 Jun 2017 11:10:31: 11000000 INFO @ Wed, 28 Jun 2017 11:10:33: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 11:10:33: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 11:10:33: #1 total tags in treatment: 11588610 INFO @ Wed, 28 Jun 2017 11:10:33: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:10:33: #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 11:10:33: #1 tags after filtering in treatment: 11588610 INFO @ Wed, 28 Jun 2017 11:10:33: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:10:33: #1 finished! INFO @ Wed, 28 Jun 2017 11:10:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:10:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:10:34: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:10:34: 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 11:10:34: Process for pairing-model is terminated! cat: SRX964214.10_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 `SRX964214.10_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 `SRX964214.10_*.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 `SRX964214.10_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 11:10:34: 11000000 INFO @ Wed, 28 Jun 2017 11:10:35: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 11:10:35: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 11:10:35: #1 total tags in treatment: 11588610 INFO @ Wed, 28 Jun 2017 11:10:35: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:10:35: #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 11:10:35: #1 tags after filtering in treatment: 11588610 INFO @ Wed, 28 Jun 2017 11:10:35: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:10:35: #1 finished! INFO @ Wed, 28 Jun 2017 11:10:35: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:10:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:10:36: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:10:36: 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 11:10:36: Process for pairing-model is terminated! cat: SRX964214.05_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 `SRX964214.05_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 `SRX964214.05_*.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 `SRX964214.05_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 11:10:38: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 11:10:38: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 11:10:38: #1 total tags in treatment: 11588610 INFO @ Wed, 28 Jun 2017 11:10:38: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:10:38: #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 11:10:38: #1 tags after filtering in treatment: 11588610 INFO @ Wed, 28 Jun 2017 11:10:38: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:10:38: #1 finished! INFO @ Wed, 28 Jun 2017 11:10:38: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:10:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:10:39: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:10:39: 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 11:10:39: Process for pairing-model is terminated! cat: SRX964214.20_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 `SRX964214.20_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 `SRX964214.20_*.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 `SRX964214.20_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。