Job ID = 9162141 sra ファイルのダウンロード中... Completed: 1885614K bytes transferred in 16 seconds (922109K 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 29932782 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1702420/SRR3375885.sra Written 29932782 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: 00:12:58 29932782 reads; of these: 29932782 (100.00%) were unpaired; of these: 1246205 (4.16%) aligned 0 times 23227589 (77.60%) aligned exactly 1 time 5458988 (18.24%) aligned >1 times 95.84% overall alignment rate Time searching: 00:12:58 Overall time: 00:12:58 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_sort_core] merging from 24 files... [bam_rmdupse_core] 21985876 / 28686577 = 0.7664 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 06:35:56: # Command line: callpeak -t SRX1702420.bam -f BAM -g 12100000 -n SRX1702420.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1702420.20 # format = BAM # ChIP-seq file = ['SRX1702420.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 06:35:56: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:35:56: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:35:56: # Command line: callpeak -t SRX1702420.bam -f BAM -g 12100000 -n SRX1702420.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1702420.10 # format = BAM # ChIP-seq file = ['SRX1702420.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 06:35:56: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:35:56: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:35:56: # Command line: callpeak -t SRX1702420.bam -f BAM -g 12100000 -n SRX1702420.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1702420.05 # format = BAM # ChIP-seq file = ['SRX1702420.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 06:35:56: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:35:56: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:36:05: 1000000 INFO @ Wed, 28 Jun 2017 06:36:05: 1000000 INFO @ Wed, 28 Jun 2017 06:36:05: 1000000 INFO @ Wed, 28 Jun 2017 06:36:14: 2000000 INFO @ Wed, 28 Jun 2017 06:36:15: 2000000 INFO @ Wed, 28 Jun 2017 06:36:15: 2000000 INFO @ Wed, 28 Jun 2017 06:36:22: 3000000 INFO @ Wed, 28 Jun 2017 06:36:25: 3000000 INFO @ Wed, 28 Jun 2017 06:36:25: 3000000 INFO @ Wed, 28 Jun 2017 06:36:31: 4000000 INFO @ Wed, 28 Jun 2017 06:36:35: 4000000 INFO @ Wed, 28 Jun 2017 06:36:35: 4000000 INFO @ Wed, 28 Jun 2017 06:36:40: 5000000 INFO @ Wed, 28 Jun 2017 06:36:45: 5000000 INFO @ Wed, 28 Jun 2017 06:36:45: 5000000 INFO @ Wed, 28 Jun 2017 06:36:48: 6000000 INFO @ Wed, 28 Jun 2017 06:36:54: #1 tag size is determined as 122 bps INFO @ Wed, 28 Jun 2017 06:36:54: #1 tag size = 122 INFO @ Wed, 28 Jun 2017 06:36:54: #1 total tags in treatment: 6700701 INFO @ Wed, 28 Jun 2017 06:36:54: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:36:54: #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 06:36:55: #1 tags after filtering in treatment: 6700701 INFO @ Wed, 28 Jun 2017 06:36:55: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:36:55: #1 finished! INFO @ Wed, 28 Jun 2017 06:36:55: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:36:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:36:55: 6000000 INFO @ Wed, 28 Jun 2017 06:36:55: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:36:55: 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 06:36:55: Process for pairing-model is terminated! cat: SRX1702420.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1702420.20_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 `SRX1702420.20_*.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 `SRX1702420.20_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 06:36:55: 6000000 INFO @ Wed, 28 Jun 2017 06:37:02: #1 tag size is determined as 122 bps INFO @ Wed, 28 Jun 2017 06:37:02: #1 tag size = 122 INFO @ Wed, 28 Jun 2017 06:37:02: #1 total tags in treatment: 6700701 INFO @ Wed, 28 Jun 2017 06:37:02: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:37:02: #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 06:37:02: #1 tags after filtering in treatment: 6700701 INFO @ Wed, 28 Jun 2017 06:37:02: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:37:02: #1 finished! INFO @ Wed, 28 Jun 2017 06:37:02: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:37:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:37:02: #1 tag size is determined as 122 bps INFO @ Wed, 28 Jun 2017 06:37:02: #1 tag size = 122 INFO @ Wed, 28 Jun 2017 06:37:02: #1 total tags in treatment: 6700701 INFO @ Wed, 28 Jun 2017 06:37:02: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:37:02: #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 06:37:02: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:37:02: 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 06:37:02: Process for pairing-model is terminated! cat: SRX1702420.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 06:37:02: #1 tags after filtering in treatment: 6700701 INFO @ Wed, 28 Jun 2017 06:37:02: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:37:02: #1 finished! INFO @ Wed, 28 Jun 2017 06:37:02: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:37:02: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1702420.05_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 `SRX1702420.05_*.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 `SRX1702420.05_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 06:37:03: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:37:03: 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 06:37:03: Process for pairing-model is terminated! cat: SRX1702420.10_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 `SRX1702420.10_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 `SRX1702420.10_*.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 `SRX1702420.10_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。