Job ID = 9162021 sra ファイルのダウンロード中... Completed: 1124810K bytes transferred in 13 seconds (658777K 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 45025659 spots for /home/okishinya/chipatlas/results/sacCer3/SRX149456/SRR500619.sra Written 45025659 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: 00:06:24 45025659 reads; of these: 45025659 (100.00%) were unpaired; of these: 8754995 (19.44%) aligned 0 times 30380922 (67.47%) aligned exactly 1 time 5889742 (13.08%) aligned >1 times 80.56% overall alignment rate Time searching: 00:06:24 Overall time: 00:06:24 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 12 files... [bam_rmdupse_core] 23181336 / 36270664 = 0.6391 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 05:43:11: # Command line: callpeak -t SRX149456.bam -f BAM -g 12100000 -n SRX149456.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX149456.10 # format = BAM # ChIP-seq file = ['SRX149456.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 05:43:11: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:43:11: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:43:11: # Command line: callpeak -t SRX149456.bam -f BAM -g 12100000 -n SRX149456.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX149456.05 # format = BAM # ChIP-seq file = ['SRX149456.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 05:43:11: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:43:11: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:43:11: # Command line: callpeak -t SRX149456.bam -f BAM -g 12100000 -n SRX149456.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX149456.20 # format = BAM # ChIP-seq file = ['SRX149456.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 05:43:11: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:43:11: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:43:18: 1000000 INFO @ Wed, 28 Jun 2017 05:43:18: 1000000 INFO @ Wed, 28 Jun 2017 05:43:18: 1000000 INFO @ Wed, 28 Jun 2017 05:43:24: 2000000 INFO @ Wed, 28 Jun 2017 05:43:25: 2000000 INFO @ Wed, 28 Jun 2017 05:43:25: 2000000 INFO @ Wed, 28 Jun 2017 05:43:31: 3000000 INFO @ Wed, 28 Jun 2017 05:43:31: 3000000 INFO @ Wed, 28 Jun 2017 05:43:31: 3000000 INFO @ Wed, 28 Jun 2017 05:43:38: 4000000 INFO @ Wed, 28 Jun 2017 05:43:38: 4000000 INFO @ Wed, 28 Jun 2017 05:43:38: 4000000 INFO @ Wed, 28 Jun 2017 05:43:45: 5000000 INFO @ Wed, 28 Jun 2017 05:43:45: 5000000 INFO @ Wed, 28 Jun 2017 05:43:46: 5000000 INFO @ Wed, 28 Jun 2017 05:43:52: 6000000 INFO @ Wed, 28 Jun 2017 05:43:52: 6000000 INFO @ Wed, 28 Jun 2017 05:43:52: 6000000 INFO @ Wed, 28 Jun 2017 05:43:59: 7000000 INFO @ Wed, 28 Jun 2017 05:43:59: 7000000 INFO @ Wed, 28 Jun 2017 05:43:59: 7000000 INFO @ Wed, 28 Jun 2017 05:44:06: 8000000 INFO @ Wed, 28 Jun 2017 05:44:06: 8000000 INFO @ Wed, 28 Jun 2017 05:44:06: 8000000 INFO @ Wed, 28 Jun 2017 05:44:12: 9000000 INFO @ Wed, 28 Jun 2017 05:44:12: 9000000 INFO @ Wed, 28 Jun 2017 05:44:12: 9000000 INFO @ Wed, 28 Jun 2017 05:44:19: 10000000 INFO @ Wed, 28 Jun 2017 05:44:19: 10000000 INFO @ Wed, 28 Jun 2017 05:44:19: 10000000 INFO @ Wed, 28 Jun 2017 05:44:25: 11000000 INFO @ Wed, 28 Jun 2017 05:44:26: 11000000 INFO @ Wed, 28 Jun 2017 05:44:26: 11000000 INFO @ Wed, 28 Jun 2017 05:44:32: 12000000 INFO @ Wed, 28 Jun 2017 05:44:32: 12000000 INFO @ Wed, 28 Jun 2017 05:44:32: 12000000 INFO @ Wed, 28 Jun 2017 05:44:39: 13000000 INFO @ Wed, 28 Jun 2017 05:44:39: 13000000 INFO @ Wed, 28 Jun 2017 05:44:39: 13000000 INFO @ Wed, 28 Jun 2017 05:44:39: #1 tag size is determined as 39 bps INFO @ Wed, 28 Jun 2017 05:44:39: #1 tag size = 39 INFO @ Wed, 28 Jun 2017 05:44:39: #1 total tags in treatment: 13089328 INFO @ Wed, 28 Jun 2017 05:44:39: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:44:39: #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 05:44:39: #1 tags after filtering in treatment: 13089328 INFO @ Wed, 28 Jun 2017 05:44:39: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:44:39: #1 finished! INFO @ Wed, 28 Jun 2017 05:44:39: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:44:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:44:40: #1 tag size is determined as 39 bps INFO @ Wed, 28 Jun 2017 05:44:40: #1 tag size = 39 INFO @ Wed, 28 Jun 2017 05:44:40: #1 total tags in treatment: 13089328 INFO @ Wed, 28 Jun 2017 05:44:40: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:44:40: #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 05:44:40: #1 tag size is determined as 39 bps INFO @ Wed, 28 Jun 2017 05:44:40: #1 tag size = 39 INFO @ Wed, 28 Jun 2017 05:44:40: #1 total tags in treatment: 13089328 INFO @ Wed, 28 Jun 2017 05:44:40: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:44:40: #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 05:44:40: #1 tags after filtering in treatment: 13089328 INFO @ Wed, 28 Jun 2017 05:44:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:44:40: #1 finished! INFO @ Wed, 28 Jun 2017 05:44:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:44:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:44:40: #1 tags after filtering in treatment: 13089328 INFO @ Wed, 28 Jun 2017 05:44:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:44:40: #1 finished! INFO @ Wed, 28 Jun 2017 05:44:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:44:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:44:40: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:44:40: 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, 28 Jun 2017 05:44:40: Process for pairing-model is terminated! cat: SRX149456.20_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 `SRX149456.20_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 `SRX149456.20_*.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 `SRX149456.20_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 05:44:41: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:44:41: 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, 28 Jun 2017 05:44:41: Process for pairing-model is terminated! cat: SRX149456.10_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 `SRX149456.10_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 `SRX149456.10_*.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 `SRX149456.10_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 05:44:41: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:44:41: 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, 28 Jun 2017 05:44:41: Process for pairing-model is terminated! cat: SRX149456.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX149456.05_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 `SRX149456.05_*.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 `SRX149456.05_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。