Job ID = 9162139 sra ファイルのダウンロード中... Completed: 1768964K bytes transferred in 16 seconds (905690K 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 26790888 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1702418/SRR3375883.sra Written 26790888 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: 00:12:18 26790888 reads; of these: 26790888 (100.00%) were unpaired; of these: 860743 (3.21%) aligned 0 times 23225813 (86.69%) aligned exactly 1 time 2704332 (10.09%) aligned >1 times 96.79% overall alignment rate Time searching: 00:12:18 Overall time: 00:12:18 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] 14464661 / 25930145 = 0.5578 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 06:34:43: # Command line: callpeak -t SRX1702418.bam -f BAM -g 12100000 -n SRX1702418.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1702418.05 # format = BAM # ChIP-seq file = ['SRX1702418.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 06:34:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:34:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:34:43: # Command line: callpeak -t SRX1702418.bam -f BAM -g 12100000 -n SRX1702418.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1702418.10 # format = BAM # ChIP-seq file = ['SRX1702418.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 06:34:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:34:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:34:43: # Command line: callpeak -t SRX1702418.bam -f BAM -g 12100000 -n SRX1702418.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1702418.20 # format = BAM # ChIP-seq file = ['SRX1702418.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 06:34:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:34:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:34:53: 1000000 INFO @ Wed, 28 Jun 2017 06:34:54: 1000000 INFO @ Wed, 28 Jun 2017 06:34:54: 1000000 INFO @ Wed, 28 Jun 2017 06:35:03: 2000000 INFO @ Wed, 28 Jun 2017 06:35:05: 2000000 INFO @ Wed, 28 Jun 2017 06:35:05: 2000000 INFO @ Wed, 28 Jun 2017 06:35:13: 3000000 INFO @ Wed, 28 Jun 2017 06:35:17: 3000000 INFO @ Wed, 28 Jun 2017 06:35:17: 3000000 INFO @ Wed, 28 Jun 2017 06:35:23: 4000000 INFO @ Wed, 28 Jun 2017 06:35:28: 4000000 INFO @ Wed, 28 Jun 2017 06:35:28: 4000000 INFO @ Wed, 28 Jun 2017 06:35:33: 5000000 INFO @ Wed, 28 Jun 2017 06:35:39: 5000000 INFO @ Wed, 28 Jun 2017 06:35:40: 5000000 INFO @ Wed, 28 Jun 2017 06:35:44: 6000000 INFO @ Wed, 28 Jun 2017 06:35:50: 6000000 INFO @ Wed, 28 Jun 2017 06:35:53: 6000000 INFO @ Wed, 28 Jun 2017 06:35:55: 7000000 INFO @ Wed, 28 Jun 2017 06:36:01: 7000000 INFO @ Wed, 28 Jun 2017 06:36:05: 7000000 INFO @ Wed, 28 Jun 2017 06:36:06: 8000000 INFO @ Wed, 28 Jun 2017 06:36:11: 8000000 INFO @ Wed, 28 Jun 2017 06:36:17: 9000000 INFO @ Wed, 28 Jun 2017 06:36:18: 8000000 INFO @ Wed, 28 Jun 2017 06:36:21: 9000000 INFO @ Wed, 28 Jun 2017 06:36:29: 10000000 INFO @ Wed, 28 Jun 2017 06:36:30: 9000000 INFO @ Wed, 28 Jun 2017 06:36:32: 10000000 INFO @ Wed, 28 Jun 2017 06:36:40: 11000000 INFO @ Wed, 28 Jun 2017 06:36:43: 11000000 INFO @ Wed, 28 Jun 2017 06:36:43: 10000000 INFO @ Wed, 28 Jun 2017 06:36:45: #1 tag size is determined as 138 bps INFO @ Wed, 28 Jun 2017 06:36:45: #1 tag size = 138 INFO @ Wed, 28 Jun 2017 06:36:45: #1 total tags in treatment: 11465484 INFO @ Wed, 28 Jun 2017 06:36:45: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:36:45: #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 06:36:45: #1 tags after filtering in treatment: 11465484 INFO @ Wed, 28 Jun 2017 06:36:45: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:36:45: #1 finished! INFO @ Wed, 28 Jun 2017 06:36:45: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:36:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:36:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:36:46: 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 06:36:46: Process for pairing-model is terminated! cat: SRX1702418.20_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 `SRX1702418.20_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 `SRX1702418.20_*.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 `SRX1702418.20_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 06:36:47: #1 tag size is determined as 138 bps INFO @ Wed, 28 Jun 2017 06:36:47: #1 tag size = 138 INFO @ Wed, 28 Jun 2017 06:36:47: #1 total tags in treatment: 11465484 INFO @ Wed, 28 Jun 2017 06:36:47: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:36:47: #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 06:36:48: #1 tags after filtering in treatment: 11465484 INFO @ Wed, 28 Jun 2017 06:36:48: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:36:48: #1 finished! INFO @ Wed, 28 Jun 2017 06:36:48: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:36:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:36:48: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:36:48: 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 06:36:48: Process for pairing-model is terminated! cat: SRX1702418.05_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 `SRX1702418.05_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 `SRX1702418.05_*.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 `SRX1702418.05_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 06:36:53: 11000000 INFO @ Wed, 28 Jun 2017 06:36:58: #1 tag size is determined as 138 bps INFO @ Wed, 28 Jun 2017 06:36:58: #1 tag size = 138 INFO @ Wed, 28 Jun 2017 06:36:58: #1 total tags in treatment: 11465484 INFO @ Wed, 28 Jun 2017 06:36:58: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:36:58: #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 06:36:58: #1 tags after filtering in treatment: 11465484 INFO @ Wed, 28 Jun 2017 06:36:58: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:36:58: #1 finished! INFO @ Wed, 28 Jun 2017 06:36:58: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:36:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:36:59: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:36:59: 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 06:36:59: Process for pairing-model is terminated! cat: SRX1702418.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1702418.10_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 `SRX1702418.10_*.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 `SRX1702418.10_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。