Job ID = 9162072 sra ファイルのダウンロード中... Completed: 385509K bytes transferred in 5 seconds (568836K 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 16923184 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1585396/SRR3170284.sra Written 16923184 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: 00:03:09 16923184 reads; of these: 16923184 (100.00%) were unpaired; of these: 2295926 (13.57%) aligned 0 times 12742997 (75.30%) aligned exactly 1 time 1884261 (11.13%) aligned >1 times 86.43% overall alignment rate Time searching: 00:03:09 Overall time: 00:03:09 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] 4980465 / 14627258 = 0.3405 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 05:50:10: # Command line: callpeak -t SRX1585396.bam -f BAM -g 12100000 -n SRX1585396.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1585396.05 # format = BAM # ChIP-seq file = ['SRX1585396.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 05:50:10: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:50:10: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:50:10: # Command line: callpeak -t SRX1585396.bam -f BAM -g 12100000 -n SRX1585396.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1585396.10 # format = BAM # ChIP-seq file = ['SRX1585396.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 05:50:10: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:50:10: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:50:10: # Command line: callpeak -t SRX1585396.bam -f BAM -g 12100000 -n SRX1585396.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1585396.20 # format = BAM # ChIP-seq file = ['SRX1585396.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 05:50:10: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:50:10: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:50:20: 1000000 INFO @ Wed, 28 Jun 2017 05:50:20: 1000000 INFO @ Wed, 28 Jun 2017 05:50:21: 1000000 INFO @ Wed, 28 Jun 2017 05:50:30: 2000000 INFO @ Wed, 28 Jun 2017 05:50:31: 2000000 INFO @ Wed, 28 Jun 2017 05:50:32: 2000000 INFO @ Wed, 28 Jun 2017 05:50:39: 3000000 INFO @ Wed, 28 Jun 2017 05:50:43: 3000000 INFO @ Wed, 28 Jun 2017 05:50:43: 3000000 INFO @ Wed, 28 Jun 2017 05:50:49: 4000000 INFO @ Wed, 28 Jun 2017 05:50:53: 4000000 INFO @ Wed, 28 Jun 2017 05:50:54: 4000000 INFO @ Wed, 28 Jun 2017 05:50:58: 5000000 INFO @ Wed, 28 Jun 2017 05:51:03: 5000000 INFO @ Wed, 28 Jun 2017 05:51:04: 5000000 INFO @ Wed, 28 Jun 2017 05:51:07: 6000000 INFO @ Wed, 28 Jun 2017 05:51:14: 6000000 INFO @ Wed, 28 Jun 2017 05:51:15: 6000000 INFO @ Wed, 28 Jun 2017 05:51:16: 7000000 INFO @ Wed, 28 Jun 2017 05:51:24: 7000000 INFO @ Wed, 28 Jun 2017 05:51:25: 7000000 INFO @ Wed, 28 Jun 2017 05:51:25: 8000000 INFO @ Wed, 28 Jun 2017 05:51:34: 9000000 INFO @ Wed, 28 Jun 2017 05:51:34: 8000000 INFO @ Wed, 28 Jun 2017 05:51:35: 8000000 INFO @ Wed, 28 Jun 2017 05:51:39: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:51:39: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:51:39: #1 total tags in treatment: 9646793 INFO @ Wed, 28 Jun 2017 05:51:39: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:51:39: #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 05:51:39: #1 tags after filtering in treatment: 9646793 INFO @ Wed, 28 Jun 2017 05:51:39: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:51:39: #1 finished! INFO @ Wed, 28 Jun 2017 05:51:39: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:51:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:51:40: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:51:40: 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 05:51:40: Process for pairing-model is terminated! cat: SRX1585396.20_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 `SRX1585396.20_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 `SRX1585396.20_*.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 `SRX1585396.20_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 05:51:44: 9000000 INFO @ Wed, 28 Jun 2017 05:51:44: 9000000 INFO @ Wed, 28 Jun 2017 05:51:48: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:51:48: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:51:48: #1 total tags in treatment: 9646793 INFO @ Wed, 28 Jun 2017 05:51:48: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:51:48: #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 05:51:49: #1 tags after filtering in treatment: 9646793 INFO @ Wed, 28 Jun 2017 05:51:49: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:51:49: #1 finished! INFO @ Wed, 28 Jun 2017 05:51:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:51:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:51:49: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:51:49: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:51:49: #1 total tags in treatment: 9646793 INFO @ Wed, 28 Jun 2017 05:51:49: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:51:49: #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 05:51:49: #1 tags after filtering in treatment: 9646793 INFO @ Wed, 28 Jun 2017 05:51:49: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:51:49: #1 finished! INFO @ Wed, 28 Jun 2017 05:51:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:51:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:51:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:51:49: 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 05:51:49: Process for pairing-model is terminated! cat: SRX1585396.10_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 `SRX1585396.10_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 `SRX1585396.10_*.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 `SRX1585396.10_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 05:51:50: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:51:50: 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 05:51:50: Process for pairing-model is terminated! cat: SRX1585396.05_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 `SRX1585396.05_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 `SRX1585396.05_*.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 `SRX1585396.05_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。