Job ID = 10254453 sra ファイルのダウンロード中... Completed: 168498K bytes transferred in 7 seconds (177069K bits/sec), in 1 file. Completed: 121524K bytes transferred in 6 seconds (149060K bits/sec), in 1 file. 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 4786529 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353391/SRR6246257.sra Written 4786529 spots total Written 6669994 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353391/SRR6246256.sra Written 6669994 spots total rm: cannot remove `[DSE]RX*': 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: 00:01:49 11456523 reads; of these: 11456523 (100.00%) were unpaired; of these: 3494998 (30.51%) aligned 0 times 7025191 (61.32%) aligned exactly 1 time 936334 (8.17%) aligned >1 times 69.49% overall alignment rate Time searching: 00:01:49 Overall time: 00:01:49 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_rmdupse_core] 2351535 / 7961525 = 0.2954 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, 06 Dec 2017 18:18:57: # Command line: callpeak -t SRX3353391.bam -f BAM -g 12100000 -n SRX3353391.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3353391.05 # format = BAM # ChIP-seq file = ['SRX3353391.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, 06 Dec 2017 18:18:57: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:18:57: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:18:57: # Command line: callpeak -t SRX3353391.bam -f BAM -g 12100000 -n SRX3353391.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3353391.10 # format = BAM # ChIP-seq file = ['SRX3353391.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, 06 Dec 2017 18:18:57: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:18:57: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:18:57: # Command line: callpeak -t SRX3353391.bam -f BAM -g 12100000 -n SRX3353391.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3353391.20 # format = BAM # ChIP-seq file = ['SRX3353391.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, 06 Dec 2017 18:18:57: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:18:57: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:19:04: 1000000 INFO @ Wed, 06 Dec 2017 18:19:04: 1000000 INFO @ Wed, 06 Dec 2017 18:19:04: 1000000 INFO @ Wed, 06 Dec 2017 18:19:11: 2000000 INFO @ Wed, 06 Dec 2017 18:19:11: 2000000 INFO @ Wed, 06 Dec 2017 18:19:12: 2000000 INFO @ Wed, 06 Dec 2017 18:19:18: 3000000 INFO @ Wed, 06 Dec 2017 18:19:18: 3000000 INFO @ Wed, 06 Dec 2017 18:19:19: 3000000 INFO @ Wed, 06 Dec 2017 18:19:25: 4000000 INFO @ Wed, 06 Dec 2017 18:19:26: 4000000 INFO @ Wed, 06 Dec 2017 18:19:27: 4000000 INFO @ Wed, 06 Dec 2017 18:19:33: 5000000 INFO @ Wed, 06 Dec 2017 18:19:34: 5000000 INFO @ Wed, 06 Dec 2017 18:19:34: 5000000 INFO @ Wed, 06 Dec 2017 18:19:37: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:19:37: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:19:37: #1 total tags in treatment: 5609990 INFO @ Wed, 06 Dec 2017 18:19:37: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:19:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 18:19:37: #1 tags after filtering in treatment: 5609990 INFO @ Wed, 06 Dec 2017 18:19:37: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:19:37: #1 finished! INFO @ Wed, 06 Dec 2017 18:19:37: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:19:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:19:37: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:19:37: 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, 06 Dec 2017 18:19:37: Process for pairing-model is terminated! cat: SRX3353391.20_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 `SRX3353391.20_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 `SRX3353391.20_*.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 `SRX3353391.20_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, 06 Dec 2017 18:19:38: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:19:38: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:19:38: #1 total tags in treatment: 5609990 INFO @ Wed, 06 Dec 2017 18:19:38: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:19:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 18:19:38: #1 tags after filtering in treatment: 5609990 INFO @ Wed, 06 Dec 2017 18:19:38: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:19:38: #1 finished! INFO @ Wed, 06 Dec 2017 18:19:38: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:19:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:19:39: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:19:39: 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, 06 Dec 2017 18:19:39: Process for pairing-model is terminated! cat: SRX3353391.05_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 `SRX3353391.05_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 `SRX3353391.05_*.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 `SRX3353391.05_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, 06 Dec 2017 18:19:39: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:19:39: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:19:39: #1 total tags in treatment: 5609990 INFO @ Wed, 06 Dec 2017 18:19:39: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:19:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 18:19:39: #1 tags after filtering in treatment: 5609990 INFO @ Wed, 06 Dec 2017 18:19:39: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:19:39: #1 finished! INFO @ Wed, 06 Dec 2017 18:19:39: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:19:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:19:39: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:19:39: 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, 06 Dec 2017 18:19:39: Process for pairing-model is terminated! cat: SRX3353391.10_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 `SRX3353391.10_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 `SRX3353391.10_*.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 `SRX3353391.10_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。