Job ID = 9162814 sra ファイルのダウンロード中... Completed: 137665K bytes transferred in 4 seconds (246211K 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 5230402 spots for /home/okishinya/chipatlas/results/sacCer3/SRX385597/SRR1041206.sra Written 5230402 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: 00:01:04 5230402 reads; of these: 5230402 (100.00%) were unpaired; of these: 276292 (5.28%) aligned 0 times 4151893 (79.38%) aligned exactly 1 time 802217 (15.34%) aligned >1 times 94.72% overall alignment rate Time searching: 00:01:04 Overall time: 00:01:04 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] 1265675 / 4954110 = 0.2555 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 08:58:46: # Command line: callpeak -t SRX385597.bam -f BAM -g 12100000 -n SRX385597.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX385597.10 # format = BAM # ChIP-seq file = ['SRX385597.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 08:58:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:58:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:58:46: # Command line: callpeak -t SRX385597.bam -f BAM -g 12100000 -n SRX385597.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX385597.20 # format = BAM # ChIP-seq file = ['SRX385597.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 08:58:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:58:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:58:46: # Command line: callpeak -t SRX385597.bam -f BAM -g 12100000 -n SRX385597.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX385597.05 # format = BAM # ChIP-seq file = ['SRX385597.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 08:58:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:58:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:58:52: 1000000 INFO @ Wed, 28 Jun 2017 08:58:53: 1000000 INFO @ Wed, 28 Jun 2017 08:58:53: 1000000 INFO @ Wed, 28 Jun 2017 08:58:59: 2000000 INFO @ Wed, 28 Jun 2017 08:59:00: 2000000 INFO @ Wed, 28 Jun 2017 08:59:00: 2000000 INFO @ Wed, 28 Jun 2017 08:59:06: 3000000 INFO @ Wed, 28 Jun 2017 08:59:08: 3000000 INFO @ Wed, 28 Jun 2017 08:59:08: 3000000 INFO @ Wed, 28 Jun 2017 08:59:11: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:59:11: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:59:11: #1 total tags in treatment: 3688435 INFO @ Wed, 28 Jun 2017 08:59:11: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:59:11: #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 08:59:11: #1 tags after filtering in treatment: 3688435 INFO @ Wed, 28 Jun 2017 08:59:11: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 08:59:11: #1 finished! INFO @ Wed, 28 Jun 2017 08:59:11: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:59:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:59:11: #2 number of paired peaks: 29 WARNING @ Wed, 28 Jun 2017 08:59:11: Too few paired peaks (29) 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 08:59:11: Process for pairing-model is terminated! cat: SRX385597.05_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 `SRX385597.05_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 `SRX385597.05_*.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 `SRX385597.05_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 08:59:12: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:59:12: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:59:12: #1 total tags in treatment: 3688435 INFO @ Wed, 28 Jun 2017 08:59:12: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:59:12: #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 08:59:12: #1 tags after filtering in treatment: 3688435 INFO @ Wed, 28 Jun 2017 08:59:12: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 08:59:12: #1 finished! INFO @ Wed, 28 Jun 2017 08:59:12: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:59:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:59:13: #2 number of paired peaks: 29 WARNING @ Wed, 28 Jun 2017 08:59:13: Too few paired peaks (29) 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 08:59:13: Process for pairing-model is terminated! cat: SRX385597.20_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 `SRX385597.20_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 `SRX385597.20_*.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 `SRX385597.20_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 08:59:13: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:59:13: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:59:13: #1 total tags in treatment: 3688435 INFO @ Wed, 28 Jun 2017 08:59:13: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:59:13: #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 08:59:13: #1 tags after filtering in treatment: 3688435 INFO @ Wed, 28 Jun 2017 08:59:13: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 08:59:13: #1 finished! INFO @ Wed, 28 Jun 2017 08:59:13: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:59:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:59:14: #2 number of paired peaks: 29 WARNING @ Wed, 28 Jun 2017 08:59:14: Too few paired peaks (29) 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 08:59:14: Process for pairing-model is terminated! cat: SRX385597.10_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 `SRX385597.10_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 `SRX385597.10_*.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 `SRX385597.10_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。