Job ID = 9162286 sra ファイルのダウンロード中... Completed: 131829K bytes transferred in 4 seconds (243741K 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 4557641 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1810802/SRR3611462.sra Written 4557641 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: 00:01:00 4557641 reads; of these: 4557641 (100.00%) were unpaired; of these: 2547849 (55.90%) aligned 0 times 1551712 (34.05%) aligned exactly 1 time 458080 (10.05%) aligned >1 times 44.10% overall alignment rate Time searching: 00:01:00 Overall time: 00:01:00 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] 944293 / 2009792 = 0.4698 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 07:13:00: # Command line: callpeak -t SRX1810802.bam -f BAM -g 12100000 -n SRX1810802.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1810802.20 # format = BAM # ChIP-seq file = ['SRX1810802.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 07:13:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:13:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:13:00: # Command line: callpeak -t SRX1810802.bam -f BAM -g 12100000 -n SRX1810802.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1810802.05 # format = BAM # ChIP-seq file = ['SRX1810802.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 07:13:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:13:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:13:00: # Command line: callpeak -t SRX1810802.bam -f BAM -g 12100000 -n SRX1810802.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1810802.10 # format = BAM # ChIP-seq file = ['SRX1810802.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 07:13:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:13:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:13:07: 1000000 INFO @ Wed, 28 Jun 2017 07:13:07: 1000000 INFO @ Wed, 28 Jun 2017 07:13:07: 1000000 INFO @ Wed, 28 Jun 2017 07:13:07: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:13:07: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:13:07: #1 total tags in treatment: 1065499 INFO @ Wed, 28 Jun 2017 07:13:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:13:07: #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 07:13:07: #1 tags after filtering in treatment: 1065499 INFO @ Wed, 28 Jun 2017 07:13:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:13:07: #1 finished! INFO @ Wed, 28 Jun 2017 07:13:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:13:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:13:07: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:13:07: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:13:07: #1 total tags in treatment: 1065499 INFO @ Wed, 28 Jun 2017 07:13:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:13:07: #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 07:13:07: #2 number of paired peaks: 19 WARNING @ Wed, 28 Jun 2017 07:13:07: Too few paired peaks (19) 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 07:13:07: Process for pairing-model is terminated! cat: SRX1810802.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 07:13:07: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:13:07: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:13:07: #1 total tags in treatment: 1065499 INFO @ Wed, 28 Jun 2017 07:13:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:13:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) INFO @ Wed, 28 Jun 2017 07:13:07: #1 tags after filtering in treatment: 1065499 INFO @ Wed, 28 Jun 2017 07:13:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:13:07: #1 finished! INFO @ Wed, 28 Jun 2017 07:13:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:13:07: #2 looking for paired plus/minus strand peaks... rm: cannot remove `SRX1810802.10_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 `SRX1810802.10_*.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 `SRX1810802.10_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 07:13:07: #1 tags after filtering in treatment: 1065499 INFO @ Wed, 28 Jun 2017 07:13:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:13:07: #1 finished! INFO @ Wed, 28 Jun 2017 07:13:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:13:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:13:07: #2 number of paired peaks: 19 WARNING @ Wed, 28 Jun 2017 07:13:07: Too few paired peaks (19) 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 07:13:07: Process for pairing-model is terminated! cat: SRX1810802.20_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 `SRX1810802.20_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 `SRX1810802.20_*.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 `SRX1810802.20_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 07:13:07: #2 number of paired peaks: 19 WARNING @ Wed, 28 Jun 2017 07:13:07: Too few paired peaks (19) 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 07:13:07: Process for pairing-model is terminated! cat: SRX1810802.05_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 `SRX1810802.05_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 `SRX1810802.05_*.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 `SRX1810802.05_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。