Job ID = 9162257 sra ファイルのダウンロード中... Completed: 556087K bytes transferred in 6 seconds (680205K 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 16609558 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1791120/SRR3567995.sra Written 16609558 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: 00:03:13 16609558 reads; of these: 16609558 (100.00%) were unpaired; of these: 1886097 (11.36%) aligned 0 times 11055105 (66.56%) aligned exactly 1 time 3668356 (22.09%) aligned >1 times 88.64% overall alignment rate Time searching: 00:03:13 Overall time: 00:03:13 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] 7270020 / 14723461 = 0.4938 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 07:11:25: # Command line: callpeak -t SRX1791120.bam -f BAM -g 12100000 -n SRX1791120.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1791120.05 # format = BAM # ChIP-seq file = ['SRX1791120.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 07:11:25: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:11:25: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:11:25: # Command line: callpeak -t SRX1791120.bam -f BAM -g 12100000 -n SRX1791120.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1791120.10 # format = BAM # ChIP-seq file = ['SRX1791120.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 07:11:25: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:11:25: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:11:25: # Command line: callpeak -t SRX1791120.bam -f BAM -g 12100000 -n SRX1791120.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1791120.20 # format = BAM # ChIP-seq file = ['SRX1791120.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 07:11:25: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:11:25: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:11:34: 1000000 INFO @ Wed, 28 Jun 2017 07:11:34: 1000000 INFO @ Wed, 28 Jun 2017 07:11:34: 1000000 INFO @ Wed, 28 Jun 2017 07:11:43: 2000000 INFO @ Wed, 28 Jun 2017 07:11:43: 2000000 INFO @ Wed, 28 Jun 2017 07:11:43: 2000000 INFO @ Wed, 28 Jun 2017 07:11:52: 3000000 INFO @ Wed, 28 Jun 2017 07:11:52: 3000000 INFO @ Wed, 28 Jun 2017 07:11:52: 3000000 INFO @ Wed, 28 Jun 2017 07:12:01: 4000000 INFO @ Wed, 28 Jun 2017 07:12:01: 4000000 INFO @ Wed, 28 Jun 2017 07:12:01: 4000000 INFO @ Wed, 28 Jun 2017 07:12:09: 5000000 INFO @ Wed, 28 Jun 2017 07:12:09: 5000000 INFO @ Wed, 28 Jun 2017 07:12:10: 5000000 INFO @ Wed, 28 Jun 2017 07:12:18: 6000000 INFO @ Wed, 28 Jun 2017 07:12:18: 6000000 INFO @ Wed, 28 Jun 2017 07:12:18: 6000000 INFO @ Wed, 28 Jun 2017 07:12:27: 7000000 INFO @ Wed, 28 Jun 2017 07:12:27: 7000000 INFO @ Wed, 28 Jun 2017 07:12:27: 7000000 INFO @ Wed, 28 Jun 2017 07:12:31: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:12:31: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:12:31: #1 total tags in treatment: 7453441 INFO @ Wed, 28 Jun 2017 07:12:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:12:31: #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 07:12:31: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:12:31: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:12:31: #1 total tags in treatment: 7453441 INFO @ Wed, 28 Jun 2017 07:12:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:12:31: #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 07:12:31: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:12:31: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:12:31: #1 total tags in treatment: 7453441 INFO @ Wed, 28 Jun 2017 07:12:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:12:31: #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 07:12:31: #1 tags after filtering in treatment: 7453441 INFO @ Wed, 28 Jun 2017 07:12:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:12:31: #1 finished! INFO @ Wed, 28 Jun 2017 07:12:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:12:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:12:31: #1 tags after filtering in treatment: 7453441 INFO @ Wed, 28 Jun 2017 07:12:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:12:31: #1 finished! INFO @ Wed, 28 Jun 2017 07:12:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:12:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:12:31: #1 tags after filtering in treatment: 7453441 INFO @ Wed, 28 Jun 2017 07:12:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:12:31: #1 finished! INFO @ Wed, 28 Jun 2017 07:12:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:12:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:12:31: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:12:31: 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 07:12:31: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 07:12:31: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:12:31: 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 07:12:31: Process for pairing-model is terminated! cat: SRX1791120.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX1791120.10_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1791120.05_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 `SRX1791120.05_*.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 `SRX1791120.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1791120.10_model.r': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling rm: cannot remove `SRX1791120.10_*.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 `SRX1791120.10_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 07:12:31: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:12:31: 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 07:12:31: Process for pairing-model is terminated! cat: SRX1791120.20_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 `SRX1791120.20_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 `SRX1791120.20_*.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 `SRX1791120.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。