Job ID = 11192619 sra ファイルのダウンロード中... Completed: 360795K bytes transferred in 6 seconds (454828K 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... Read 9999551 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1143273/SRR2156285.sra Written 9999551 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1143273/SRR2156285.sra 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 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: 00:02:56 9999551 reads; of these: 9999551 (100.00%) were unpaired; of these: 1113145 (11.13%) aligned 0 times 8106262 (81.07%) aligned exactly 1 time 780144 (7.80%) aligned >1 times 88.87% overall alignment rate Time searching: 00:02:56 Overall time: 00:02:56 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] 2380925 / 8886406 = 0.2679 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 @ Sat, 15 Sep 2018 09:36:20: # Command line: callpeak -t SRX1143273.bam -f BAM -g 12100000 -n SRX1143273.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1143273.20 # format = BAM # ChIP-seq file = ['SRX1143273.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 @ Sat, 15 Sep 2018 09:36:20: # Command line: callpeak -t SRX1143273.bam -f BAM -g 12100000 -n SRX1143273.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1143273.10 # format = BAM # ChIP-seq file = ['SRX1143273.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 @ Sat, 15 Sep 2018 09:36:20: # Command line: callpeak -t SRX1143273.bam -f BAM -g 12100000 -n SRX1143273.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1143273.05 # format = BAM # ChIP-seq file = ['SRX1143273.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 @ Sat, 15 Sep 2018 09:36:20: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:36:20: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:36:20: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:36:20: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:36:20: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:36:20: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:36:28: 1000000 INFO @ Sat, 15 Sep 2018 09:36:28: 1000000 INFO @ Sat, 15 Sep 2018 09:36:28: 1000000 INFO @ Sat, 15 Sep 2018 09:36:36: 2000000 INFO @ Sat, 15 Sep 2018 09:36:36: 2000000 INFO @ Sat, 15 Sep 2018 09:36:36: 2000000 INFO @ Sat, 15 Sep 2018 09:36:43: 3000000 INFO @ Sat, 15 Sep 2018 09:36:43: 3000000 INFO @ Sat, 15 Sep 2018 09:36:45: 3000000 INFO @ Sat, 15 Sep 2018 09:36:51: 4000000 INFO @ Sat, 15 Sep 2018 09:36:51: 4000000 INFO @ Sat, 15 Sep 2018 09:36:53: 4000000 INFO @ Sat, 15 Sep 2018 09:36:59: 5000000 INFO @ Sat, 15 Sep 2018 09:36:59: 5000000 INFO @ Sat, 15 Sep 2018 09:37:01: 5000000 INFO @ Sat, 15 Sep 2018 09:37:06: 6000000 INFO @ Sat, 15 Sep 2018 09:37:06: 6000000 INFO @ Sat, 15 Sep 2018 09:37:10: 6000000 INFO @ Sat, 15 Sep 2018 09:37:10: #1 tag size is determined as 75 bps INFO @ Sat, 15 Sep 2018 09:37:10: #1 tag size = 75 INFO @ Sat, 15 Sep 2018 09:37:10: #1 total tags in treatment: 6505481 INFO @ Sat, 15 Sep 2018 09:37:10: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:37:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 09:37:10: #1 tag size is determined as 75 bps INFO @ Sat, 15 Sep 2018 09:37:10: #1 tag size = 75 INFO @ Sat, 15 Sep 2018 09:37:10: #1 total tags in treatment: 6505481 INFO @ Sat, 15 Sep 2018 09:37:10: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:37:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 09:37:10: #1 tags after filtering in treatment: 6505481 INFO @ Sat, 15 Sep 2018 09:37:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:37:10: #1 finished! INFO @ Sat, 15 Sep 2018 09:37:10: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:37:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:37:10: #1 tags after filtering in treatment: 6505481 INFO @ Sat, 15 Sep 2018 09:37:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:37:10: #1 finished! INFO @ Sat, 15 Sep 2018 09:37:10: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:37:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:37:11: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:37:11: 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 @ Sat, 15 Sep 2018 09:37:11: Process for pairing-model is terminated! cat: SRX1143273.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Sat, 15 Sep 2018 09:37:11: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:37:11: 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 @ Sat, 15 Sep 2018 09:37:11: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) cat: SRX1143273.05_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 `SRX1143273.20_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 `SRX1143273.20_*.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 `SRX1143273.20_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1143273.05_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 `SRX1143273.05_*.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 `SRX1143273.05_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 @ Sat, 15 Sep 2018 09:37:13: #1 tag size is determined as 75 bps INFO @ Sat, 15 Sep 2018 09:37:13: #1 tag size = 75 INFO @ Sat, 15 Sep 2018 09:37:13: #1 total tags in treatment: 6505481 INFO @ Sat, 15 Sep 2018 09:37:13: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:37:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 09:37:13: #1 tags after filtering in treatment: 6505481 INFO @ Sat, 15 Sep 2018 09:37:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:37:13: #1 finished! INFO @ Sat, 15 Sep 2018 09:37:13: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:37:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:37:14: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:37:14: 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 @ Sat, 15 Sep 2018 09:37:14: Process for pairing-model is terminated! cat: SRX1143273.10_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 `SRX1143273.10_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 `SRX1143273.10_*.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 `SRX1143273.10_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。