Job ID = 11162628 sra ファイルのダウンロード中... Completed: 932056K bytes transferred in 15 seconds (499985K 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 29015629 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585231/SRR6495930.sra Written 29015629 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585231/SRR6495930.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: 00:04:47 29015629 reads; of these: 29015629 (100.00%) were unpaired; of these: 3029035 (10.44%) aligned 0 times 23810194 (82.06%) aligned exactly 1 time 2176400 (7.50%) aligned >1 times 89.56% overall alignment rate Time searching: 00:04:47 Overall time: 00:04:47 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 12 files... [bam_rmdupse_core] 14473286 / 25986594 = 0.5570 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, 05 Sep 2018 10:47:13: # Command line: callpeak -t SRX3585231.bam -f BAM -g 12100000 -n SRX3585231.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585231.05 # format = BAM # ChIP-seq file = ['SRX3585231.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, 05 Sep 2018 10:47:13: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:47:13: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:47:13: # Command line: callpeak -t SRX3585231.bam -f BAM -g 12100000 -n SRX3585231.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585231.20 # format = BAM # ChIP-seq file = ['SRX3585231.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, 05 Sep 2018 10:47:13: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:47:13: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:47:13: # Command line: callpeak -t SRX3585231.bam -f BAM -g 12100000 -n SRX3585231.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585231.10 # format = BAM # ChIP-seq file = ['SRX3585231.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, 05 Sep 2018 10:47:13: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:47:13: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:47:20: 1000000 INFO @ Wed, 05 Sep 2018 10:47:20: 1000000 INFO @ Wed, 05 Sep 2018 10:47:20: 1000000 INFO @ Wed, 05 Sep 2018 10:47:26: 2000000 INFO @ Wed, 05 Sep 2018 10:47:26: 2000000 INFO @ Wed, 05 Sep 2018 10:47:26: 2000000 INFO @ Wed, 05 Sep 2018 10:47:32: 3000000 INFO @ Wed, 05 Sep 2018 10:47:32: 3000000 INFO @ Wed, 05 Sep 2018 10:47:33: 3000000 INFO @ Wed, 05 Sep 2018 10:47:39: 4000000 INFO @ Wed, 05 Sep 2018 10:47:39: 4000000 INFO @ Wed, 05 Sep 2018 10:47:39: 4000000 INFO @ Wed, 05 Sep 2018 10:47:45: 5000000 INFO @ Wed, 05 Sep 2018 10:47:45: 5000000 INFO @ Wed, 05 Sep 2018 10:47:45: 5000000 INFO @ Wed, 05 Sep 2018 10:47:51: 6000000 INFO @ Wed, 05 Sep 2018 10:47:52: 6000000 INFO @ Wed, 05 Sep 2018 10:47:52: 6000000 INFO @ Wed, 05 Sep 2018 10:47:57: 7000000 INFO @ Wed, 05 Sep 2018 10:47:58: 7000000 INFO @ Wed, 05 Sep 2018 10:47:58: 7000000 INFO @ Wed, 05 Sep 2018 10:48:03: 8000000 INFO @ Wed, 05 Sep 2018 10:48:04: 8000000 INFO @ Wed, 05 Sep 2018 10:48:04: 8000000 INFO @ Wed, 05 Sep 2018 10:48:10: 9000000 INFO @ Wed, 05 Sep 2018 10:48:11: 9000000 INFO @ Wed, 05 Sep 2018 10:48:11: 9000000 INFO @ Wed, 05 Sep 2018 10:48:16: 10000000 INFO @ Wed, 05 Sep 2018 10:48:17: 10000000 INFO @ Wed, 05 Sep 2018 10:48:17: 10000000 INFO @ Wed, 05 Sep 2018 10:48:23: 11000000 INFO @ Wed, 05 Sep 2018 10:48:23: 11000000 INFO @ Wed, 05 Sep 2018 10:48:24: 11000000 INFO @ Wed, 05 Sep 2018 10:48:26: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:48:26: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:48:26: #1 total tags in treatment: 11513308 INFO @ Wed, 05 Sep 2018 10:48:26: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:48:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:48:26: #1 tags after filtering in treatment: 11513308 INFO @ Wed, 05 Sep 2018 10:48:26: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:48:26: #1 finished! INFO @ Wed, 05 Sep 2018 10:48:26: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:48:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:48:27: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:48:27: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:48:27: #1 total tags in treatment: 11513308 INFO @ Wed, 05 Sep 2018 10:48:27: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:48:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:48:27: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:48:27: 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, 05 Sep 2018 10:48:27: Process for pairing-model is terminated! cat: SRX3585231.20_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 @ Wed, 05 Sep 2018 10:48:27: #1 tags after filtering in treatment: 11513308 INFO @ Wed, 05 Sep 2018 10:48:27: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:48:27: #1 finished! INFO @ Wed, 05 Sep 2018 10:48:27: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:48:27: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585231.20_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 `SRX3585231.20_*.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 `SRX3585231.20_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, 05 Sep 2018 10:48:27: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:48:27: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:48:27: #1 total tags in treatment: 11513308 INFO @ Wed, 05 Sep 2018 10:48:27: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:48:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:48:27: #1 tags after filtering in treatment: 11513308 INFO @ Wed, 05 Sep 2018 10:48:27: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:48:27: #1 finished! INFO @ Wed, 05 Sep 2018 10:48:27: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:48:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:48:28: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:48:28: 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, 05 Sep 2018 10:48:28: Process for pairing-model is terminated! cat: SRX3585231.05_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 `SRX3585231.05_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 `SRX3585231.05_*.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 `SRX3585231.05_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, 05 Sep 2018 10:48:28: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:48:28: 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, 05 Sep 2018 10:48:28: Process for pairing-model is terminated! cat: SRX3585231.10_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 `SRX3585231.10_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 `SRX3585231.10_*.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 `SRX3585231.10_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。