Job ID = 11296186 sra ファイルのダウンロード中... Completed: 307342K bytes transferred in 11 seconds (227455K 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 11161629 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2969155/SRR5770142.sra Written 11161629 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2969155/SRR5770142.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: 00:01:57 11161629 reads; of these: 11161629 (100.00%) were unpaired; of these: 213433 (1.91%) aligned 0 times 9634159 (86.31%) aligned exactly 1 time 1314037 (11.77%) aligned >1 times 98.09% overall alignment rate Time searching: 00:01:57 Overall time: 00:01:57 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] 2850857 / 10948196 = 0.2604 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 @ Mon, 05 Nov 2018 17:32:13: # Command line: callpeak -t SRX2969155.bam -f BAM -g 12100000 -n SRX2969155.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2969155.10 # format = BAM # ChIP-seq file = ['SRX2969155.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 @ Mon, 05 Nov 2018 17:32:13: #1 read tag files... INFO @ Mon, 05 Nov 2018 17:32:13: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 17:32:13: # Command line: callpeak -t SRX2969155.bam -f BAM -g 12100000 -n SRX2969155.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2969155.20 # format = BAM # ChIP-seq file = ['SRX2969155.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 @ Mon, 05 Nov 2018 17:32:13: #1 read tag files... INFO @ Mon, 05 Nov 2018 17:32:13: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 17:32:13: # Command line: callpeak -t SRX2969155.bam -f BAM -g 12100000 -n SRX2969155.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2969155.05 # format = BAM # ChIP-seq file = ['SRX2969155.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 @ Mon, 05 Nov 2018 17:32:13: #1 read tag files... INFO @ Mon, 05 Nov 2018 17:32:13: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 17:32:19: 1000000 INFO @ Mon, 05 Nov 2018 17:32:19: 1000000 INFO @ Mon, 05 Nov 2018 17:32:19: 1000000 INFO @ Mon, 05 Nov 2018 17:32:25: 2000000 INFO @ Mon, 05 Nov 2018 17:32:25: 2000000 INFO @ Mon, 05 Nov 2018 17:32:25: 2000000 INFO @ Mon, 05 Nov 2018 17:32:31: 3000000 INFO @ Mon, 05 Nov 2018 17:32:31: 3000000 INFO @ Mon, 05 Nov 2018 17:32:32: 3000000 INFO @ Mon, 05 Nov 2018 17:32:37: 4000000 INFO @ Mon, 05 Nov 2018 17:32:37: 4000000 INFO @ Mon, 05 Nov 2018 17:32:38: 4000000 INFO @ Mon, 05 Nov 2018 17:32:43: 5000000 INFO @ Mon, 05 Nov 2018 17:32:43: 5000000 INFO @ Mon, 05 Nov 2018 17:32:44: 5000000 INFO @ Mon, 05 Nov 2018 17:32:49: 6000000 INFO @ Mon, 05 Nov 2018 17:32:49: 6000000 INFO @ Mon, 05 Nov 2018 17:32:50: 6000000 INFO @ Mon, 05 Nov 2018 17:32:55: 7000000 INFO @ Mon, 05 Nov 2018 17:32:55: 7000000 INFO @ Mon, 05 Nov 2018 17:32:56: 7000000 INFO @ Mon, 05 Nov 2018 17:33:01: 8000000 INFO @ Mon, 05 Nov 2018 17:33:01: 8000000 INFO @ Mon, 05 Nov 2018 17:33:01: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 17:33:01: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 17:33:01: #1 total tags in treatment: 8097339 INFO @ Mon, 05 Nov 2018 17:33:01: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 17:33:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 17:33:01: #1 tags after filtering in treatment: 8097339 INFO @ Mon, 05 Nov 2018 17:33:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 17:33:01: #1 finished! INFO @ Mon, 05 Nov 2018 17:33:01: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 17:33:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 17:33:02: 8000000 INFO @ Mon, 05 Nov 2018 17:33:02: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 17:33:02: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 17:33:02: #1 total tags in treatment: 8097339 INFO @ Mon, 05 Nov 2018 17:33:02: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 17:33:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 17:33:02: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 17:33:02: 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 @ Mon, 05 Nov 2018 17:33:02: Process for pairing-model is terminated! cat: SRX2969155.05_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 `SRX2969155.05_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 `SRX2969155.05_*.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 `SRX2969155.05_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 @ Mon, 05 Nov 2018 17:33:02: #1 tags after filtering in treatment: 8097339 INFO @ Mon, 05 Nov 2018 17:33:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 17:33:02: #1 finished! INFO @ Mon, 05 Nov 2018 17:33:02: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 17:33:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 17:33:02: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 17:33:02: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 17:33:02: #1 total tags in treatment: 8097339 INFO @ Mon, 05 Nov 2018 17:33:02: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 17:33:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 17:33:03: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 17:33:03: 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 @ Mon, 05 Nov 2018 17:33:03: Process for pairing-model is terminated! cat: SRX2969155.20_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 `SRX2969155.20_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 `SRX2969155.20_*.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 `SRX2969155.20_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 @ Mon, 05 Nov 2018 17:33:03: #1 tags after filtering in treatment: 8097339 INFO @ Mon, 05 Nov 2018 17:33:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 17:33:03: #1 finished! INFO @ Mon, 05 Nov 2018 17:33:03: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 17:33:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 17:33:03: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 17:33:03: 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 @ Mon, 05 Nov 2018 17:33:03: Process for pairing-model is terminated! cat: SRX2969155.10_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 `SRX2969155.10_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 `SRX2969155.10_*.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 `SRX2969155.10_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。