Job ID = 11633996 sra ファイルのダウンロード中... Completed: 229820K bytes transferred in 5 seconds (336212K 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 8652268 spots for /home/okishinya/chipatlas/results/sacCer3/ERX2558643/ERR2540225.sra Written 8652268 spots for /home/okishinya/chipatlas/results/sacCer3/ERX2558643/ERR2540225.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: 00:01:46 8652268 reads; of these: 8652268 (100.00%) were unpaired; of these: 212872 (2.46%) aligned 0 times 5390333 (62.30%) aligned exactly 1 time 3049063 (35.24%) aligned >1 times 97.54% overall alignment rate Time searching: 00:01:46 Overall time: 00:01:46 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] 3371817 / 8439396 = 0.3995 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 @ Fri, 15 Feb 2019 09:27:04: # Command line: callpeak -t ERX2558643.bam -f BAM -g 12100000 -n ERX2558643.05 -q 1e-05 # ARGUMENTS LIST: # name = ERX2558643.05 # format = BAM # ChIP-seq file = ['ERX2558643.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 @ Fri, 15 Feb 2019 09:27:04: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:27:04: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:27:04: # Command line: callpeak -t ERX2558643.bam -f BAM -g 12100000 -n ERX2558643.20 -q 1e-20 # ARGUMENTS LIST: # name = ERX2558643.20 # format = BAM # ChIP-seq file = ['ERX2558643.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 @ Fri, 15 Feb 2019 09:27:04: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:27:04: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:27:04: # Command line: callpeak -t ERX2558643.bam -f BAM -g 12100000 -n ERX2558643.10 -q 1e-10 # ARGUMENTS LIST: # name = ERX2558643.10 # format = BAM # ChIP-seq file = ['ERX2558643.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 @ Fri, 15 Feb 2019 09:27:04: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:27:04: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:27:12: 1000000 INFO @ Fri, 15 Feb 2019 09:27:12: 1000000 INFO @ Fri, 15 Feb 2019 09:27:12: 1000000 INFO @ Fri, 15 Feb 2019 09:27:19: 2000000 INFO @ Fri, 15 Feb 2019 09:27:19: 2000000 INFO @ Fri, 15 Feb 2019 09:27:19: 2000000 INFO @ Fri, 15 Feb 2019 09:27:26: 3000000 INFO @ Fri, 15 Feb 2019 09:27:26: 3000000 INFO @ Fri, 15 Feb 2019 09:27:26: 3000000 INFO @ Fri, 15 Feb 2019 09:27:33: 4000000 INFO @ Fri, 15 Feb 2019 09:27:33: 4000000 INFO @ Fri, 15 Feb 2019 09:27:33: 4000000 INFO @ Fri, 15 Feb 2019 09:27:40: 5000000 INFO @ Fri, 15 Feb 2019 09:27:40: #1 tag size is determined as 66 bps INFO @ Fri, 15 Feb 2019 09:27:40: #1 tag size = 66 INFO @ Fri, 15 Feb 2019 09:27:40: #1 total tags in treatment: 5067579 INFO @ Fri, 15 Feb 2019 09:27:40: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:27:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 09:27:40: 5000000 INFO @ Fri, 15 Feb 2019 09:27:40: 5000000 INFO @ Fri, 15 Feb 2019 09:27:40: #1 tags after filtering in treatment: 5067579 INFO @ Fri, 15 Feb 2019 09:27:40: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:27:40: #1 finished! INFO @ Fri, 15 Feb 2019 09:27:40: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:27:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:27:40: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 09:27:40: 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 @ Fri, 15 Feb 2019 09:27:40: Process for pairing-model is terminated! cat: ERX2558643.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX2558643.20_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 `ERX2558643.20_*.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 `ERX2558643.20_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 @ Fri, 15 Feb 2019 09:27:41: #1 tag size is determined as 66 bps INFO @ Fri, 15 Feb 2019 09:27:41: #1 tag size = 66 INFO @ Fri, 15 Feb 2019 09:27:41: #1 total tags in treatment: 5067579 INFO @ Fri, 15 Feb 2019 09:27:41: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:27:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 09:27:41: #1 tag size is determined as 66 bps INFO @ Fri, 15 Feb 2019 09:27:41: #1 tag size = 66 INFO @ Fri, 15 Feb 2019 09:27:41: #1 total tags in treatment: 5067579 INFO @ Fri, 15 Feb 2019 09:27:41: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:27:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 09:27:41: #1 tags after filtering in treatment: 5067579 INFO @ Fri, 15 Feb 2019 09:27:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:27:41: #1 finished! INFO @ Fri, 15 Feb 2019 09:27:41: #1 tags after filtering in treatment: 5067579 INFO @ Fri, 15 Feb 2019 09:27:41: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:27:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:27:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:27:41: #1 finished! INFO @ Fri, 15 Feb 2019 09:27:41: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:27:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:27:41: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 09:27:41: 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 @ Fri, 15 Feb 2019 09:27:41: Process for pairing-model is terminated! INFO @ Fri, 15 Feb 2019 09:27:41: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 09:27:41: 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 @ Fri, 15 Feb 2019 09:27:41: Process for pairing-model is terminated! cat: ERX2558643.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: ERX2558643.05_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): 7 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 5 millis rm: cannot remove `ERX2558643.10_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 `ERX2558643.10_*.xls': そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX2558643.10_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 rm: cannot remove `ERX2558643.05_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 `ERX2558643.05_*.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 `ERX2558643.05_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。