Job ID = 11633773 sra ファイルのダウンロード中... Completed: 112046K bytes transferred in 4 seconds (185948K 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 3536172 spots for /home/okishinya/chipatlas/results/sacCer3/ERX1420392/ERR1348868.sra Written 3536172 spots for /home/okishinya/chipatlas/results/sacCer3/ERX1420392/ERR1348868.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: 00:00:26 3536172 reads; of these: 3536172 (100.00%) were unpaired; of these: 2265359 (64.06%) aligned 0 times 1145253 (32.39%) aligned exactly 1 time 125560 (3.55%) aligned >1 times 35.94% overall alignment rate Time searching: 00:00:26 Overall time: 00:00:26 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] 184411 / 1270813 = 0.1451 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 09:12:20: # Command line: callpeak -t ERX1420392.bam -f BAM -g 12100000 -n ERX1420392.10 -q 1e-10 # ARGUMENTS LIST: # name = ERX1420392.10 # format = BAM # ChIP-seq file = ['ERX1420392.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 09:12:20: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:12:20: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:12:20: # Command line: callpeak -t ERX1420392.bam -f BAM -g 12100000 -n ERX1420392.05 -q 1e-05 # ARGUMENTS LIST: # name = ERX1420392.05 # format = BAM # ChIP-seq file = ['ERX1420392.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 09:12:20: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:12:20: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:12:20: # Command line: callpeak -t ERX1420392.bam -f BAM -g 12100000 -n ERX1420392.20 -q 1e-20 # ARGUMENTS LIST: # name = ERX1420392.20 # format = BAM # ChIP-seq file = ['ERX1420392.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 09:12:20: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:12:20: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:12:27: 1000000 INFO @ Fri, 15 Feb 2019 09:12:27: 1000000 INFO @ Fri, 15 Feb 2019 09:12:27: 1000000 INFO @ Fri, 15 Feb 2019 09:12:27: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 09:12:27: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 09:12:27: #1 total tags in treatment: 1086402 INFO @ Fri, 15 Feb 2019 09:12:27: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:12:27: #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 09:12:27: #1 tags after filtering in treatment: 1086402 INFO @ Fri, 15 Feb 2019 09:12:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:12:27: #1 finished! INFO @ Fri, 15 Feb 2019 09:12:27: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:12:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:12:27: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 09:12:27: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 09:12:27: #1 total tags in treatment: 1086402 INFO @ Fri, 15 Feb 2019 09:12:27: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:12:27: #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 09:12:27: #1 tags after filtering in treatment: 1086402 INFO @ Fri, 15 Feb 2019 09:12:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:12:27: #1 finished! INFO @ Fri, 15 Feb 2019 09:12:27: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:12:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:12:27: #2 number of paired peaks: 34 WARNING @ Fri, 15 Feb 2019 09:12:27: Too few paired peaks (34) 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 09:12:27: Process for pairing-model is terminated! cat: ERX1420392.20_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 @ Fri, 15 Feb 2019 09:12:27: #2 number of paired peaks: 34 WARNING @ Fri, 15 Feb 2019 09:12:27: Too few paired peaks (34) 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 09:12:27: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) cat: ERX1420392.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません rm: cannot remove `ERX1420392.20_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 `ERX1420392.20_*.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 `ERX1420392.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1420392.10_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 `ERX1420392.10_*.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 `ERX1420392.10_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 @ Fri, 15 Feb 2019 09:12:27: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 09:12:27: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 09:12:27: #1 total tags in treatment: 1086402 INFO @ Fri, 15 Feb 2019 09:12:27: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:12:27: #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 09:12:27: #1 tags after filtering in treatment: 1086402 INFO @ Fri, 15 Feb 2019 09:12:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:12:27: #1 finished! INFO @ Fri, 15 Feb 2019 09:12:27: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:12:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:12:28: #2 number of paired peaks: 34 WARNING @ Fri, 15 Feb 2019 09:12:28: Too few paired peaks (34) 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 09:12:28: Process for pairing-model is terminated! cat: ERX1420392.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1420392.05_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 `ERX1420392.05_*.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 `ERX1420392.05_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。