Job ID = 11296934 sra ファイルのダウンロード中... Completed: 348866K bytes transferred in 6 seconds (421484K 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 17078977 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3856349/SRR6908166.sra Written 17078977 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3856349/SRR6908166.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: 00:02:48 17078977 reads; of these: 17078977 (100.00%) were unpaired; of these: 1779537 (10.42%) aligned 0 times 12504099 (73.21%) aligned exactly 1 time 2795341 (16.37%) aligned >1 times 89.58% overall alignment rate Time searching: 00:02:48 Overall time: 00:02:48 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] 5437926 / 15299440 = 0.3554 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 18:04:51: # Command line: callpeak -t SRX3856349.bam -f BAM -g 12100000 -n SRX3856349.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3856349.05 # format = BAM # ChIP-seq file = ['SRX3856349.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 18:04:51: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:04:51: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:04:51: # Command line: callpeak -t SRX3856349.bam -f BAM -g 12100000 -n SRX3856349.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3856349.10 # format = BAM # ChIP-seq file = ['SRX3856349.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 18:04:51: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:04:51: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:04:51: # Command line: callpeak -t SRX3856349.bam -f BAM -g 12100000 -n SRX3856349.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3856349.20 # format = BAM # ChIP-seq file = ['SRX3856349.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 18:04:51: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:04:51: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:04:59: 1000000 INFO @ Mon, 05 Nov 2018 18:04:59: 1000000 INFO @ Mon, 05 Nov 2018 18:04:59: 1000000 INFO @ Mon, 05 Nov 2018 18:05:05: 2000000 INFO @ Mon, 05 Nov 2018 18:05:05: 2000000 INFO @ Mon, 05 Nov 2018 18:05:05: 2000000 INFO @ Mon, 05 Nov 2018 18:05:12: 3000000 INFO @ Mon, 05 Nov 2018 18:05:12: 3000000 INFO @ Mon, 05 Nov 2018 18:05:13: 3000000 INFO @ Mon, 05 Nov 2018 18:05:20: 4000000 INFO @ Mon, 05 Nov 2018 18:05:20: 4000000 INFO @ Mon, 05 Nov 2018 18:05:21: 4000000 INFO @ Mon, 05 Nov 2018 18:05:28: 5000000 INFO @ Mon, 05 Nov 2018 18:05:29: 5000000 INFO @ Mon, 05 Nov 2018 18:05:29: 5000000 INFO @ Mon, 05 Nov 2018 18:05:36: 6000000 INFO @ Mon, 05 Nov 2018 18:05:37: 6000000 INFO @ Mon, 05 Nov 2018 18:05:37: 6000000 INFO @ Mon, 05 Nov 2018 18:05:43: 7000000 INFO @ Mon, 05 Nov 2018 18:05:45: 7000000 INFO @ Mon, 05 Nov 2018 18:05:45: 7000000 INFO @ Mon, 05 Nov 2018 18:05:51: 8000000 INFO @ Mon, 05 Nov 2018 18:05:52: 8000000 INFO @ Mon, 05 Nov 2018 18:05:52: 8000000 INFO @ Mon, 05 Nov 2018 18:05:58: 9000000 INFO @ Mon, 05 Nov 2018 18:05:59: 9000000 INFO @ Mon, 05 Nov 2018 18:06:00: 9000000 INFO @ Mon, 05 Nov 2018 18:06:04: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 18:06:04: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 18:06:04: #1 total tags in treatment: 9861514 INFO @ Mon, 05 Nov 2018 18:06:04: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:06:04: #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 18:06:04: #1 tags after filtering in treatment: 9861514 INFO @ Mon, 05 Nov 2018 18:06:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:06:04: #1 finished! INFO @ Mon, 05 Nov 2018 18:06:04: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:06:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:06:05: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:06:05: 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 18:06:05: Process for pairing-model is terminated! cat: SRX3856349.20_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 `SRX3856349.20_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 `SRX3856349.20_*.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 `SRX3856349.20_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 18:06:06: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 18:06:06: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 18:06:06: #1 total tags in treatment: 9861514 INFO @ Mon, 05 Nov 2018 18:06:06: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:06:06: #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 18:06:06: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 18:06:06: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 18:06:06: #1 total tags in treatment: 9861514 INFO @ Mon, 05 Nov 2018 18:06:06: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:06:06: #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 18:06:06: #1 tags after filtering in treatment: 9861514 INFO @ Mon, 05 Nov 2018 18:06:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:06:06: #1 finished! INFO @ Mon, 05 Nov 2018 18:06:06: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:06:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:06:06: #1 tags after filtering in treatment: 9861514 INFO @ Mon, 05 Nov 2018 18:06:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:06:06: #1 finished! INFO @ Mon, 05 Nov 2018 18:06:06: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:06:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:06:06: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:06:06: 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 18:06:06: Process for pairing-model is terminated! cat: SRX3856349.05_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 `SRX3856349.05_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 `SRX3856349.05_*.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 `SRX3856349.05_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 18:06:06: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:06:06: 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 18:06:06: Process for pairing-model is terminated! cat: SRX3856349.10_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 `SRX3856349.10_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 `SRX3856349.10_*.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 `SRX3856349.10_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。