Job ID = 11245113 sra ファイルのダウンロード中... Completed: 492419K bytes transferred in 7 seconds (521778K 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 27225393 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4668666/SRR7817168.sra Written 27225393 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4668666/SRR7817168.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: 00:04:31 27225393 reads; of these: 27225393 (100.00%) were unpaired; of these: 1812190 (6.66%) aligned 0 times 23443495 (86.11%) aligned exactly 1 time 1969708 (7.23%) aligned >1 times 93.34% overall alignment rate Time searching: 00:04:31 Overall time: 00:04:31 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] 13933427 / 25413203 = 0.5483 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 @ Tue, 09 Oct 2018 23:36:15: # Command line: callpeak -t SRX4668666.bam -f BAM -g 12100000 -n SRX4668666.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4668666.05 # format = BAM # ChIP-seq file = ['SRX4668666.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 @ Tue, 09 Oct 2018 23:36:15: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:36:15: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:36:15: # Command line: callpeak -t SRX4668666.bam -f BAM -g 12100000 -n SRX4668666.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4668666.10 # format = BAM # ChIP-seq file = ['SRX4668666.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 @ Tue, 09 Oct 2018 23:36:15: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:36:15: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:36:15: # Command line: callpeak -t SRX4668666.bam -f BAM -g 12100000 -n SRX4668666.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4668666.20 # format = BAM # ChIP-seq file = ['SRX4668666.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 @ Tue, 09 Oct 2018 23:36:15: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:36:15: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:36:23: 1000000 INFO @ Tue, 09 Oct 2018 23:36:23: 1000000 INFO @ Tue, 09 Oct 2018 23:36:23: 1000000 INFO @ Tue, 09 Oct 2018 23:36:30: 2000000 INFO @ Tue, 09 Oct 2018 23:36:30: 2000000 INFO @ Tue, 09 Oct 2018 23:36:30: 2000000 INFO @ Tue, 09 Oct 2018 23:36:38: 3000000 INFO @ Tue, 09 Oct 2018 23:36:38: 3000000 INFO @ Tue, 09 Oct 2018 23:36:38: 3000000 INFO @ Tue, 09 Oct 2018 23:36:46: 4000000 INFO @ Tue, 09 Oct 2018 23:36:46: 4000000 INFO @ Tue, 09 Oct 2018 23:36:46: 4000000 INFO @ Tue, 09 Oct 2018 23:36:53: 5000000 INFO @ Tue, 09 Oct 2018 23:36:53: 5000000 INFO @ Tue, 09 Oct 2018 23:36:53: 5000000 INFO @ Tue, 09 Oct 2018 23:37:00: 6000000 INFO @ Tue, 09 Oct 2018 23:37:01: 6000000 INFO @ Tue, 09 Oct 2018 23:37:01: 6000000 INFO @ Tue, 09 Oct 2018 23:37:08: 7000000 INFO @ Tue, 09 Oct 2018 23:37:08: 7000000 INFO @ Tue, 09 Oct 2018 23:37:08: 7000000 INFO @ Tue, 09 Oct 2018 23:37:15: 8000000 INFO @ Tue, 09 Oct 2018 23:37:16: 8000000 INFO @ Tue, 09 Oct 2018 23:37:16: 8000000 INFO @ Tue, 09 Oct 2018 23:37:23: 9000000 INFO @ Tue, 09 Oct 2018 23:37:24: 9000000 INFO @ Tue, 09 Oct 2018 23:37:24: 9000000 INFO @ Tue, 09 Oct 2018 23:37:31: 10000000 INFO @ Tue, 09 Oct 2018 23:37:31: 10000000 INFO @ Tue, 09 Oct 2018 23:37:31: 10000000 INFO @ Tue, 09 Oct 2018 23:37:38: 11000000 INFO @ Tue, 09 Oct 2018 23:37:39: 11000000 INFO @ Tue, 09 Oct 2018 23:37:39: 11000000 INFO @ Tue, 09 Oct 2018 23:37:41: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 23:37:41: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 23:37:41: #1 total tags in treatment: 11479776 INFO @ Tue, 09 Oct 2018 23:37:41: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:37:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:37:41: #1 tags after filtering in treatment: 11479776 INFO @ Tue, 09 Oct 2018 23:37:41: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:37:41: #1 finished! INFO @ Tue, 09 Oct 2018 23:37:41: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:37:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:37:42: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 23:37:42: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 23:37:42: #1 total tags in treatment: 11479776 INFO @ Tue, 09 Oct 2018 23:37:42: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:37:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:37:42: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 23:37:42: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 23:37:42: #1 total tags in treatment: 11479776 INFO @ Tue, 09 Oct 2018 23:37:42: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:37:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:37:42: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:37:42: 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 @ Tue, 09 Oct 2018 23:37:42: Process for pairing-model is terminated! cat: SRX4668666.05_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 `SRX4668666.05_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 `SRX4668666.05_*.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 `SRX4668666.05_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 @ Tue, 09 Oct 2018 23:37:42: #1 tags after filtering in treatment: 11479776 INFO @ Tue, 09 Oct 2018 23:37:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:37:42: #1 finished! INFO @ Tue, 09 Oct 2018 23:37:42: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:37:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:37:42: #1 tags after filtering in treatment: 11479776 INFO @ Tue, 09 Oct 2018 23:37:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 23:37:42: #1 finished! INFO @ Tue, 09 Oct 2018 23:37:42: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:37:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:37:43: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:37:43: 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 @ Tue, 09 Oct 2018 23:37:43: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:37:43: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:37:43: 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 @ Tue, 09 Oct 2018 23:37:43: Process for pairing-model is terminated! cat: SRX4668666.20_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)cat: SRX4668666.10_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 `SRX4668666.20_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 `SRX4668666.20_*.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 `SRX4668666.20_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 `SRX4668666.10_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 `SRX4668666.10_*.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 `SRX4668666.10_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。