Job ID = 11244883 sra ファイルのダウンロード中... Completed: 793875K bytes transferred in 10 seconds (608276K 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 43250524 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4003434/SRR7072986.sra Written 43250524 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4003434/SRR7072986.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: 00:07:10 43250524 reads; of these: 43250524 (100.00%) were unpaired; of these: 868211 (2.01%) aligned 0 times 30116844 (69.63%) aligned exactly 1 time 12265469 (28.36%) aligned >1 times 97.99% overall alignment rate Time searching: 00:07:10 Overall time: 00:07:10 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 20 files... [bam_rmdupse_core] 26819433 / 42382313 = 0.6328 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 22:50:35: # Command line: callpeak -t SRX4003434.bam -f BAM -g 12100000 -n SRX4003434.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4003434.10 # format = BAM # ChIP-seq file = ['SRX4003434.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 22:50:35: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:50:35: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:50:35: # Command line: callpeak -t SRX4003434.bam -f BAM -g 12100000 -n SRX4003434.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4003434.20 # format = BAM # ChIP-seq file = ['SRX4003434.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 22:50:35: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:50:35: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:50:35: # Command line: callpeak -t SRX4003434.bam -f BAM -g 12100000 -n SRX4003434.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4003434.05 # format = BAM # ChIP-seq file = ['SRX4003434.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 22:50:35: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:50:35: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:50:42: 1000000 INFO @ Tue, 09 Oct 2018 22:50:42: 1000000 INFO @ Tue, 09 Oct 2018 22:50:42: 1000000 INFO @ Tue, 09 Oct 2018 22:50:50: 2000000 INFO @ Tue, 09 Oct 2018 22:50:50: 2000000 INFO @ Tue, 09 Oct 2018 22:50:50: 2000000 INFO @ Tue, 09 Oct 2018 22:50:57: 3000000 INFO @ Tue, 09 Oct 2018 22:50:58: 3000000 INFO @ Tue, 09 Oct 2018 22:50:58: 3000000 INFO @ Tue, 09 Oct 2018 22:51:04: 4000000 INFO @ Tue, 09 Oct 2018 22:51:06: 4000000 INFO @ Tue, 09 Oct 2018 22:51:06: 4000000 INFO @ Tue, 09 Oct 2018 22:51:11: 5000000 INFO @ Tue, 09 Oct 2018 22:51:13: 5000000 INFO @ Tue, 09 Oct 2018 22:51:13: 5000000 INFO @ Tue, 09 Oct 2018 22:51:18: 6000000 INFO @ Tue, 09 Oct 2018 22:51:21: 6000000 INFO @ Tue, 09 Oct 2018 22:51:21: 6000000 INFO @ Tue, 09 Oct 2018 22:51:25: 7000000 INFO @ Tue, 09 Oct 2018 22:51:29: 7000000 INFO @ Tue, 09 Oct 2018 22:51:29: 7000000 INFO @ Tue, 09 Oct 2018 22:51:33: 8000000 INFO @ Tue, 09 Oct 2018 22:51:37: 8000000 INFO @ Tue, 09 Oct 2018 22:51:37: 8000000 INFO @ Tue, 09 Oct 2018 22:51:40: 9000000 INFO @ Tue, 09 Oct 2018 22:51:44: 9000000 INFO @ Tue, 09 Oct 2018 22:51:44: 9000000 INFO @ Tue, 09 Oct 2018 22:51:47: 10000000 INFO @ Tue, 09 Oct 2018 22:51:52: 10000000 INFO @ Tue, 09 Oct 2018 22:51:52: 10000000 INFO @ Tue, 09 Oct 2018 22:51:55: 11000000 INFO @ Tue, 09 Oct 2018 22:52:00: 11000000 INFO @ Tue, 09 Oct 2018 22:52:00: 11000000 INFO @ Tue, 09 Oct 2018 22:52:02: 12000000 INFO @ Tue, 09 Oct 2018 22:52:08: 12000000 INFO @ Tue, 09 Oct 2018 22:52:08: 12000000 INFO @ Tue, 09 Oct 2018 22:52:09: 13000000 INFO @ Tue, 09 Oct 2018 22:52:15: 13000000 INFO @ Tue, 09 Oct 2018 22:52:15: 13000000 INFO @ Tue, 09 Oct 2018 22:52:17: 14000000 INFO @ Tue, 09 Oct 2018 22:52:23: 14000000 INFO @ Tue, 09 Oct 2018 22:52:23: 14000000 INFO @ Tue, 09 Oct 2018 22:52:24: 15000000 INFO @ Tue, 09 Oct 2018 22:52:28: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:52:28: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:52:28: #1 total tags in treatment: 15562880 INFO @ Tue, 09 Oct 2018 22:52:28: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:52:28: #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 22:52:29: #1 tags after filtering in treatment: 15562880 INFO @ Tue, 09 Oct 2018 22:52:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:52:29: #1 finished! INFO @ Tue, 09 Oct 2018 22:52:29: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:52:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:52:30: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:52:30: 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 22:52:30: Process for pairing-model is terminated! cat: SRX4003434.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4003434.05_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 `SRX4003434.05_*.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 `SRX4003434.05_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 22:52:31: 15000000 INFO @ Tue, 09 Oct 2018 22:52:31: 15000000 INFO @ Tue, 09 Oct 2018 22:52:35: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:52:35: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:52:35: #1 total tags in treatment: 15562880 INFO @ Tue, 09 Oct 2018 22:52:35: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:52:35: #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 22:52:35: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:52:35: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:52:35: #1 total tags in treatment: 15562880 INFO @ Tue, 09 Oct 2018 22:52:35: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:52:35: #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 22:52:36: #1 tags after filtering in treatment: 15562880 INFO @ Tue, 09 Oct 2018 22:52:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:52:36: #1 finished! INFO @ Tue, 09 Oct 2018 22:52:36: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:52:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:52:36: #1 tags after filtering in treatment: 15562880 INFO @ Tue, 09 Oct 2018 22:52:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:52:36: #1 finished! INFO @ Tue, 09 Oct 2018 22:52:36: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:52:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:52:36: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:52:36: 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 22:52:36: Process for pairing-model is terminated! cat: SRX4003434.20_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 `SRX4003434.20_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 `SRX4003434.20_*.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 `SRX4003434.20_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 @ Tue, 09 Oct 2018 22:52:37: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:52:37: 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 22:52:37: Process for pairing-model is terminated! cat: SRX4003434.10_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 `SRX4003434.10_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 `SRX4003434.10_*.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 `SRX4003434.10_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。