Job ID = 11244853 sra ファイルのダウンロード中... Completed: 283331K bytes transferred in 5 seconds (393967K 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 11169141 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3732409/SRR6759920.sra Written 11169141 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3732409/SRR6759920.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:53 11169141 reads; of these: 11169141 (100.00%) were unpaired; of these: 496174 (4.44%) aligned 0 times 7930974 (71.01%) aligned exactly 1 time 2741993 (24.55%) aligned >1 times 95.56% overall alignment rate Time searching: 00:01:54 Overall time: 00:01:54 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] 4596230 / 10672967 = 0.4306 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 22:10:49: # Command line: callpeak -t SRX3732409.bam -f BAM -g 12100000 -n SRX3732409.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3732409.20 # format = BAM # ChIP-seq file = ['SRX3732409.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 22:10:49: # Command line: callpeak -t SRX3732409.bam -f BAM -g 12100000 -n SRX3732409.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3732409.05 # format = BAM # ChIP-seq file = ['SRX3732409.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 22:10:49: # Command line: callpeak -t SRX3732409.bam -f BAM -g 12100000 -n SRX3732409.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3732409.10 # format = BAM # ChIP-seq file = ['SRX3732409.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 22:10:49: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:10:49: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:10:49: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:10:49: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:10:49: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:10:49: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:10:56: 1000000 INFO @ Tue, 09 Oct 2018 22:10:56: 1000000 INFO @ Tue, 09 Oct 2018 22:10:56: 1000000 INFO @ Tue, 09 Oct 2018 22:11:02: 2000000 INFO @ Tue, 09 Oct 2018 22:11:04: 2000000 INFO @ Tue, 09 Oct 2018 22:11:04: 2000000 INFO @ Tue, 09 Oct 2018 22:11:09: 3000000 INFO @ Tue, 09 Oct 2018 22:11:11: 3000000 INFO @ Tue, 09 Oct 2018 22:11:11: 3000000 INFO @ Tue, 09 Oct 2018 22:11:15: 4000000 INFO @ Tue, 09 Oct 2018 22:11:18: 4000000 INFO @ Tue, 09 Oct 2018 22:11:18: 4000000 INFO @ Tue, 09 Oct 2018 22:11:22: 5000000 INFO @ Tue, 09 Oct 2018 22:11:26: 5000000 INFO @ Tue, 09 Oct 2018 22:11:26: 5000000 INFO @ Tue, 09 Oct 2018 22:11:28: 6000000 INFO @ Tue, 09 Oct 2018 22:11:29: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 22:11:29: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 22:11:29: #1 total tags in treatment: 6076737 INFO @ Tue, 09 Oct 2018 22:11:29: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:11:29: #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 22:11:29: #1 tags after filtering in treatment: 6076737 INFO @ Tue, 09 Oct 2018 22:11:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:11:29: #1 finished! INFO @ Tue, 09 Oct 2018 22:11:29: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:11:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:11:29: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:11:29: 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 22:11:29: Process for pairing-model is terminated! cat: SRX3732409.20_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 `SRX3732409.20_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 `SRX3732409.20_*.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 `SRX3732409.20_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 22:11:33: 6000000 INFO @ Tue, 09 Oct 2018 22:11:33: 6000000 INFO @ Tue, 09 Oct 2018 22:11:33: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 22:11:33: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 22:11:33: #1 total tags in treatment: 6076737 INFO @ Tue, 09 Oct 2018 22:11:33: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:11:33: #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 22:11:33: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 22:11:33: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 22:11:33: #1 total tags in treatment: 6076737 INFO @ Tue, 09 Oct 2018 22:11:33: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:11:33: #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 22:11:33: #1 tags after filtering in treatment: 6076737 INFO @ Tue, 09 Oct 2018 22:11:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:11:33: #1 finished! INFO @ Tue, 09 Oct 2018 22:11:33: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:11:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:11:33: #1 tags after filtering in treatment: 6076737 INFO @ Tue, 09 Oct 2018 22:11:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:11:33: #1 finished! INFO @ Tue, 09 Oct 2018 22:11:33: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:11:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:11:34: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:11:34: 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 22:11:34: Process for pairing-model is terminated! cat: SRX3732409.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3732409.10_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 `SRX3732409.10_*.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 `SRX3732409.10_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 @ Tue, 09 Oct 2018 22:11:34: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:11:34: 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 22:11:34: Process for pairing-model is terminated! cat: SRX3732409.05_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 `SRX3732409.05_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 `SRX3732409.05_*.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 `SRX3732409.05_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。