Job ID = 10045049 sra ファイルのダウンロード中... Completed: 103627K bytes transferred in 7 seconds (106857K bits/sec), in 1 file, 2 directories. 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... Written 6003061 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2766935/SRR5483582.sra Written 6003061 spots total 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: 00:01:00 6003061 reads; of these: 6003061 (100.00%) were unpaired; of these: 231252 (3.85%) aligned 0 times 5526773 (92.07%) aligned exactly 1 time 245036 (4.08%) aligned >1 times 96.15% overall alignment rate Time searching: 00:01:00 Overall time: 00:01:00 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] 1736488 / 5771809 = 0.3009 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, 02 Oct 2017 14:39:35: # Command line: callpeak -t SRX2766935.bam -f BAM -g 12100000 -n SRX2766935.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2766935.05 # format = BAM # ChIP-seq file = ['SRX2766935.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, 02 Oct 2017 14:39:35: # Command line: callpeak -t SRX2766935.bam -f BAM -g 12100000 -n SRX2766935.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2766935.20 # format = BAM # ChIP-seq file = ['SRX2766935.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, 02 Oct 2017 14:39:35: #1 read tag files... INFO @ Mon, 02 Oct 2017 14:39:35: #1 read tag files... INFO @ Mon, 02 Oct 2017 14:39:35: #1 read treatment tags... INFO @ Mon, 02 Oct 2017 14:39:35: #1 read treatment tags... INFO @ Mon, 02 Oct 2017 14:39:35: # Command line: callpeak -t SRX2766935.bam -f BAM -g 12100000 -n SRX2766935.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2766935.10 # format = BAM # ChIP-seq file = ['SRX2766935.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, 02 Oct 2017 14:39:35: #1 read tag files... INFO @ Mon, 02 Oct 2017 14:39:35: #1 read treatment tags... INFO @ Mon, 02 Oct 2017 14:39:41: 1000000 INFO @ Mon, 02 Oct 2017 14:39:41: 1000000 INFO @ Mon, 02 Oct 2017 14:39:41: 1000000 INFO @ Mon, 02 Oct 2017 14:39:47: 2000000 INFO @ Mon, 02 Oct 2017 14:39:47: 2000000 INFO @ Mon, 02 Oct 2017 14:39:47: 2000000 INFO @ Mon, 02 Oct 2017 14:39:52: 3000000 INFO @ Mon, 02 Oct 2017 14:39:53: 3000000 INFO @ Mon, 02 Oct 2017 14:39:53: 3000000 INFO @ Mon, 02 Oct 2017 14:39:58: 4000000 INFO @ Mon, 02 Oct 2017 14:39:58: #1 tag size is determined as 51 bps INFO @ Mon, 02 Oct 2017 14:39:58: #1 tag size = 51 INFO @ Mon, 02 Oct 2017 14:39:58: #1 total tags in treatment: 4035321 INFO @ Mon, 02 Oct 2017 14:39:58: #1 user defined the maximum tags... INFO @ Mon, 02 Oct 2017 14:39:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 02 Oct 2017 14:39:58: #1 tags after filtering in treatment: 4035321 INFO @ Mon, 02 Oct 2017 14:39:58: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 02 Oct 2017 14:39:58: #1 finished! INFO @ Mon, 02 Oct 2017 14:39:58: #2 Build Peak Model... INFO @ Mon, 02 Oct 2017 14:39:58: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 02 Oct 2017 14:39:58: 4000000 INFO @ Mon, 02 Oct 2017 14:39:58: #2 number of paired peaks: 3 WARNING @ Mon, 02 Oct 2017 14:39:58: Too few paired peaks (3) 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, 02 Oct 2017 14:39:58: Process for pairing-model is terminated! cat: SRX2766935.05_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 `SRX2766935.05_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 `SRX2766935.05_*.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 `SRX2766935.05_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, 02 Oct 2017 14:39:59: #1 tag size is determined as 51 bps INFO @ Mon, 02 Oct 2017 14:39:59: #1 tag size = 51 INFO @ Mon, 02 Oct 2017 14:39:59: #1 total tags in treatment: 4035321 INFO @ Mon, 02 Oct 2017 14:39:59: #1 user defined the maximum tags... INFO @ Mon, 02 Oct 2017 14:39:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 02 Oct 2017 14:39:59: #1 tags after filtering in treatment: 4035321 INFO @ Mon, 02 Oct 2017 14:39:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 02 Oct 2017 14:39:59: #1 finished! INFO @ Mon, 02 Oct 2017 14:39:59: #2 Build Peak Model... INFO @ Mon, 02 Oct 2017 14:39:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 02 Oct 2017 14:39:59: 4000000 INFO @ Mon, 02 Oct 2017 14:39:59: #2 number of paired peaks: 3 WARNING @ Mon, 02 Oct 2017 14:39:59: Too few paired peaks (3) 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, 02 Oct 2017 14:39:59: Process for pairing-model is terminated! cat: SRX2766935.20_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 `SRX2766935.20_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 `SRX2766935.20_*.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 `SRX2766935.20_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, 02 Oct 2017 14:39:59: #1 tag size is determined as 51 bps INFO @ Mon, 02 Oct 2017 14:39:59: #1 tag size = 51 INFO @ Mon, 02 Oct 2017 14:39:59: #1 total tags in treatment: 4035321 INFO @ Mon, 02 Oct 2017 14:39:59: #1 user defined the maximum tags... INFO @ Mon, 02 Oct 2017 14:39:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 02 Oct 2017 14:39:59: #1 tags after filtering in treatment: 4035321 INFO @ Mon, 02 Oct 2017 14:39:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 02 Oct 2017 14:39:59: #1 finished! INFO @ Mon, 02 Oct 2017 14:39:59: #2 Build Peak Model... INFO @ Mon, 02 Oct 2017 14:39:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 02 Oct 2017 14:39:59: #2 number of paired peaks: 3 WARNING @ Mon, 02 Oct 2017 14:39:59: Too few paired peaks (3) 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, 02 Oct 2017 14:39:59: Process for pairing-model is terminated! cat: SRX2766935.10_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 `SRX2766935.10_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 `SRX2766935.10_*.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 `SRX2766935.10_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。