Job ID = 11634677 sra ファイルのダウンロード中... Completed: 214881K bytes transferred in 5 seconds (324360K 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 10278544 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4092957/SRR7175385.sra Written 10278544 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4092957/SRR7175385.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: 00:01:29 10278544 reads; of these: 10278544 (100.00%) were unpaired; of these: 2105193 (20.48%) aligned 0 times 5997925 (58.35%) aligned exactly 1 time 2175426 (21.16%) aligned >1 times 79.52% overall alignment rate Time searching: 00:01:29 Overall time: 00:01:29 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] 3299970 / 8173351 = 0.4037 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 @ Fri, 15 Feb 2019 10:27:13: # Command line: callpeak -t SRX4092957.bam -f BAM -g 12100000 -n SRX4092957.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4092957.20 # format = BAM # ChIP-seq file = ['SRX4092957.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 @ Fri, 15 Feb 2019 10:27:13: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:27:13: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:27:13: # Command line: callpeak -t SRX4092957.bam -f BAM -g 12100000 -n SRX4092957.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4092957.05 # format = BAM # ChIP-seq file = ['SRX4092957.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 @ Fri, 15 Feb 2019 10:27:13: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:27:13: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:27:13: # Command line: callpeak -t SRX4092957.bam -f BAM -g 12100000 -n SRX4092957.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4092957.10 # format = BAM # ChIP-seq file = ['SRX4092957.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 @ Fri, 15 Feb 2019 10:27:13: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:27:13: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:27:20: 1000000 INFO @ Fri, 15 Feb 2019 10:27:20: 1000000 INFO @ Fri, 15 Feb 2019 10:27:20: 1000000 INFO @ Fri, 15 Feb 2019 10:27:26: 2000000 INFO @ Fri, 15 Feb 2019 10:27:27: 2000000 INFO @ Fri, 15 Feb 2019 10:27:27: 2000000 INFO @ Fri, 15 Feb 2019 10:27:33: 3000000 INFO @ Fri, 15 Feb 2019 10:27:34: 3000000 INFO @ Fri, 15 Feb 2019 10:27:34: 3000000 INFO @ Fri, 15 Feb 2019 10:27:40: 4000000 INFO @ Fri, 15 Feb 2019 10:27:42: 4000000 INFO @ Fri, 15 Feb 2019 10:27:42: 4000000 INFO @ Fri, 15 Feb 2019 10:27:45: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:27:45: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:27:45: #1 total tags in treatment: 4873381 INFO @ Fri, 15 Feb 2019 10:27:45: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:27:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:27:46: #1 tags after filtering in treatment: 4873381 INFO @ Fri, 15 Feb 2019 10:27:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:27:46: #1 finished! INFO @ Fri, 15 Feb 2019 10:27:46: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:27:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:27:46: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:27:46: 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 @ Fri, 15 Feb 2019 10:27:46: Process for pairing-model is terminated! cat: SRX4092957.10_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4092957.10_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 `SRX4092957.10_*.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 `SRX4092957.10_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 @ Fri, 15 Feb 2019 10:27:48: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:27:48: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:27:48: #1 total tags in treatment: 4873381 INFO @ Fri, 15 Feb 2019 10:27:48: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:27:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:27:48: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:27:48: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:27:48: #1 total tags in treatment: 4873381 INFO @ Fri, 15 Feb 2019 10:27:48: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:27:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:27:48: #1 tags after filtering in treatment: 4873381 INFO @ Fri, 15 Feb 2019 10:27:48: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:27:48: #1 finished! INFO @ Fri, 15 Feb 2019 10:27:48: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:27:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:27:48: #1 tags after filtering in treatment: 4873381 INFO @ Fri, 15 Feb 2019 10:27:48: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:27:48: #1 finished! INFO @ Fri, 15 Feb 2019 10:27:48: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:27:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:27:48: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:27:48: 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 @ Fri, 15 Feb 2019 10:27:48: Process for pairing-model is terminated! cat: SRX4092957.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Fri, 15 Feb 2019 10:27:48: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:27:48: 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 @ Fri, 15 Feb 2019 10:27:48: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 16 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4092957.05_model.r': そのようなファイルやディレクトリはありません cat: SRX4092957.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません rm: cannot remove `SRX4092957.05_*.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 `SRX4092957.05_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 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4092957.20_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 `SRX4092957.20_*.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 `SRX4092957.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。