Job ID = 10453719 sra ファイルのダウンロード中... Completed: 738449K bytes transferred in 9 seconds (622397K 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... Written 16733400 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3560268/SRR6470385.sra Written 16733400 spots total 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: 00:06:49 16733400 reads; of these: 16733400 (100.00%) were unpaired; of these: 840987 (5.03%) aligned 0 times 14296436 (85.44%) aligned exactly 1 time 1595977 (9.54%) aligned >1 times 94.97% overall alignment rate Time searching: 00:06:49 Overall time: 00:06:49 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] 6198686 / 15892413 = 0.3900 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 @ Thu, 08 Feb 2018 18:20:37: # Command line: callpeak -t SRX3560268.bam -f BAM -g 12100000 -n SRX3560268.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3560268.20 # format = BAM # ChIP-seq file = ['SRX3560268.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 @ Thu, 08 Feb 2018 18:20:37: # Command line: callpeak -t SRX3560268.bam -f BAM -g 12100000 -n SRX3560268.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3560268.05 # format = BAM # ChIP-seq file = ['SRX3560268.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 @ Thu, 08 Feb 2018 18:20:37: # Command line: callpeak -t SRX3560268.bam -f BAM -g 12100000 -n SRX3560268.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3560268.10 # format = BAM # ChIP-seq file = ['SRX3560268.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 @ Thu, 08 Feb 2018 18:20:37: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:20:37: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:20:37: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:20:37: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:20:37: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:20:37: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:20:44: 1000000 INFO @ Thu, 08 Feb 2018 18:20:45: 1000000 INFO @ Thu, 08 Feb 2018 18:20:45: 1000000 INFO @ Thu, 08 Feb 2018 18:20:52: 2000000 INFO @ Thu, 08 Feb 2018 18:20:53: 2000000 INFO @ Thu, 08 Feb 2018 18:20:54: 2000000 INFO @ Thu, 08 Feb 2018 18:21:00: 3000000 INFO @ Thu, 08 Feb 2018 18:21:02: 3000000 INFO @ Thu, 08 Feb 2018 18:21:03: 3000000 INFO @ Thu, 08 Feb 2018 18:21:08: 4000000 INFO @ Thu, 08 Feb 2018 18:21:10: 4000000 INFO @ Thu, 08 Feb 2018 18:21:12: 4000000 INFO @ Thu, 08 Feb 2018 18:21:15: 5000000 INFO @ Thu, 08 Feb 2018 18:21:19: 5000000 INFO @ Thu, 08 Feb 2018 18:21:22: 5000000 INFO @ Thu, 08 Feb 2018 18:21:23: 6000000 INFO @ Thu, 08 Feb 2018 18:21:28: 6000000 INFO @ Thu, 08 Feb 2018 18:21:31: 7000000 INFO @ Thu, 08 Feb 2018 18:21:31: 6000000 INFO @ Thu, 08 Feb 2018 18:21:36: 7000000 INFO @ Thu, 08 Feb 2018 18:21:38: 8000000 INFO @ Thu, 08 Feb 2018 18:21:40: 7000000 INFO @ Thu, 08 Feb 2018 18:21:45: 8000000 INFO @ Thu, 08 Feb 2018 18:21:46: 9000000 INFO @ Thu, 08 Feb 2018 18:21:49: 8000000 INFO @ Thu, 08 Feb 2018 18:21:51: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:21:51: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:21:51: #1 total tags in treatment: 9693727 INFO @ Thu, 08 Feb 2018 18:21:51: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:21:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:21:52: #1 tags after filtering in treatment: 9693727 INFO @ Thu, 08 Feb 2018 18:21:52: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:21:52: #1 finished! INFO @ Thu, 08 Feb 2018 18:21:52: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:21:52: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:21:52: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:21:52: 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 @ Thu, 08 Feb 2018 18:21:52: Process for pairing-model is terminated! cat: SRX3560268.20_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 `SRX3560268.20_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 `SRX3560268.20_*.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 `SRX3560268.20_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 @ Thu, 08 Feb 2018 18:21:53: 9000000 INFO @ Thu, 08 Feb 2018 18:21:59: 9000000 INFO @ Thu, 08 Feb 2018 18:21:59: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:21:59: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:21:59: #1 total tags in treatment: 9693727 INFO @ Thu, 08 Feb 2018 18:21:59: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:21:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:21:59: #1 tags after filtering in treatment: 9693727 INFO @ Thu, 08 Feb 2018 18:21:59: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:21:59: #1 finished! INFO @ Thu, 08 Feb 2018 18:21:59: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:21:59: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:22:00: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:22:00: 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 @ Thu, 08 Feb 2018 18:22:00: Process for pairing-model is terminated! cat: SRX3560268.10_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 `SRX3560268.10_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 `SRX3560268.10_*.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 `SRX3560268.10_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 @ Thu, 08 Feb 2018 18:22:04: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:22:04: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:22:04: #1 total tags in treatment: 9693727 INFO @ Thu, 08 Feb 2018 18:22:04: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:22:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:22:04: #1 tags after filtering in treatment: 9693727 INFO @ Thu, 08 Feb 2018 18:22:04: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:22:04: #1 finished! INFO @ Thu, 08 Feb 2018 18:22:04: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:22:04: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:22:05: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:22:05: 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 @ Thu, 08 Feb 2018 18:22:05: Process for pairing-model is terminated! cat: SRX3560268.05_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 `SRX3560268.05_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 `SRX3560268.05_*.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 `SRX3560268.05_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。